https://launchpad.net/ubuntu/+source/rdkit/202309.3-3build1/+build/27864092 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux bos02-arm64-035 5.4.0-173-generic #191-Ubuntu SMP Fri Feb 2 13:54:37 UTC 2024 aarch64 Buildd toolchain package versions: launchpad-buildd_236~650~ubuntu20.04.1 python3-lpbuildd_236~650~ubuntu20.04.1 sbuild_0.79.0-1ubuntu1 git-build-recipe_0.3.6 git_1:2.25.1-1ubuntu3.11 dpkg-dev_1.19.7ubuntu3.2 python3-debian_0.1.36ubuntu1.1. Syncing the system clock with the buildd NTP service... 15 Mar 23:22:39 ntpdate[1857]: adjust time server 10.211.37.1 offset 0.000499 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=noble --arch=armhf PACKAGEBUILD-27864092 --image-type chroot /home/buildd/filecache-default/59612f0fc5bae33f6226b6e60c2e882b82c04bd0 Creating target for build PACKAGEBUILD-27864092 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=noble --arch=armhf PACKAGEBUILD-27864092 Starting target for build PACKAGEBUILD-27864092 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=noble --arch=armhf PACKAGEBUILD-27864092 'deb http://ftpmaster.internal/ubuntu noble main universe' 'deb http://ftpmaster.internal/ubuntu noble-security main universe' 'deb http://ftpmaster.internal/ubuntu noble-updates main universe' 'deb http://ftpmaster.internal/ubuntu noble-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-27864092 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=noble --arch=armhf PACKAGEBUILD-27864092 Updating target for build PACKAGEBUILD-27864092 Get:1 http://ftpmaster.internal/ubuntu noble InRelease [255 kB] Get:2 http://ftpmaster.internal/ubuntu noble-security InRelease [90.7 kB] Get:3 http://ftpmaster.internal/ubuntu noble-updates InRelease [90.7 kB] Get:4 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] Get:5 http://ftpmaster.internal/ubuntu noble/main armhf Packages [1348 kB] Get:6 http://ftpmaster.internal/ubuntu noble/main Translation-en [518 kB] Get:7 http://ftpmaster.internal/ubuntu noble/universe armhf Packages [14.4 MB] Get:8 http://ftpmaster.internal/ubuntu noble/universe Translation-en [6040 kB] Get:9 http://ftpmaster.internal/ubuntu noble-proposed/main armhf Packages [548 kB] Get:10 http://ftpmaster.internal/ubuntu noble-proposed/main Translation-en [223 kB] Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf Packages [2821 kB] Get:12 http://ftpmaster.internal/ubuntu noble-proposed/universe Translation-en [1454 kB] Fetched 27.9 MB in 12s (2377 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: binutils binutils-arm-linux-gnueabihf binutils-common cpp cpp-13 cpp-13-arm-linux-gnueabihf cpp-arm-linux-gnueabihf g++ g++-13 g++-13-arm-linux-gnueabihf g++-arm-linux-gnueabihf gcc gcc-13 gcc-13-arm-linux-gnueabihf gcc-arm-linux-gnueabihf libasan8 libatomic1 libbinutils libc-dev-bin libc6-dev libcc1-0 libcrypt-dev libctf-nobfd0 libctf0 libgcc-13-dev libgdbm-compat4 libgdbm6 libgomp1 libisl23 libjansson4 libmpc3 libmpfr6 libnsl-dev libsframe1 libstdc++-13-dev libtirpc-dev libubsan1 libunistring2 linux-libc-dev lto-disabled-list make patch perl-modules-5.36 rpcsvc-proto Use 'sudo apt autoremove' to remove them. The following packages will be REMOVED: build-essential* dpkg-dev* libapt-pkg6.0* libdb5.3* libdpkg-perl* libext2fs2* libgnutls30* libhogweed6* libnettle8* libnpth0* libperl5.36* libreadline8* libssl3* libtirpc3* perl* usrmerge* The following NEW packages will be installed: cpp-13-arm-linux-gnueabihf cpp-arm-linux-gnueabihf g++-13-arm-linux-gnueabihf g++-arm-linux-gnueabihf gcc-13-arm-linux-gnueabihf gcc-14-base gcc-arm-linux-gnueabihf libapt-pkg6.0t64 libdb5.3t64 libext2fs2t64 libgnutls30t64 libhogweed6t64 libnettle8t64 libnpth0t64 libreadline8t64 libssl3t64 libtirpc3t64 libunistring5 The following packages have been kept back: optipng The following packages will be upgraded: apt apt-utils base-files base-passwd bash bash-completion binutils binutils-arm-linux-gnueabihf binutils-common bsdextrautils bsdutils bzip2 ca-certificates coreutils cpp cpp-13 dash debconf debconf-i18n debianutils diffutils dpkg e2fsprogs fakeroot g++ g++-13 gcc gcc-13 gcc-13-base gpg gpg-agent gpgconf gpgv grep gzip hostname init init-system-helpers krb5-locales libacl1 libapparmor1 libargon2-1 libasan8 libatomic1 libattr1 libaudit-common libaudit1 libbinutils libblkid1 libbz2-1.0 libc-bin libc-dev-bin libc6 libc6-dev libcap-ng0 libcap2 libcc1-0 libcom-err2 libcrypt-dev libcrypt1 libcryptsetup12 libctf-nobfd0 libctf0 libdebconfclient0 libdevmapper1.02.1 libfakeroot libfdisk1 libffi8 libgcc-13-dev libgcc-s1 libgcrypt20 libgdbm-compat4 libgdbm6 libgomp1 libgpg-error-l10n libgpg-error0 libgssapi-krb5-2 libidn2-0 libip4tc2 libk5crypto3 libkeyutils1 libkmod2 libkrb5-3 libkrb5support0 liblocale-gettext-perl liblzma5 libmd0 libmount1 libncursesw6 libnsl-dev libnsl2 libnss-nisplus libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpcre2-8-0 libpng16-16 libproc2-0 libseccomp2 libselinux1 libsemanage-common libsemanage2 libsepol2 libsframe1 libsmartcols1 libsqlite3-0 libss2 libstdc++-13-dev libstdc++6 libsystemd-shared libsystemd0 libtext-charwidth-perl libtext-iconv-perl libtinfo6 libtirpc-common libtirpc-dev libubsan1 libudev1 libuuid1 libxxhash0 libzstd1 linux-libc-dev login logsave lto-disabled-list mawk mount ncurses-base ncurses-bin openssl passwd perl-base pinentry-curses procps psmisc readline-common sed sensible-utils systemd systemd-dev systemd-sysv sysvinit-utils tar tzdata ubuntu-keyring util-linux uuid-runtime xz-utils zlib1g 151 upgraded, 18 newly installed, 16 to remove and 1 not upgraded. Need to get 87.9 MB of archives. After this operation, 20.6 MB disk space will be freed. Get:1 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libnsl-dev armhf 1.3.0-3build2 [66.2 kB] Get:2 http://ftpmaster.internal/ubuntu noble/main armhf libcrypt-dev armhf 1:4.4.36-4 [136 kB] Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libc6-dev armhf 2.39-0ubuntu6 [1351 kB] Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libc-dev-bin armhf 2.39-0ubuntu6 [19.1 kB] Get:5 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libtirpc-common all 1.3.4+ds-1.1 [8018 B] Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libtirpc-dev armhf 1.3.4+ds-1.1 [184 kB] Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libnss-nisplus armhf 1.3-5 [20.0 kB] Get:8 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libnsl2 armhf 1.3.0-3build2 [36.5 kB] Get:9 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libgssapi-krb5-2 armhf 1.20.1-5.1build3 [119 kB] Get:10 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libkrb5-3 armhf 1.20.1-5.1build3 [321 kB] Get:11 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libk5crypto3 armhf 1.20.1-5.1build3 [78.6 kB] Get:12 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libkrb5support0 armhf 1.20.1-5.1build3 [31.4 kB] Get:13 http://ftpmaster.internal/ubuntu noble/main armhf libacl1 armhf 2.3.2-1 [15.1 kB] Get:14 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libapparmor1 armhf 4.0.0~beta2-0ubuntu3 [44.8 kB] Get:15 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libaudit-common all 1:3.1.2-2.1 [5674 B] Get:16 http://ftpmaster.internal/ubuntu noble/main armhf libcap-ng0 armhf 0.8.4-2 [13.4 kB] Get:17 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libaudit1 armhf 1:3.1.2-2.1 [44.3 kB] Get:18 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libblkid1 armhf 2.39.3-9ubuntu2 [160 kB] Get:19 http://ftpmaster.internal/ubuntu noble/main armhf libcap2 armhf 1:2.66-5ubuntu1 [25.8 kB] Get:20 http://ftpmaster.internal/ubuntu noble/main armhf libcrypt1 armhf 1:4.4.36-4 [104 kB] Get:21 http://ftpmaster.internal/ubuntu noble/main armhf libgpg-error-l10n all 1.47-3build1 [8024 B] Get:22 http://ftpmaster.internal/ubuntu noble/main armhf libgpg-error0 armhf 1.47-3build1 [61.6 kB] Get:23 http://ftpmaster.internal/ubuntu noble/main armhf libgcrypt20 armhf 1.10.3-2 [454 kB] Get:24 http://ftpmaster.internal/ubuntu noble-proposed/main armhf liblzma5 armhf 5.6.0-0.2 [117 kB] Get:25 http://ftpmaster.internal/ubuntu noble/main armhf libzstd1 armhf 1.5.5+dfsg2-2 [265 kB] Get:26 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libkmod2 armhf 31+20240202-2ubuntu4 [44.9 kB] Get:27 http://ftpmaster.internal/ubuntu noble/main armhf libpcre2-8-0 armhf 10.42-4ubuntu1 [198 kB] Get:28 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libselinux1 armhf 3.5-2build2 [70.4 kB] Get:29 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libmount1 armhf 2.39.3-9ubuntu2 [171 kB] Get:30 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libtext-iconv-perl armhf 1.7-8build2 [12.7 kB] Get:31 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libtext-charwidth-perl armhf 0.04-11build2 [8962 B] Get:32 http://ftpmaster.internal/ubuntu noble-proposed/main armhf perl-base armhf 5.38.2-3.2 [1671 kB] Get:33 http://ftpmaster.internal/ubuntu noble-proposed/main armhf liblocale-gettext-perl armhf 1.07-6ubuntu3 [15.0 kB] Get:34 http://ftpmaster.internal/ubuntu noble/main armhf debconf-i18n all 1.5.86 [205 kB] Get:35 http://ftpmaster.internal/ubuntu noble/main armhf debconf all 1.5.86 [124 kB] Get:36 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libpam0g armhf 1.5.3-5ubuntu3 [62.0 kB] Get:37 http://ftpmaster.internal/ubuntu noble/main armhf libseccomp2 armhf 2.5.5-1ubuntu1 [49.4 kB] Get:38 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libc6 armhf 2.39-0ubuntu6 [2827 kB] Get:39 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libc-bin armhf 2.39-0ubuntu6 [530 kB] Get:40 http://ftpmaster.internal/ubuntu noble-proposed/main armhf openssl armhf 3.0.13-0ubuntu1 [974 kB] Get:41 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libcryptsetup12 armhf 2:2.7.0-1ubuntu2 [238 kB] Get:42 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libssl3t64 armhf 3.0.13-0ubuntu1 [1557 kB] Get:43 http://ftpmaster.internal/ubuntu noble-proposed/main armhf systemd-sysv armhf 255.4-1ubuntu4 [11.9 kB] Get:44 http://ftpmaster.internal/ubuntu noble-proposed/main armhf systemd-dev all 255.4-1ubuntu4 [103 kB] Get:45 http://ftpmaster.internal/ubuntu noble-proposed/main armhf systemd armhf 255.4-1ubuntu4 [3502 kB] Get:46 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libsystemd-shared armhf 255.4-1ubuntu4 [2009 kB] Get:47 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libsystemd0 armhf 255.4-1ubuntu4 [410 kB] Get:48 http://ftpmaster.internal/ubuntu noble/main armhf libargon2-1 armhf 0~20190702+dfsg-4 [22.3 kB] Get:49 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libudev1 armhf 255.4-1ubuntu4 [166 kB] Get:50 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libdevmapper1.02.1 armhf 2:1.02.185-3ubuntu2 [135 kB] Get:51 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libuuid1 armhf 2.39.3-9ubuntu2 [34.4 kB] Get:52 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libfdisk1 armhf 2.39.3-9ubuntu2 [196 kB] Get:53 http://ftpmaster.internal/ubuntu noble-proposed/main armhf mount armhf 2.39.3-9ubuntu2 [134 kB] Get:54 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libcom-err2 armhf 1.47.0-2.4~exp1ubuntu2 [21.9 kB] Get:55 http://ftpmaster.internal/ubuntu noble/main armhf libkeyutils1 armhf 1.6.3-3 [8120 B] Get:56 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libtirpc3t64 armhf 1.3.4+ds-1.1 [73.2 kB] Get:57 http://ftpmaster.internal/ubuntu noble-proposed/main armhf linux-libc-dev armhf 6.8.0-19.19 [1555 kB] Get:58 http://ftpmaster.internal/ubuntu noble/main armhf gcc-14-base armhf 14-20240303-1ubuntu1 [46.9 kB] Get:59 http://ftpmaster.internal/ubuntu noble/main armhf libgcc-s1 armhf 14-20240303-1ubuntu1 [41.5 kB] Get:60 http://ftpmaster.internal/ubuntu noble/main armhf base-files armhf 13ubuntu7 [73.9 kB] Get:61 http://ftpmaster.internal/ubuntu noble-proposed/main armhf debianutils armhf 5.17 [88.9 kB] Get:62 http://ftpmaster.internal/ubuntu noble/main armhf bash armhf 5.2.21-2ubuntu2 [666 kB] Get:63 http://ftpmaster.internal/ubuntu noble-proposed/main armhf bsdutils armhf 1:2.39.3-9ubuntu2 [102 kB] Get:64 http://ftpmaster.internal/ubuntu noble-proposed/main armhf coreutils armhf 9.4-3ubuntu3 [1280 kB] Get:65 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libdb5.3t64 armhf 5.3.28+dfsg2-5build1 [661 kB] Get:66 http://ftpmaster.internal/ubuntu noble-proposed/main armhf apt-utils armhf 2.7.13ubuntu1 [210 kB] Get:67 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libapt-pkg6.0t64 armhf 2.7.13ubuntu1 [986 kB] Get:68 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libnettle8t64 armhf 3.9.1-2.2 [187 kB] Get:69 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libhogweed6t64 armhf 3.9.1-2.2 [187 kB] Get:70 http://ftpmaster.internal/ubuntu noble/main armhf libp11-kit0 armhf 0.25.3-4ubuntu1 [258 kB] Get:71 http://ftpmaster.internal/ubuntu noble/main armhf libunistring5 armhf 1.1-2 [512 kB] Get:72 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libgnutls30t64 armhf 3.8.3-1.1ubuntu2 [1046 kB] Get:73 http://ftpmaster.internal/ubuntu noble-proposed/main armhf apt armhf 2.7.13ubuntu1 [1367 kB] Get:74 http://ftpmaster.internal/ubuntu noble/main armhf bzip2 armhf 1.0.8-5ubuntu1 [33.5 kB] Get:75 http://ftpmaster.internal/ubuntu noble/main armhf libbz2-1.0 armhf 1.0.8-5ubuntu1 [31.2 kB] Get:76 http://ftpmaster.internal/ubuntu noble/main armhf libstdc++6 armhf 14-20240303-1ubuntu1 [714 kB] Get:77 http://ftpmaster.internal/ubuntu noble/main armhf libxxhash0 armhf 0.8.2-2 [31.3 kB] Get:78 http://ftpmaster.internal/ubuntu noble-proposed/main armhf zlib1g armhf 1:1.3.dfsg-3.1ubuntu1 [49.2 kB] Get:79 http://ftpmaster.internal/ubuntu noble/main armhf libffi8 armhf 3.4.6-1 [21.0 kB] Get:80 http://ftpmaster.internal/ubuntu noble/main armhf libidn2-0 armhf 2.3.7-2 [96.1 kB] Get:81 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libdebconfclient0 armhf 0.271ubuntu2 [10.8 kB] Get:82 http://ftpmaster.internal/ubuntu noble/main armhf base-passwd armhf 3.6.3 [51.0 kB] Get:83 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libsqlite3-0 armhf 3.45.1-1ubuntu1 [599 kB] Get:84 http://ftpmaster.internal/ubuntu noble-proposed/main armhf gpg armhf 2.4.4-2ubuntu15 [524 kB] Get:85 http://ftpmaster.internal/ubuntu noble-proposed/main armhf gpg-agent armhf 2.4.4-2ubuntu15 [235 kB] Get:86 http://ftpmaster.internal/ubuntu noble-proposed/main armhf gpgconf armhf 2.4.4-2ubuntu15 [115 kB] Get:87 http://ftpmaster.internal/ubuntu noble-proposed/main armhf readline-common all 8.2-3.1 [56.4 kB] Get:88 http://ftpmaster.internal/ubuntu noble/main armhf libncursesw6 armhf 6.4+20240113-1ubuntu1 [118 kB] Get:89 http://ftpmaster.internal/ubuntu noble/main armhf libtinfo6 armhf 6.4+20240113-1ubuntu1 [90.5 kB] Get:90 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libreadline8t64 armhf 8.2-3.1 [129 kB] Get:91 http://ftpmaster.internal/ubuntu noble-proposed/main armhf pinentry-curses armhf 1.2.1-3ubuntu3 [36.7 kB] Get:92 http://ftpmaster.internal/ubuntu noble/main armhf init-system-helpers all 1.66ubuntu1 [39.4 kB] Get:93 http://ftpmaster.internal/ubuntu noble/main armhf libnpth0t64 armhf 1.6-3.1 [6940 B] Get:94 http://ftpmaster.internal/ubuntu noble-proposed/main armhf gpgv armhf 2.4.4-2ubuntu15 [224 kB] Get:95 http://ftpmaster.internal/ubuntu noble/main armhf ubuntu-keyring all 2023.11.28.1 [11.1 kB] Get:96 http://ftpmaster.internal/ubuntu noble/main armhf tar armhf 1.35+dfsg-3 [236 kB] Get:97 http://ftpmaster.internal/ubuntu noble-proposed/main armhf dpkg armhf 1.22.5ubuntu4 [1231 kB] Get:98 http://ftpmaster.internal/ubuntu noble/main armhf dash armhf 0.5.12-6ubuntu4 [80.7 kB] Get:99 http://ftpmaster.internal/ubuntu noble/main armhf diffutils armhf 1:3.10-1 [167 kB] Get:100 http://ftpmaster.internal/ubuntu noble/main armhf grep armhf 3.11-4 [166 kB] Get:101 http://ftpmaster.internal/ubuntu noble/main armhf gzip armhf 1.12-1ubuntu2 [95.8 kB] Get:102 http://ftpmaster.internal/ubuntu noble/main armhf hostname armhf 3.23+nmu2ubuntu1 [10.3 kB] Get:103 http://ftpmaster.internal/ubuntu noble/main armhf login armhf 1:4.13+dfsg1-4ubuntu1 [200 kB] Get:104 http://ftpmaster.internal/ubuntu noble/main armhf ncurses-bin armhf 6.4+20240113-1ubuntu1 [178 kB] Get:105 http://ftpmaster.internal/ubuntu noble/main armhf sed armhf 4.9-2 [198 kB] Get:106 http://ftpmaster.internal/ubuntu noble-proposed/main armhf util-linux armhf 2.39.3-9ubuntu2 [1216 kB] Get:107 http://ftpmaster.internal/ubuntu noble/main armhf ncurses-base all 6.4+20240113-1ubuntu1 [25.4 kB] Get:108 http://ftpmaster.internal/ubuntu noble/main armhf sysvinit-utils armhf 3.08-6ubuntu2 [33.7 kB] Get:109 http://ftpmaster.internal/ubuntu noble-proposed/main armhf logsave armhf 1.47.0-2.4~exp1ubuntu2 [21.9 kB] Get:110 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libext2fs2t64 armhf 1.47.0-2.4~exp1ubuntu2 [201 kB] Get:111 http://ftpmaster.internal/ubuntu noble-proposed/main armhf e2fsprogs armhf 1.47.0-2.4~exp1ubuntu2 [571 kB] Get:112 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libpam-modules-bin armhf 1.5.3-5ubuntu3 [47.0 kB] Get:113 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libpam-modules armhf 1.5.3-5ubuntu3 [261 kB] Get:114 http://ftpmaster.internal/ubuntu noble/main armhf init armhf 1.66ubuntu1 [6186 B] Get:115 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libsmartcols1 armhf 2.39.3-9ubuntu2 [117 kB] Get:116 http://ftpmaster.internal/ubuntu noble-proposed/main armhf uuid-runtime armhf 2.39.3-9ubuntu2 [41.7 kB] Get:117 http://ftpmaster.internal/ubuntu noble/main armhf libattr1 armhf 1:2.5.2-1 [10.3 kB] Get:118 http://ftpmaster.internal/ubuntu noble/main armhf libmd0 armhf 1.1.0-2 [23.1 kB] Get:119 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libpam-runtime all 1.5.3-5ubuntu3 [40.8 kB] Get:120 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libsemanage-common all 3.5-1build3 [10.1 kB] Get:121 http://ftpmaster.internal/ubuntu noble/main armhf libsepol2 armhf 3.5-2 [262 kB] Get:122 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libsemanage2 armhf 3.5-1build3 [84.3 kB] Get:123 http://ftpmaster.internal/ubuntu noble/main armhf passwd armhf 1:4.13+dfsg1-4ubuntu1 [817 kB] Get:124 http://ftpmaster.internal/ubuntu noble/main armhf g++-13 armhf 13.2.0-17ubuntu2 [14.5 kB] Get:125 http://ftpmaster.internal/ubuntu noble/main armhf gcc-13 armhf 13.2.0-17ubuntu2 [448 kB] Get:126 http://ftpmaster.internal/ubuntu noble/main armhf cpp-13 armhf 13.2.0-17ubuntu2 [1032 B] Get:127 http://ftpmaster.internal/ubuntu noble/main armhf cpp-13-arm-linux-gnueabihf armhf 13.2.0-17ubuntu2 [8753 kB] Get:128 http://ftpmaster.internal/ubuntu noble/main armhf libcc1-0 armhf 14-20240303-1ubuntu1 [39.0 kB] Get:129 http://ftpmaster.internal/ubuntu noble/main armhf libctf0 armhf 2.42-3ubuntu1 [87.6 kB] Get:130 http://ftpmaster.internal/ubuntu noble/main armhf libctf-nobfd0 armhf 2.42-3ubuntu1 [88.0 kB] Get:131 http://ftpmaster.internal/ubuntu noble/main armhf libsframe1 armhf 2.42-3ubuntu1 [13.2 kB] Get:132 http://ftpmaster.internal/ubuntu noble/main armhf binutils-arm-linux-gnueabihf armhf 2.42-3ubuntu1 [2925 kB] Get:133 http://ftpmaster.internal/ubuntu noble/main armhf libbinutils armhf 2.42-3ubuntu1 [464 kB] Get:134 http://ftpmaster.internal/ubuntu noble/main armhf binutils armhf 2.42-3ubuntu1 [3078 B] Get:135 http://ftpmaster.internal/ubuntu noble/main armhf binutils-common armhf 2.42-3ubuntu1 [217 kB] Get:136 http://ftpmaster.internal/ubuntu noble/main armhf libstdc++-13-dev armhf 13.2.0-17ubuntu2 [2402 kB] Get:137 http://ftpmaster.internal/ubuntu noble/main armhf libgomp1 armhf 14-20240303-1ubuntu1 [125 kB] Get:138 http://ftpmaster.internal/ubuntu noble/main armhf libatomic1 armhf 14-20240303-1ubuntu1 [7812 B] Get:139 http://ftpmaster.internal/ubuntu noble/main armhf libasan8 armhf 14-20240303-1ubuntu1 [2941 kB] Get:140 http://ftpmaster.internal/ubuntu noble/main armhf libubsan1 armhf 14-20240303-1ubuntu1 [1153 kB] Get:141 http://ftpmaster.internal/ubuntu noble/main armhf libgcc-13-dev armhf 13.2.0-17ubuntu2 [900 kB] Get:142 http://ftpmaster.internal/ubuntu noble/main armhf gcc-13-arm-linux-gnueabihf armhf 13.2.0-17ubuntu2 [16.8 MB] Get:143 http://ftpmaster.internal/ubuntu noble/main armhf g++-13-arm-linux-gnueabihf armhf 13.2.0-17ubuntu2 [9935 kB] Get:144 http://ftpmaster.internal/ubuntu noble/main armhf gcc-13-base armhf 13.2.0-17ubuntu2 [47.4 kB] Get:145 http://ftpmaster.internal/ubuntu noble/main armhf libproc2-0 armhf 2:4.0.4-4ubuntu1 [48.8 kB] Get:146 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libss2 armhf 1.47.0-2.4~exp1ubuntu2 [14.7 kB] Get:147 http://ftpmaster.internal/ubuntu noble/main armhf mawk armhf 1.3.4.20240123-1 [115 kB] Get:148 http://ftpmaster.internal/ubuntu noble/main armhf procps armhf 2:4.0.4-4ubuntu1 [700 kB] Get:149 http://ftpmaster.internal/ubuntu noble/main armhf sensible-utils all 0.0.22 [22.5 kB] Get:150 http://ftpmaster.internal/ubuntu noble/main armhf ca-certificates all 20240203 [159 kB] Get:151 http://ftpmaster.internal/ubuntu noble-proposed/main armhf krb5-locales all 1.20.1-5.1build3 [13.8 kB] Get:152 http://ftpmaster.internal/ubuntu noble/main armhf libip4tc2 armhf 1.8.10-3ubuntu1 [21.2 kB] Get:153 http://ftpmaster.internal/ubuntu noble/main armhf tzdata all 2024a-1ubuntu1 [273 kB] Get:154 http://ftpmaster.internal/ubuntu noble/main armhf bash-completion all 1:2.11-8 [180 kB] Get:155 http://ftpmaster.internal/ubuntu noble-proposed/main armhf bsdextrautils armhf 2.39.3-9ubuntu2 [78.7 kB] Get:156 http://ftpmaster.internal/ubuntu noble/main armhf libgdbm6 armhf 1.23-5 [29.8 kB] Get:157 http://ftpmaster.internal/ubuntu noble/main armhf libpng16-16 armhf 1.6.43-1 [166 kB] Get:158 http://ftpmaster.internal/ubuntu noble-proposed/main armhf psmisc armhf 23.7-1 [176 kB] Get:159 http://ftpmaster.internal/ubuntu noble-proposed/main armhf xz-utils armhf 5.6.0-0.2 [271 kB] Get:160 http://ftpmaster.internal/ubuntu noble/main armhf g++ armhf 4:13.2.0-7ubuntu1 [1090 B] Get:161 http://ftpmaster.internal/ubuntu noble/main armhf gcc armhf 4:13.2.0-7ubuntu1 [5022 B] Get:162 http://ftpmaster.internal/ubuntu noble/main armhf cpp armhf 4:13.2.0-7ubuntu1 [22.4 kB] Get:163 http://ftpmaster.internal/ubuntu noble/main armhf cpp-arm-linux-gnueabihf armhf 4:13.2.0-7ubuntu1 [5320 B] Get:164 http://ftpmaster.internal/ubuntu noble/main armhf gcc-arm-linux-gnueabihf armhf 4:13.2.0-7ubuntu1 [1220 B] Get:165 http://ftpmaster.internal/ubuntu noble/main armhf g++-arm-linux-gnueabihf armhf 4:13.2.0-7ubuntu1 [966 B] Get:166 http://ftpmaster.internal/ubuntu noble/main armhf libfakeroot armhf 1.33-1 [28.7 kB] Get:167 http://ftpmaster.internal/ubuntu noble/main armhf fakeroot armhf 1.33-1 [68.6 kB] Get:168 http://ftpmaster.internal/ubuntu noble/main armhf libgdbm-compat4 armhf 1.23-5 [5970 B] Get:169 http://ftpmaster.internal/ubuntu noble/main armhf lto-disabled-list all 47 [12.4 kB] Preconfiguring packages ... 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Adding 'diversion of /lib/arm-linux-gnueabihf/libtirpc.so.3 to /lib/arm-linux-gnueabihf/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libtirpc.so.3.0.0 to /lib/arm-linux-gnueabihf/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:armhf (1.3.4+ds-1.1) ... Preparing to unpack .../5-linux-libc-dev_6.8.0-19.19_armhf.deb ... Unpacking linux-libc-dev:armhf (6.8.0-19.19) over (6.5.0-9.9) ... Selecting previously unselected package gcc-14-base:armhf. Preparing to unpack .../6-gcc-14-base_14-20240303-1ubuntu1_armhf.deb ... Unpacking gcc-14-base:armhf (14-20240303-1ubuntu1) ... Setting up gcc-14-base:armhf (14-20240303-1ubuntu1) ... (Reading database ... 12975 files and directories currently installed.) Preparing to unpack .../libgcc-s1_14-20240303-1ubuntu1_armhf.deb ... Unpacking libgcc-s1:armhf (14-20240303-1ubuntu1) over (13.2.0-4ubuntu3) ... Setting up libgcc-s1:armhf (14-20240303-1ubuntu1) ... 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Removing libperl5.36:armhf (5.36.0-9ubuntu1) ... dpkg: libhogweed6:armhf: dependency problems, but removing anyway as you requested: libgnutls30:armhf depends on libhogweed6 (>= 3.6). Removing libhogweed6:armhf (3.9.1-2) ... dpkg: libnettle8:armhf: dependency problems, but removing anyway as you requested: libgnutls30:armhf depends on libnettle8 (>= 3.7~). Removing libnettle8:armhf (3.9.1-2) ... dpkg: libdb5.3:armhf: dependency problems, but removing anyway as you requested: libpam-modules:armhf depends on libdb5.3. apt-utils depends on libdb5.3. Removing libdb5.3:armhf (5.3.28+dfsg2-2) ... Selecting previously unselected package libdb5.3t64:armhf. (Reading database ... 12429 files and directories currently installed.) Preparing to unpack .../libdb5.3t64_5.3.28+dfsg2-5build1_armhf.deb ... Unpacking libdb5.3t64:armhf (5.3.28+dfsg2-5build1) ... Preparing to unpack .../apt-utils_2.7.13ubuntu1_armhf.deb ... 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(both '/usr/bin/bzcat' and '/usr/bin/bzip2') dpkg: warning: old file '/bin/bzcat' is the same as several new files! (both '/usr/bin/bunzip2' and '/usr/bin/bzcat') dpkg: warning: old file '/bin/bzcat' is the same as several new files! (both '/usr/bin/bzcat' and '/usr/bin/bzip2') dpkg: warning: old file '/bin/bunzip2' is the same as several new files! (both '/usr/bin/bunzip2' and '/usr/bin/bzcat') dpkg: warning: old file '/bin/bunzip2' is the same as several new files! (both '/usr/bin/bzcat' and '/usr/bin/bzip2') Preparing to unpack .../libbz2-1.0_1.0.8-5ubuntu1_armhf.deb ... Unpacking libbz2-1.0:armhf (1.0.8-5ubuntu1) over (1.0.8-5build1) ... Setting up libbz2-1.0:armhf (1.0.8-5ubuntu1) ... (Reading database ... 12478 files and directories currently installed.) Preparing to unpack .../libstdc++6_14-20240303-1ubuntu1_armhf.deb ... Unpacking libstdc++6:armhf (14-20240303-1ubuntu1) over (13.2.0-4ubuntu3) ... Setting up libstdc++6:armhf (14-20240303-1ubuntu1) ... 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Adding 'diversion of /lib/arm-linux-gnueabihf/libhistory.so.8 to /lib/arm-linux-gnueabihf/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libhistory.so.8.2 to /lib/arm-linux-gnueabihf/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libreadline.so.8 to /lib/arm-linux-gnueabihf/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libreadline.so.8.2 to /lib/arm-linux-gnueabihf/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:armhf (8.2-3.1) ... Preparing to unpack .../pinentry-curses_1.2.1-3ubuntu3_armhf.deb ... Unpacking pinentry-curses (1.2.1-3ubuntu3) over (1.2.1-1ubuntu1) ... Preparing to unpack .../init-system-helpers_1.66ubuntu1_all.deb ... Unpacking init-system-helpers (1.66ubuntu1) over (1.65.2ubuntu1) ... Setting up init-system-helpers (1.66ubuntu1) ... 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Setting up libext2fs2t64:armhf (1.47.0-2.4~exp1ubuntu2) ... (Reading database ... 12492 files and directories currently installed.) Preparing to unpack .../e2fsprogs_1.47.0-2.4~exp1ubuntu2_armhf.deb ... Unpacking e2fsprogs (1.47.0-2.4~exp1ubuntu2) over (1.47.0-2ubuntu1) ... dpkg: warning: unable to delete old directory '/lib/udev/rules.d': Directory not empty dpkg: warning: unable to delete old directory '/lib/udev': Directory not empty Preparing to unpack .../libpam-modules-bin_1.5.3-5ubuntu3_armhf.deb ... Unpacking libpam-modules-bin (1.5.3-5ubuntu3) over (1.5.2-6ubuntu1) ... Setting up libpam-modules-bin (1.5.3-5ubuntu3) ... (Reading database ... 12489 files and directories currently installed.) Preparing to unpack .../libpam-modules_1.5.3-5ubuntu3_armhf.deb ... 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RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-27864092 armhf noble-proposed -c chroot:build-PACKAGEBUILD-27864092 --arch=armhf --dist=noble-proposed --nolog rdkit_202309.3-3build1.dsc Initiating build PACKAGEBUILD-27864092 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 5.4.0-173-generic #191-Ubuntu SMP Fri Feb 2 13:54:37 UTC 2024 armv7l sbuild (Debian sbuild) 0.79.0 (05 February 2020) on bos02-arm64-035.buildd +==============================================================================+ | rdkit 202309.3-3build1 (armhf) Fri, 15 Mar 2024 23:24:42 +0000 | +==============================================================================+ Package: rdkit Version: 202309.3-3build1 Source Version: 202309.3-3build1 Distribution: noble-proposed Machine Architecture: arm64 Host Architecture: armhf Build Architecture: armhf Build Type: any I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-27864092/chroot-autobuild' with '<>' I: NOTICE: Log filtering will replace 'build/rdkit-GzXaYo/resolver-bQtHGK' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- rdkit_202309.3-3build1.dsc exists in .; copying to chroot I: NOTICE: Log filtering will replace 'build/rdkit-GzXaYo/rdkit-202309.3' with '<>' I: NOTICE: Log filtering will replace 'build/rdkit-GzXaYo' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: bison, catch2, cmake, debhelper-compat (= 13), dh-python, doxygen, flex, imagemagick, latexmk, libboost-dev, libboost-iostreams-dev, libboost-python-dev, libboost-regex-dev, libboost-system-dev, libboost-thread-dev, libcairo2-dev, libcoordgen-dev, libeigen3-dev, libfreetype-dev, libmaeparser-dev, librsvg2-bin, libsqlite3-dev, pandoc, postgresql-server-dev-all, python3-dev, python3-myst-parser, python3-numpy, python3-pandas, python3-pil | python3-imaging, python3-recommonmark, python3-sphinx, python3-sqlalchemy, rapidjson-dev, tex-gyre, texlive-fonts-recommended, texlive-latex-base, texlive-latex-extra, texlive-latex-recommended, build-essential, fakeroot Filtered Build-Depends: bison, catch2, cmake, debhelper-compat (= 13), dh-python, doxygen, flex, imagemagick, latexmk, libboost-dev, libboost-iostreams-dev, libboost-python-dev, libboost-regex-dev, libboost-system-dev, libboost-thread-dev, libcairo2-dev, libcoordgen-dev, libeigen3-dev, libfreetype-dev, libmaeparser-dev, librsvg2-bin, libsqlite3-dev, pandoc, postgresql-server-dev-all, python3-dev, python3-myst-parser, python3-numpy, python3-pandas, python3-pil | python3-imaging, python3-recommonmark, python3-sphinx, python3-sqlalchemy, rapidjson-dev, tex-gyre, texlive-fonts-recommended, texlive-latex-base, texlive-latex-extra, texlive-latex-recommended, build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<>/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [963 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [619 B] Get:5 copy:/<>/apt_archive ./ Packages [704 B] Fetched 2286 B in 0s (50.1 kB/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: apt-utils bash-completion debconf-i18n krb5-locales libgpg-error-l10n libgpm2 libip4tc2 liblocale-gettext-perl libnsl-dev libnsl2 libnss-nis libnss-nisplus libtext-charwidth-perl libtext-iconv-perl libtext-wrapi18n-perl libtirpc-common libtirpc-dev libtirpc3t64 libunistring2 perl-modules-5.36 psmisc uuid-runtime Use 'apt autoremove' to remove them. The following additional packages will be installed: autoconf automake autopoint autotools-dev bison build-essential catch2 clang-17 cmake cmake-data debhelper debugedit dh-autoreconf dh-python dh-strip-nondeterminism docutils-common doxygen dpkg-dev dwz file flex fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-lmodern gettext gettext-base groff-base hicolor-icon-theme icu-devtools imagemagick imagemagick-6-common imagemagick-6.q16 intltool-debian latexmk libapache-pom-java libarchive-zip-perl libarchive13t64 libblas3 libblkid-dev libboost-atomic1.83-dev libboost-atomic1.83.0 libboost-chrono1.83-dev libboost-chrono1.83.0t64 libboost-date-time1.83-dev libboost-date-time1.83.0 libboost-dev libboost-iostreams-dev libboost-iostreams1.83-dev libboost-iostreams1.83.0 libboost-python-dev libboost-python1.83-dev libboost-python1.83.0 libboost-regex-dev libboost-regex1.83-dev libboost-regex1.83.0 libboost-serialization1.83-dev libboost-serialization1.83.0 libboost-system-dev libboost-system1.83-dev libboost-system1.83.0 libboost-thread-dev libboost-thread1.83-dev libboost-thread1.83.0 libboost1.83-dev libbrotli-dev libbrotli1 libbsd0 libbz2-dev libcairo-gobject2 libcairo-script-interpreter2 libcairo2 libcairo2-dev libclang-common-17-dev libclang-cpp17t64 libclang-cpp18 libclang1-17t64 libclang1-18 libcommons-logging-java libcommons-parent-java libcoordgen-dev libcoordgen3 libcurl4 libdatrie1 libdav1d7 libde265-0 libdebhelper-perl libdeflate0 libdpkg-perl libdw1t64 libedit2 libeigen3-dev libelf1t64 libexpat1 libexpat1-dev libffi-dev libfftw3-double3 libfile-stripnondeterminism-perl libfmt9 libfontbox-java libfontconfig-dev libfontconfig1 libfontenc1 libfreetype-dev libfreetype6 libfribidi0 libgc1 libgdbm-compat4t64 libgdbm6t64 libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-common libgfortran5 libgirepository-2.0-0 libglib2.0-0t64 libglib2.0-bin libglib2.0-data libglib2.0-dev libglib2.0-dev-bin libgraphite2-3 libharfbuzz0b libheif-plugin-dav1d libheif-plugin-libde265 libheif1 libice-dev libice6 libicu-dev libicu74 libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 libjs-jquery libjs-sphinxdoc libjs-underscore libjson-perl libjsoncpp25 libkpathsea6 liblapack3 liblcms2-2 libldap2 liblerc4 libllvm17t64 libllvm18 liblqr-1-0 libltdl7 liblua5.4-0 liblzo2-2 libmaeparser-dev libmaeparser1 libmagic-mgc libmagic1t64 libmagickcore-6.q16-7t64 libmagickwand-6.q16-7t64 libmount-dev libncurses-dev libncurses6 libnghttp2-14 libobjc-13-dev libobjc4 libopenjp2-7 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpcre2-16-0 libpcre2-32-0 libpcre2-dev libpcre2-posix3 libpdfbox-java libperl5.38t64 libpfm4 libpipeline1 libpixman-1-0 libpixman-1-dev libpkgconf3 libpng-dev libpng16-16t64 libpotrace0 libpq-dev libpq5 libpsl5t64 libptexenc1 libpthread-stubs0-dev libpython3-dev libpython3-stdlib libpython3.11-minimal libpython3.11-stdlib libpython3.12-dev libpython3.12-minimal libpython3.12-stdlib libpython3.12t64 libraqm0 libraw23t64 librhash0 librsvg2-2 librsvg2-bin librtmp1 libsasl2-2 libsasl2-modules-db libselinux1-dev libsepol-dev libsharpyuv0 libsm-dev libsm6 libsqlite3-dev libssh-4 libssl-dev libsub-override-perl libsynctex2 libteckit0 libtexlua53-5 libthai-data libthai0 libtiff6 libtool libuchardet0 libuv1t64 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libx11-dev libxapian30 libxau-dev libxau6 libxaw7 libxcb-render0 libxcb-render0-dev libxcb-shm0 libxcb-shm0-dev libxcb1 libxcb1-dev libxdmcp-dev libxdmcp6 libxext-dev libxext6 libxi6 libxml2 libxml2-dev libxmu6 libxpm4 libxrender-dev libxrender1 libxt6t64 libyaml-0-2 libz3-4 libz3-dev libzzip-0-13t64 llvm-17 llvm-17-dev llvm-17-linker-tools llvm-17-runtime llvm-17-tools m4 man-db media-types netbase optipng pandoc pandoc-data perl perl-modules-5.38 pkgconf pkgconf-bin po-debconf postgresql-client-16 postgresql-client-common postgresql-common postgresql-server-dev-16 postgresql-server-dev-all preview-latex-style python-babel-localedata python3 python3-alabaster python3-babel python3-certifi python3-chardet python3-commonmark python3-dateutil python3-dev python3-docutils python3-greenlet python3-idna python3-imagesize python3-jinja2 python3-markdown-it python3-markupsafe python3-mdit-py-plugins python3-mdurl python3-minimal python3-myst-parser python3-numpy python3-packaging python3-pandas python3-pandas-lib python3-pil python3-pkg-resources python3-pygments python3-recommonmark python3-requests python3-roman python3-setuptools python3-six python3-snowballstemmer python3-sphinx python3-sqlalchemy python3-tz python3-urllib3 python3-yaml python3.11 python3.11-minimal python3.12 python3.12-dev python3.12-minimal rapidjson-dev sgml-base shared-mime-info sphinx-common ssl-cert t1utils tex-common tex-gyre texlive-base texlive-binaries texlive-fonts-recommended texlive-latex-base texlive-latex-extra texlive-latex-recommended texlive-pictures ucf uuid-dev x11-common x11proto-core-dev x11proto-dev xdg-utils xfonts-encodings xfonts-utils xml-core xorg-sgml-doctools xtrans-dev zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc bison-doc clang-17-doc wasi-libc cmake-doc cmake-format elpa-cmake-mode ninja-build dh-make flit python3-build python3-installer python3-wheel doxygen-latex doxygen-doc doxygen-gui graphviz debian-keyring flex-doc gettext-doc libasprintf-dev libgettextpo-dev groff imagemagick-6-doc autotrace cups-bsd | lpr | lprng curl enscript ffmpeg gimp gnuplot grads hp2xx html2ps libwmf-bin mplayer povray radiance sane-utils transfig libraw-bin ghostscript lrzip libboost-doc libboost1.83-doc gccxml libboost-container1.83-dev libboost-context1.83-dev libboost-contract1.83-dev libboost-coroutine1.83-dev libboost-exception1.83-dev libboost-fiber1.83-dev libboost-filesystem1.83-dev libboost-graph-parallel1.83-dev libboost-graph1.83-dev libboost-json1.83-dev libboost-locale1.83-dev libboost-log1.83-dev libboost-math1.83-dev libboost-mpi-python1.83-dev libboost-mpi1.83-dev libboost-nowide1.83-dev libboost-numpy1.83-dev libboost-program-options1.83-dev libboost-random1.83-dev libboost-stacktrace1.83-dev libboost-test1.83-dev libboost-timer1.83-dev libboost-type-erasure1.83-dev libboost-url1.83-dev libboost-wave1.83-dev libboost1.83-tools-dev libmpfrc++-dev libntl-dev libcairo2-doc libavalon-framework-java libexcalibur-logkit-java liblog4j1.2-java gnupg | sq | sqop | pgpainless-cli | sequoia-chameleon-gnupg git bzr libeigen3-doc libfftw3-bin libfftw3-dev freetype2-doc gdbm-l10n low-memory-monitor gir1.2-glib-2.0-dev libglib2.0-doc libgdk-pixbuf2.0-bin libxml2-utils libheif-plugin-ffmpegdec libheif-plugin-jpegdec libheif-plugin-jpegenc libheif-plugin-j2kdec libheif-plugin-j2kenc libheif-plugin-rav1e libheif-plugin-svtenc libice-doc icu-doc liblcms2-utils libmagickcore-6.q16-7-extra ncurses-doc postgresql-doc-16 libsm-doc sqlite3-doc libssl-doc libtool-doc gfortran | fortran95-compiler gcj-jdk libx11-doc xapian-tools libxcb-doc libxext-doc llvm-17-doc m4-doc apparmor less www-browser texlive-xetex texlive-luatex pandoc-citeproc context wkhtmltopdf ghc nodejs php python ruby r-base-core libjs-mathjax libjs-katex citation-style-language-styles perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl libtap-harness-archive-perl libmail-box-perl postgresql-16 python3-doc python3-tk python3-venv docutils-doc fonts-linuxlibertine | ttf-linux-libertine texlive-lang-french python-greenlet-dev python-greenlet-doc python-jinja2-doc gfortran python3-pytest python-pandas-doc python3-statsmodels python-pil-doc python-pygments-doc ttf-bitstream-vera python3-cryptography python3-openssl python3-socks python-requests-doc python-setuptools-doc python3-stemmer dvipng fonts-freefont-otf python3-lib2to3 python3-sphinx-rtd-theme sphinx-doc texlive-plain-generic python-sqlalchemy-doc python3-fdb python3-pymssql python3-mysqldb python3-psycopg2 python3-asyncpg python3-aiosqlite python3-brotli python3.11-venv python3.11-doc binfmt-support python3.12-venv python3.12-doc rapidjson-doc sgml-base-doc gv | postscript-viewer perl-tk xpdf | pdf-viewer xzdec texlive-binaries-sse2 hintview texlive-fonts-recommended-doc texlive-latex-base-doc wp2latex icc-profiles libfile-which-perl texlive-latex-extra-doc texlive-science texlive-latex-recommended-doc texlive-pstricks dot2tex prerex texlive-pictures-doc vprerex Recommended packages: gnupg | sq | sqop | pgpainless-cli | sequoia-chameleon-gnupg libalgorithm-merge-perl libfl-dev curl | wget | lynx libmagickcore-6.q16-7-extra ghostscript netpbm xpdf | pdf-viewer gv | postscript-viewer bzip2-doc libclang-rt-17-dev libfile-fcntllock-perl libarchive-cpio-perl libgdk-pixbuf2.0-bin xdg-user-dirs libheif-plugin-aomenc libheif-plugin-x265 javascript-common libjson-xs-perl libldap-common fonts-urw-base35 libpng-tools publicsuffix libssl3 librsvg2-common libsasl2-modules libltdl-dev libmail-sendmail-perl logrotate python3-scipy python3-matplotlib python3-bottleneck python3-numexpr python3-odf python3-openpyxl python3-bs4 python3-html5lib python3-lxml python3-tables python3-olefile python3-sqlalchemy-ext fonts-texgyre fonts-texgyre-math lmodern dvisvgm tipa default-jre libspreadsheet-parseexcel-perl texlive-plain-generic ruby tk libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils x11-xserver-utils The following packages will be REMOVED: libgdbm-compat4* libgdbm6* libpng16-16* The following NEW packages will be installed: autoconf automake autopoint autotools-dev bison build-essential catch2 clang-17 cmake cmake-data debhelper debugedit dh-autoreconf dh-python dh-strip-nondeterminism docutils-common doxygen dpkg-dev dwz file flex fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-lmodern gettext gettext-base groff-base hicolor-icon-theme icu-devtools imagemagick imagemagick-6-common imagemagick-6.q16 intltool-debian latexmk libapache-pom-java libarchive-zip-perl libarchive13t64 libblas3 libblkid-dev libboost-atomic1.83-dev libboost-atomic1.83.0 libboost-chrono1.83-dev libboost-chrono1.83.0t64 libboost-date-time1.83-dev libboost-date-time1.83.0 libboost-dev libboost-iostreams-dev libboost-iostreams1.83-dev libboost-iostreams1.83.0 libboost-python-dev libboost-python1.83-dev libboost-python1.83.0 libboost-regex-dev libboost-regex1.83-dev libboost-regex1.83.0 libboost-serialization1.83-dev libboost-serialization1.83.0 libboost-system-dev libboost-system1.83-dev libboost-system1.83.0 libboost-thread-dev libboost-thread1.83-dev libboost-thread1.83.0 libboost1.83-dev libbrotli-dev libbrotli1 libbsd0 libbz2-dev libcairo-gobject2 libcairo-script-interpreter2 libcairo2 libcairo2-dev libclang-common-17-dev libclang-cpp17t64 libclang-cpp18 libclang1-17t64 libclang1-18 libcommons-logging-java libcommons-parent-java libcoordgen-dev libcoordgen3 libcurl4 libdatrie1 libdav1d7 libde265-0 libdebhelper-perl libdeflate0 libdpkg-perl libdw1t64 libedit2 libeigen3-dev libelf1t64 libexpat1 libexpat1-dev libffi-dev libfftw3-double3 libfile-stripnondeterminism-perl libfmt9 libfontbox-java libfontconfig-dev libfontconfig1 libfontenc1 libfreetype-dev libfreetype6 libfribidi0 libgc1 libgdbm-compat4t64 libgdbm6t64 libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-common libgfortran5 libgirepository-2.0-0 libglib2.0-0t64 libglib2.0-bin libglib2.0-data libglib2.0-dev libglib2.0-dev-bin libgraphite2-3 libharfbuzz0b libheif-plugin-dav1d libheif-plugin-libde265 libheif1 libice-dev libice6 libicu-dev libicu74 libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 libjs-jquery libjs-sphinxdoc libjs-underscore libjson-perl libjsoncpp25 libkpathsea6 liblapack3 liblcms2-2 libldap2 liblerc4 libllvm17t64 libllvm18 liblqr-1-0 libltdl7 liblua5.4-0 liblzo2-2 libmaeparser-dev libmaeparser1 libmagic-mgc libmagic1t64 libmagickcore-6.q16-7t64 libmagickwand-6.q16-7t64 libmount-dev libncurses-dev libncurses6 libnghttp2-14 libobjc-13-dev libobjc4 libopenjp2-7 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpcre2-16-0 libpcre2-32-0 libpcre2-dev libpcre2-posix3 libpdfbox-java libperl5.38t64 libpfm4 libpipeline1 libpixman-1-0 libpixman-1-dev libpkgconf3 libpng-dev libpng16-16t64 libpotrace0 libpq-dev libpq5 libpsl5t64 libptexenc1 libpthread-stubs0-dev libpython3-dev libpython3-stdlib libpython3.11-minimal libpython3.11-stdlib libpython3.12-dev libpython3.12-minimal libpython3.12-stdlib libpython3.12t64 libraqm0 libraw23t64 librhash0 librsvg2-2 librsvg2-bin librtmp1 libsasl2-2 libsasl2-modules-db libselinux1-dev libsepol-dev libsharpyuv0 libsm-dev libsm6 libsqlite3-dev libssh-4 libssl-dev libsub-override-perl libsynctex2 libteckit0 libtexlua53-5 libthai-data libthai0 libtiff6 libtool libuchardet0 libuv1t64 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libx11-dev libxapian30 libxau-dev libxau6 libxaw7 libxcb-render0 libxcb-render0-dev libxcb-shm0 libxcb-shm0-dev libxcb1 libxcb1-dev libxdmcp-dev libxdmcp6 libxext-dev libxext6 libxi6 libxml2 libxml2-dev libxmu6 libxpm4 libxrender-dev libxrender1 libxt6t64 libyaml-0-2 libz3-4 libz3-dev libzzip-0-13t64 llvm-17 llvm-17-dev llvm-17-linker-tools llvm-17-runtime llvm-17-tools m4 man-db media-types netbase pandoc pandoc-data perl perl-modules-5.38 pkgconf pkgconf-bin po-debconf postgresql-client-16 postgresql-client-common postgresql-common postgresql-server-dev-16 postgresql-server-dev-all preview-latex-style python-babel-localedata python3 python3-alabaster python3-babel python3-certifi python3-chardet python3-commonmark python3-dateutil python3-dev python3-docutils python3-greenlet python3-idna python3-imagesize python3-jinja2 python3-markdown-it python3-markupsafe python3-mdit-py-plugins python3-mdurl python3-minimal python3-myst-parser python3-numpy python3-packaging python3-pandas python3-pandas-lib python3-pil python3-pkg-resources python3-pygments python3-recommonmark python3-requests python3-roman python3-setuptools python3-six python3-snowballstemmer python3-sphinx python3-sqlalchemy python3-tz python3-urllib3 python3-yaml python3.11 python3.11-minimal python3.12 python3.12-dev python3.12-minimal rapidjson-dev sbuild-build-depends-main-dummy sgml-base shared-mime-info sphinx-common ssl-cert t1utils tex-common tex-gyre texlive-base texlive-binaries texlive-fonts-recommended texlive-latex-base texlive-latex-extra texlive-latex-recommended texlive-pictures ucf uuid-dev x11-common x11proto-core-dev x11proto-dev xdg-utils xfonts-encodings xfonts-utils xml-core xorg-sgml-doctools xtrans-dev zlib1g-dev The following packages will be upgraded: optipng 1 upgraded, 344 newly installed, 3 to remove and 0 not upgraded. Need to get 453 MB of archives. After this operation, 2119 MB of additional disk space will be used. 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armhf ucf all 3.0043+nmu1 [56.5 kB] Get:68 http://ftpmaster.internal/ubuntu noble/main armhf postgresql-common all 257 [162 kB] Get:69 http://ftpmaster.internal/ubuntu noble/main armhf sgml-base all 1.31 [11.4 kB] Get:70 http://ftpmaster.internal/ubuntu noble/main armhf libfribidi0 armhf 1.0.13-3 [24.0 kB] Get:71 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libglib2.0-data all 2.79.3-3ubuntu5 [46.6 kB] Get:72 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libpython3.11-stdlib armhf 3.11.8-1build3 [1810 kB] Get:73 http://ftpmaster.internal/ubuntu noble/main armhf libyaml-0-2 armhf 0.2.5-1 [46.4 kB] Get:74 http://ftpmaster.internal/ubuntu noble/main armhf python3-mdurl all 0.1.2-1 [9702 B] Get:75 http://ftpmaster.internal/ubuntu noble/main armhf python3-markdown-it all 3.0.0-2 [57.5 kB] Get:76 http://ftpmaster.internal/ubuntu noble-proposed/main armhf python3-pkg-resources all 68.1.2-2ubuntu1 [168 kB] Get:77 http://ftpmaster.internal/ubuntu noble/main armhf python3-pygments all 2.17.2+dfsg-1 [819 kB] Get:78 http://ftpmaster.internal/ubuntu noble/main armhf python3-yaml armhf 6.0.1-2 [173 kB] Get:79 http://ftpmaster.internal/ubuntu noble-proposed/main armhf python3.11 armhf 3.11.8-1build3 [589 kB] Get:80 http://ftpmaster.internal/ubuntu noble-proposed/main armhf shared-mime-info armhf 2.4-1build1 [470 kB] Get:81 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libmagic-mgc armhf 1:5.45-3 [307 kB] Get:82 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libmagic1t64 armhf 1:5.45-3 [81.4 kB] Get:83 http://ftpmaster.internal/ubuntu noble-proposed/main armhf file armhf 1:5.45-3 [21.1 kB] Get:84 http://ftpmaster.internal/ubuntu noble/main armhf gettext-base armhf 0.21-14ubuntu1 [38.0 kB] Get:85 http://ftpmaster.internal/ubuntu noble/main armhf libuchardet0 armhf 0.0.8-1 [73.9 kB] Get:86 http://ftpmaster.internal/ubuntu noble-proposed/main armhf groff-base armhf 1.23.0-3build1 [946 kB] Get:87 http://ftpmaster.internal/ubuntu noble/main armhf libncurses6 armhf 6.4+20240113-1ubuntu1 [88.1 kB] Get:88 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libnghttp2-14 armhf 1.59.0-1build1 [68.1 kB] Get:89 http://ftpmaster.internal/ubuntu noble/main armhf libpipeline1 armhf 1.5.7-1 [26.2 kB] Get:90 http://ftpmaster.internal/ubuntu noble-proposed/main armhf man-db armhf 2.12.0-3build4 [1196 kB] Get:91 http://ftpmaster.internal/ubuntu noble/main armhf autoconf all 2.71-3 [339 kB] Get:92 http://ftpmaster.internal/ubuntu noble/main armhf autotools-dev all 20220109.1 [44.9 kB] Get:93 http://ftpmaster.internal/ubuntu noble/main armhf automake all 1:1.16.5-1.3ubuntu1 [558 kB] Get:94 http://ftpmaster.internal/ubuntu noble/main armhf autopoint all 0.21-14ubuntu1 [422 kB] Get:95 http://ftpmaster.internal/ubuntu noble/main armhf bison armhf 2:3.8.2+dfsg-1build1 [731 kB] Get:96 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libdpkg-perl all 1.22.5ubuntu4 [269 kB] Get:97 http://ftpmaster.internal/ubuntu noble-proposed/main armhf dpkg-dev all 1.22.5ubuntu4 [1060 kB] Get:98 http://ftpmaster.internal/ubuntu noble/main armhf build-essential armhf 12.10ubuntu1 [4928 B] Get:99 http://ftpmaster.internal/ubuntu noble/universe armhf catch2 armhf 3.4.0-1 [598 kB] Get:100 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libllvm17t64 armhf 1:17.0.6-9 [25.3 MB] Get:101 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf libclang-cpp17t64 armhf 1:17.0.6-9 [12.1 MB] Get:102 http://ftpmaster.internal/ubuntu noble/main armhf libgc1 armhf 1:8.2.6-1 [80.5 kB] Get:103 http://ftpmaster.internal/ubuntu noble/universe armhf libobjc4 armhf 14-20240303-1ubuntu1 [38.8 kB] Get:104 http://ftpmaster.internal/ubuntu noble/universe armhf libobjc-13-dev armhf 13.2.0-17ubuntu2 [185 kB] Get:105 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf libclang-common-17-dev armhf 1:17.0.6-9 [690 kB] Get:106 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf llvm-17-linker-tools armhf 1:17.0.6-9 [1152 kB] Get:107 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf libclang1-17t64 armhf 1:17.0.6-9 [6850 kB] Get:108 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf clang-17 armhf 1:17.0.6-9 [74.9 kB] Get:109 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libarchive13t64 armhf 3.7.2-1.1ubuntu1 [330 kB] Get:110 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libsasl2-modules-db armhf 2.1.28+dfsg1-4ubuntu4 [19.2 kB] Get:111 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libsasl2-2 armhf 2.1.28+dfsg1-4ubuntu4 [49.7 kB] Get:112 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libldap2 armhf 2.6.7+dfsg-1~exp1ubuntu6 [172 kB] Get:113 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libpsl5t64 armhf 0.21.2-1.1 [55.7 kB] Get:114 http://ftpmaster.internal/ubuntu noble-proposed/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2build6 [51.3 kB] Get:115 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libssh-4 armhf 0.10.6-2build1 [169 kB] Get:116 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libcurl4 armhf 8.5.0-2ubuntu6 [296 kB] Get:117 http://ftpmaster.internal/ubuntu noble/main armhf libjsoncpp25 armhf 1.9.5-6 [72.5 kB] Get:118 http://ftpmaster.internal/ubuntu noble/main armhf librhash0 armhf 1.4.3-3 [142 kB] Get:119 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libuv1t64 armhf 1.48.0-1.1 [82.9 kB] Get:120 http://ftpmaster.internal/ubuntu noble-proposed/main armhf cmake-data all 3.28.3-1build4 [2155 kB] Get:121 http://ftpmaster.internal/ubuntu noble-proposed/main armhf cmake armhf 3.28.3-1build4 [6049 kB] Get:122 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libdebhelper-perl all 13.14.1ubuntu5 [89.8 kB] Get:123 http://ftpmaster.internal/ubuntu noble/main armhf libtool all 2.4.7-7 [166 kB] Get:124 http://ftpmaster.internal/ubuntu noble/main armhf dh-autoreconf all 20 [16.1 kB] Get:125 http://ftpmaster.internal/ubuntu noble/main armhf libarchive-zip-perl all 1.68-1 [90.2 kB] Get:126 http://ftpmaster.internal/ubuntu noble/main armhf libsub-override-perl all 0.10-1 [10.0 kB] Get:127 http://ftpmaster.internal/ubuntu noble/main armhf libfile-stripnondeterminism-perl all 1.13.1-1 [18.1 kB] Get:128 http://ftpmaster.internal/ubuntu noble/main armhf dh-strip-nondeterminism all 1.13.1-1 [5362 B] Get:129 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libelf1t64 armhf 0.190-1.1build1 [49.9 kB] Get:130 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libdw1t64 armhf 0.190-1.1build1 [235 kB] Get:131 http://ftpmaster.internal/ubuntu noble-proposed/main armhf debugedit armhf 1:5.0-5build1 [42.2 kB] Get:132 http://ftpmaster.internal/ubuntu noble-proposed/main armhf dwz armhf 0.15-1build5 [116 kB] Get:133 http://ftpmaster.internal/ubuntu noble/main armhf gettext armhf 0.21-14ubuntu1 [800 kB] Get:134 http://ftpmaster.internal/ubuntu noble/main armhf intltool-debian all 0.35.0+20060710.6 [23.2 kB] Get:135 http://ftpmaster.internal/ubuntu noble/main armhf po-debconf all 1.0.21+nmu1 [233 kB] Get:136 http://ftpmaster.internal/ubuntu noble-proposed/main armhf debhelper all 13.14.1ubuntu5 [869 kB] Get:137 http://ftpmaster.internal/ubuntu noble-proposed/main armhf python3-setuptools all 68.1.2-2ubuntu1 [396 kB] Get:138 http://ftpmaster.internal/ubuntu noble/universe armhf dh-python all 6.20231223ubuntu2 [111 kB] Get:139 http://ftpmaster.internal/ubuntu noble/main armhf xml-core all 0.19 [20.3 kB] Get:140 http://ftpmaster.internal/ubuntu noble/main armhf docutils-common all 0.20.1+dfsg-3 [132 kB] Get:141 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libllvm18 armhf 1:18.1.0-1ubuntu3 [26.7 MB] Get:142 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf libclang-cpp18 armhf 1:18.1.0-1ubuntu3 [12.8 MB] Get:143 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf libclang1-18 armhf 1:18.1.0-1ubuntu3 [7396 kB] Get:144 http://ftpmaster.internal/ubuntu noble/universe armhf libfmt9 armhf 9.1.0+ds1-2 [55.2 kB] Get:145 http://ftpmaster.internal/ubuntu noble/universe armhf libxapian30 armhf 1.4.22-1 [659 kB] Get:146 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf doxygen armhf 1.9.8+ds-2build3 [4881 kB] Get:147 http://ftpmaster.internal/ubuntu noble-proposed/main armhf fontconfig armhf 2.15.0-1.1ubuntu1 [189 kB] Get:148 http://ftpmaster.internal/ubuntu noble/universe armhf fonts-lmodern all 2.005-1 [4799 kB] Get:149 http://ftpmaster.internal/ubuntu noble/main armhf hicolor-icon-theme all 0.17-2 [9976 B] Get:150 http://ftpmaster.internal/ubuntu noble/main armhf icu-devtools armhf 74.2-1ubuntu1 [201 kB] Get:151 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf imagemagick-6.q16 armhf 8:6.9.12.98+dfsg1-5.1ubuntu1 [254 kB] Get:152 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf imagemagick armhf 8:6.9.12.98+dfsg1-5.1ubuntu1 [14.2 kB] Get:153 http://ftpmaster.internal/ubuntu noble/universe armhf tex-common all 6.18 [32.8 kB] Get:154 http://ftpmaster.internal/ubuntu noble/main armhf libpaper1 armhf 1.1.29 [12.5 kB] Get:155 http://ftpmaster.internal/ubuntu noble/main armhf libpaper-utils armhf 1.1.29 [8170 B] Get:156 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libkpathsea6 armhf 2023.20230311.66589-9build1 [57.5 kB] Get:157 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libptexenc1 armhf 2023.20230311.66589-9build1 [36.8 kB] Get:158 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libsynctex2 armhf 2023.20230311.66589-9build1 [47.5 kB] Get:159 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libtexlua53-5 armhf 2023.20230311.66589-9build1 [97.6 kB] Get:160 http://ftpmaster.internal/ubuntu noble/main armhf t1utils armhf 1.41-4build2 [53.1 kB] Get:161 http://ftpmaster.internal/ubuntu noble/main armhf libpixman-1-0 armhf 0.42.2-1 [184 kB] Get:162 http://ftpmaster.internal/ubuntu noble/main armhf libxcb-render0 armhf 1.15-1 [15.2 kB] Get:163 http://ftpmaster.internal/ubuntu noble/main armhf libxcb-shm0 armhf 1.15-1 [5852 B] Get:164 http://ftpmaster.internal/ubuntu noble/main armhf libxrender1 armhf 1:0.9.10-1.1 [16.5 kB] Get:165 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libcairo2 armhf 1.18.0-1ubuntu1 [482 kB] Get:166 http://ftpmaster.internal/ubuntu noble/main armhf libgraphite2-3 armhf 1.3.14-2 [72.7 kB] Get:167 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libharfbuzz0b armhf 8.3.0-2build1 [446 kB] Get:168 http://ftpmaster.internal/ubuntu noble/universe armhf libpotrace0 armhf 1.16-2 [14.6 kB] Get:169 http://ftpmaster.internal/ubuntu noble/universe armhf libteckit0 armhf 2.5.12+ds1-1 [323 kB] Get:170 http://ftpmaster.internal/ubuntu noble/main armhf x11-common all 1:7.7+23ubuntu2 [23.4 kB] Get:171 http://ftpmaster.internal/ubuntu noble/main armhf libice6 armhf 2:1.0.10-1build2 [36.4 kB] Get:172 http://ftpmaster.internal/ubuntu noble/main armhf libsm6 armhf 2:1.2.3-1build2 [15.1 kB] Get:173 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libxt6t64 armhf 1:1.2.1-1.2 [145 kB] Get:174 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libxmu6 armhf 2:1.1.3-3build1 [40.3 kB] Get:175 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libxpm4 armhf 1:3.5.17-1build1 [30.4 kB] Get:176 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libxaw7 armhf 2:1.0.14-1build1 [153 kB] Get:177 http://ftpmaster.internal/ubuntu noble/main armhf libxi6 armhf 2:1.8.1-1 [26.5 kB] Get:178 http://ftpmaster.internal/ubuntu noble/universe armhf libzzip-0-13t64 armhf 0.13.72+dfsg.1-1.2 [24.3 kB] Get:179 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf texlive-binaries armhf 2023.20230311.66589-9build1 [7160 kB] Get:180 http://ftpmaster.internal/ubuntu noble/main armhf xdg-utils all 1.1.3-4.1ubuntu3 [62.0 kB] Get:181 http://ftpmaster.internal/ubuntu noble/universe armhf texlive-base all 2023.20240207-1 [21.7 MB] Get:182 http://ftpmaster.internal/ubuntu noble/universe armhf texlive-latex-base all 2023.20240207-1 [1238 kB] Get:183 http://ftpmaster.internal/ubuntu noble/universe armhf latexmk all 1:4.83-1 [203 kB] Get:184 http://ftpmaster.internal/ubuntu noble/universe armhf libapache-pom-java all 29-2 [5284 B] Get:185 http://ftpmaster.internal/ubuntu noble/main armhf libblas3 armhf 3.12.0-3 [123 kB] Get:186 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libboost1.83-dev armhf 1.83.0-2.1ubuntu2 [10.7 MB] Get:187 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libboost-atomic1.83.0 armhf 1.83.0-2.1ubuntu2 [239 kB] Get:188 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libboost-atomic1.83-dev armhf 1.83.0-2.1ubuntu2 [234 kB] Get:189 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libboost-chrono1.83.0t64 armhf 1.83.0-2.1ubuntu2 [244 kB] Get:190 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libboost-chrono1.83-dev armhf 1.83.0-2.1ubuntu2 [245 kB] Get:191 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libboost-date-time1.83.0 armhf 1.83.0-2.1ubuntu2 [236 kB] Get:192 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libboost-serialization1.83.0 armhf 1.83.0-2.1ubuntu2 [332 kB] Get:193 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libboost-serialization1.83-dev armhf 1.83.0-2.1ubuntu2 [403 kB] Get:194 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libboost-date-time1.83-dev armhf 1.83.0-2.1ubuntu2 [239 kB] Get:195 http://ftpmaster.internal/ubuntu noble/main armhf libboost-dev armhf 1.83.0.1ubuntu2 [4310 B] Get:196 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libboost-regex1.83.0 armhf 1.83.0-2.1ubuntu2 [320 kB] Get:197 http://ftpmaster.internal/ubuntu noble/main armhf libicu-dev armhf 74.2-1ubuntu1 [11.6 MB] Get:198 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libboost-regex1.83-dev armhf 1.83.0-2.1ubuntu2 [349 kB] Get:199 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libboost-iostreams1.83.0 armhf 1.83.0-2.1ubuntu2 [257 kB] Get:200 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf libboost-iostreams1.83-dev armhf 1.83.0-2.1ubuntu2 [265 kB] Get:201 http://ftpmaster.internal/ubuntu noble/universe armhf libboost-iostreams-dev armhf 1.83.0.1ubuntu2 [4046 B] Get:202 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libboost-python1.83.0 armhf 1.83.0-2.1ubuntu2 [306 kB] Get:203 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libpython3.12t64 armhf 3.12.2-4build2 [2057 kB] Get:204 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libexpat1-dev armhf 2.6.1-2 [122 kB] Get:205 http://ftpmaster.internal/ubuntu noble-proposed/main armhf zlib1g-dev armhf 1:1.3.dfsg-3.1ubuntu1 [880 kB] Get:206 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libpython3.12-dev armhf 3.12.2-4build2 [3910 kB] Get:207 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libpython3-dev armhf 3.12.2-0ubuntu1 [10.1 kB] Get:208 http://ftpmaster.internal/ubuntu noble-proposed/main armhf python3.12-dev armhf 3.12.2-4build2 [498 kB] Get:209 http://ftpmaster.internal/ubuntu noble/main armhf libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] Get:210 http://ftpmaster.internal/ubuntu noble/main armhf libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [118 kB] Get:211 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libjs-sphinxdoc all 7.2.6-5 [149 kB] Get:212 http://ftpmaster.internal/ubuntu noble-proposed/main armhf python3-dev armhf 3.12.2-0ubuntu1 [26.7 kB] Get:213 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf libboost-python1.83-dev armhf 1.83.0-2.1ubuntu2 [334 kB] Get:214 http://ftpmaster.internal/ubuntu noble/universe armhf libboost-python-dev armhf 1.83.0.1ubuntu2 [4344 B] Get:215 http://ftpmaster.internal/ubuntu noble/main armhf libboost-regex-dev armhf 1.83.0.1ubuntu2 [4324 B] Get:216 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libboost-system1.83.0 armhf 1.83.0-2.1ubuntu2 [236 kB] Get:217 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libboost-system1.83-dev armhf 1.83.0-2.1ubuntu2 [231 kB] Get:218 http://ftpmaster.internal/ubuntu noble/universe armhf libboost-system-dev armhf 1.83.0.1ubuntu2 [4204 B] Get:219 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libboost-thread1.83.0 armhf 1.83.0-2.1ubuntu2 [270 kB] Get:220 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libboost-thread1.83-dev armhf 1.83.0-2.1ubuntu2 [281 kB] Get:221 http://ftpmaster.internal/ubuntu noble/main armhf libboost-thread-dev armhf 1.83.0.1ubuntu2 [4088 B] Get:222 http://ftpmaster.internal/ubuntu noble/main armhf libbrotli-dev armhf 1.1.0-2 [337 kB] Get:223 http://ftpmaster.internal/ubuntu noble/main armhf libbz2-dev armhf 1.0.8-5ubuntu1 [30.4 kB] Get:224 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libcairo-gobject2 armhf 1.18.0-1ubuntu1 [125 kB] Get:225 http://ftpmaster.internal/ubuntu noble/main armhf liblzo2-2 armhf 2.10-2build3 [47.6 kB] Get:226 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libcairo-script-interpreter2 armhf 1.18.0-1ubuntu1 [50.8 kB] Get:227 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libpng-dev armhf 1.6.43-3 [248 kB] Get:228 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libfreetype-dev armhf 2.13.2+dfsg-1build1 [516 kB] Get:229 http://ftpmaster.internal/ubuntu noble-proposed/main armhf uuid-dev armhf 2.39.3-9ubuntu2 [32.2 kB] Get:230 http://ftpmaster.internal/ubuntu noble/main armhf libpkgconf3 armhf 1.8.1-2 [26.3 kB] Get:231 http://ftpmaster.internal/ubuntu noble/main armhf pkgconf-bin armhf 1.8.1-2 [20.6 kB] Get:232 http://ftpmaster.internal/ubuntu noble/main armhf pkgconf armhf 1.8.1-2 [16.7 kB] Get:233 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libfontconfig-dev armhf 2.15.0-1.1ubuntu1 [143 kB] Get:234 http://ftpmaster.internal/ubuntu noble/main armhf libffi-dev armhf 3.4.6-1 [57.0 kB] Get:235 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libglib2.0-bin armhf 2.79.3-3ubuntu5 [91.8 kB] Get:236 http://ftpmaster.internal/ubuntu noble/main armhf python3-packaging all 23.2-1 [40.6 kB] Get:237 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libgirepository-2.0-0 armhf 2.79.3-3ubuntu5 [98.4 kB] Get:238 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libglib2.0-dev-bin armhf 2.79.3-3ubuntu5 [221 kB] Get:239 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libblkid-dev armhf 2.39.3-9ubuntu2 [195 kB] Get:240 http://ftpmaster.internal/ubuntu noble/main armhf libsepol-dev armhf 3.5-2 [358 kB] Get:241 http://ftpmaster.internal/ubuntu noble/main armhf libpcre2-16-0 armhf 10.42-4ubuntu1 [180 kB] Get:242 http://ftpmaster.internal/ubuntu noble/main armhf libpcre2-32-0 armhf 10.42-4ubuntu1 [171 kB] Get:243 http://ftpmaster.internal/ubuntu noble/main armhf libpcre2-posix3 armhf 10.42-4ubuntu1 [6096 B] Get:244 http://ftpmaster.internal/ubuntu noble/main armhf libpcre2-dev armhf 10.42-4ubuntu1 [664 kB] Get:245 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libselinux1-dev armhf 3.5-2build2 [157 kB] Get:246 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libmount-dev armhf 2.39.3-9ubuntu2 [14.9 kB] Get:247 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libglib2.0-dev armhf 2.79.3-3ubuntu5 [1687 kB] Get:248 http://ftpmaster.internal/ubuntu noble/main armhf libpixman-1-dev armhf 0.42.2-1 [205 kB] Get:249 http://ftpmaster.internal/ubuntu noble/main armhf xorg-sgml-doctools all 1:1.11-1.1 [10.9 kB] Get:250 http://ftpmaster.internal/ubuntu noble/main armhf x11proto-dev all 2023.2-1 [602 kB] Get:251 http://ftpmaster.internal/ubuntu noble/main armhf x11proto-core-dev all 2023.2-1 [2444 B] Get:252 http://ftpmaster.internal/ubuntu noble/main armhf libice-dev armhf 2:1.0.10-1build2 [46.5 kB] Get:253 http://ftpmaster.internal/ubuntu noble/main armhf libsm-dev armhf 2:1.2.3-1build2 [16.9 kB] Get:254 http://ftpmaster.internal/ubuntu noble/main armhf libxau-dev armhf 1:1.0.9-1build5 [8928 B] Get:255 http://ftpmaster.internal/ubuntu noble/main armhf libxdmcp-dev armhf 1:1.1.3-0ubuntu5 [25.0 kB] Get:256 http://ftpmaster.internal/ubuntu noble/main armhf xtrans-dev all 1.4.0-1 [68.9 kB] Get:257 http://ftpmaster.internal/ubuntu noble/main armhf libpthread-stubs0-dev armhf 0.4-1build2 [5504 B] Get:258 http://ftpmaster.internal/ubuntu noble/main armhf libxcb1-dev armhf 1.15-1 [84.6 kB] Get:259 http://ftpmaster.internal/ubuntu noble/main armhf libx11-dev armhf 2:1.8.7-1 [669 kB] Get:260 http://ftpmaster.internal/ubuntu noble/main armhf libxcb-render0-dev armhf 1.15-1 [19.4 kB] Get:261 http://ftpmaster.internal/ubuntu noble/main armhf libxcb-shm0-dev armhf 1.15-1 [7342 B] Get:262 http://ftpmaster.internal/ubuntu noble/main armhf libxext-dev armhf 2:1.3.4-1build1 [80.7 kB] Get:263 http://ftpmaster.internal/ubuntu noble/main armhf libxrender-dev armhf 1:0.9.10-1.1 [23.1 kB] Get:264 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libcairo2-dev armhf 1.18.0-1ubuntu1 [41.1 kB] Get:265 http://ftpmaster.internal/ubuntu noble/universe armhf libcommons-parent-java all 56-1 [10.7 kB] Get:266 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf libcommons-logging-java all 1.3.0-1ubuntu1 [63.8 kB] Get:267 http://ftpmaster.internal/ubuntu noble/universe armhf libcoordgen3 armhf 3.0.2-1 [190 kB] Get:268 http://ftpmaster.internal/ubuntu noble/universe armhf libcoordgen-dev armhf 3.0.2-1 [46.8 kB] Get:269 http://ftpmaster.internal/ubuntu noble/main armhf libdatrie1 armhf 0.2.13-3 [16.9 kB] Get:270 http://ftpmaster.internal/ubuntu noble/main armhf libfontenc1 armhf 1:1.1.8-1 [11.5 kB] Get:271 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libgdk-pixbuf2.0-common all 2.42.10+dfsg-3ubuntu1 [7774 B] Get:272 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libgdk-pixbuf-2.0-0 armhf 2.42.10+dfsg-3ubuntu1 [134 kB] Get:273 http://ftpmaster.internal/ubuntu noble/main armhf libgfortran5 armhf 14-20240303-1ubuntu1 [316 kB] Get:274 http://ftpmaster.internal/ubuntu noble/main armhf libimagequant0 armhf 2.18.0-1 [31.2 kB] Get:275 http://ftpmaster.internal/ubuntu noble/main armhf liblapack3 armhf 3.12.0-3 [2085 kB] Get:276 http://ftpmaster.internal/ubuntu noble-proposed/main armhf liblua5.4-0 armhf 5.4.6-3build1 [133 kB] Get:277 http://ftpmaster.internal/ubuntu noble/universe armhf libmaeparser1 armhf 1.3.1-1build1 [89.3 kB] Get:278 http://ftpmaster.internal/ubuntu noble/universe armhf libmaeparser-dev armhf 1.3.1-1build1 [12.2 kB] Get:279 http://ftpmaster.internal/ubuntu noble/main armhf libncurses-dev armhf 6.4+20240113-1ubuntu1 [501 kB] Get:280 http://ftpmaster.internal/ubuntu noble/main armhf libthai-data all 0.1.29-2 [158 kB] Get:281 http://ftpmaster.internal/ubuntu noble/main armhf libthai0 armhf 0.1.29-2 [15.1 kB] Get:282 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libpango-1.0-0 armhf 1.52.1+ds-1 [206 kB] Get:283 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libpangoft2-1.0-0 armhf 1.52.1+ds-1 [36.4 kB] Get:284 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libpangocairo-1.0-0 armhf 1.52.1+ds-1 [24.9 kB] Get:285 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libpq5 armhf 16.2-1ubuntu2 [122 kB] Get:286 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libssl-dev armhf 3.0.13-0ubuntu1 [2083 kB] Get:287 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libpq-dev armhf 16.2-1ubuntu2 [140 kB] Get:288 http://ftpmaster.internal/ubuntu noble/main armhf libraqm0 armhf 0.10.1-1 [12.2 kB] Get:289 http://ftpmaster.internal/ubuntu noble-proposed/main armhf librsvg2-2 armhf 2.57.91+dfsg-2ubuntu1 [1962 kB] Get:290 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf librsvg2-bin armhf 2.57.91+dfsg-2ubuntu1 [2109 kB] Get:291 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libsqlite3-dev armhf 3.45.1-1ubuntu1 [816 kB] Get:292 http://ftpmaster.internal/ubuntu noble/main armhf libxml2-dev armhf 2.9.14+dfsg-1.3ubuntu1 [733 kB] Get:293 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf llvm-17-runtime armhf 1:17.0.6-9 [505 kB] Get:294 http://ftpmaster.internal/ubuntu noble/universe armhf libpfm4 armhf 4.13.0+git32-g0d4ed0e-1 [51.2 kB] Get:295 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf llvm-17 armhf 1:17.0.6-9 [23.1 MB] Get:296 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf llvm-17-tools armhf 1:17.0.6-9 [493 kB] Get:297 http://ftpmaster.internal/ubuntu noble/universe armhf libz3-4 armhf 4.8.12-3.1 [6821 kB] Get:298 http://ftpmaster.internal/ubuntu noble/universe armhf libz3-dev armhf 4.8.12-3.1 [72.2 kB] Get:299 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf llvm-17-dev armhf 1:17.0.6-9 [43.4 MB] Get:300 http://ftpmaster.internal/ubuntu noble/universe armhf pandoc-data all 3.1.3-1 [92.4 kB] Get:301 http://ftpmaster.internal/ubuntu noble/universe armhf pandoc armhf 3.1.3+ds-2 [31.9 MB] Get:302 http://ftpmaster.internal/ubuntu noble-proposed/main armhf postgresql-client-16 armhf 16.2-1ubuntu2 [1228 kB] Get:303 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf postgresql-server-dev-16 armhf 16.2-1ubuntu2 [1205 kB] Get:304 http://ftpmaster.internal/ubuntu noble/universe armhf postgresql-server-dev-all armhf 257 [20.3 kB] Get:305 http://ftpmaster.internal/ubuntu noble/universe armhf preview-latex-style all 13.2-1 [347 kB] Get:306 http://ftpmaster.internal/ubuntu noble/main armhf python-babel-localedata all 2.10.3-3build1 [6357 kB] Get:307 http://ftpmaster.internal/ubuntu noble/main armhf python3-tz all 2024.1-2 [31.4 kB] Get:308 http://ftpmaster.internal/ubuntu noble/main armhf python3-babel all 2.10.3-3build1 [87.5 kB] Get:309 http://ftpmaster.internal/ubuntu noble/main armhf python3-certifi all 2023.11.17-1 [165 kB] Get:310 http://ftpmaster.internal/ubuntu noble/main armhf python3-chardet all 5.2.0+dfsg-1 [117 kB] Get:311 http://ftpmaster.internal/ubuntu noble/universe armhf python3-commonmark all 0.9.1-5 [45.8 kB] Get:312 http://ftpmaster.internal/ubuntu noble/main armhf python3-six all 1.16.0-4 [12.4 kB] Get:313 http://ftpmaster.internal/ubuntu noble/main armhf python3-dateutil all 2.8.2-3 [79.2 kB] Get:314 http://ftpmaster.internal/ubuntu noble/main armhf python3-roman all 3.3-3 [9632 B] Get:315 http://ftpmaster.internal/ubuntu noble/main armhf python3-docutils all 0.20.1+dfsg-3 [393 kB] Get:316 http://ftpmaster.internal/ubuntu noble/main armhf python3-idna all 3.6-2 [46.0 kB] Get:317 http://ftpmaster.internal/ubuntu noble/main armhf python3-imagesize all 1.4.1-1 [6844 B] Get:318 http://ftpmaster.internal/ubuntu noble/main armhf python3-markupsafe armhf 2.1.5-1 [13.2 kB] Get:319 http://ftpmaster.internal/ubuntu noble/main armhf python3-jinja2 all 3.1.2-1ubuntu1 [107 kB] Get:320 http://ftpmaster.internal/ubuntu noble/universe armhf python3-mdit-py-plugins all 0.4.0-1 [31.9 kB] Get:321 http://ftpmaster.internal/ubuntu noble-proposed/main armhf sphinx-common all 7.2.6-5 [741 kB] Get:322 http://ftpmaster.internal/ubuntu noble/main armhf python3-alabaster all 0.7.12-1 [17.8 kB] Get:323 http://ftpmaster.internal/ubuntu noble/main armhf python3-urllib3 all 2.0.7-1 [113 kB] Get:324 http://ftpmaster.internal/ubuntu noble/main armhf python3-requests all 2.31.0+dfsg-1ubuntu1 [50.7 kB] Get:325 http://ftpmaster.internal/ubuntu noble/main armhf python3-snowballstemmer all 2.2.0-4 [59.7 kB] Get:326 http://ftpmaster.internal/ubuntu noble-proposed/main armhf python3-sphinx all 7.2.6-5 [557 kB] Get:327 http://ftpmaster.internal/ubuntu noble/universe armhf python3-myst-parser all 2.0.0-1 [61.1 kB] Get:328 http://ftpmaster.internal/ubuntu noble/main armhf python3-numpy armhf 1:1.24.2-2 [4410 kB] Get:329 http://ftpmaster.internal/ubuntu noble/universe armhf python3-pandas-lib armhf 2.1.4+dfsg-4ubuntu2 [8219 kB] Get:330 http://ftpmaster.internal/ubuntu noble/universe armhf python3-pandas all 2.1.4+dfsg-4ubuntu2 [3042 kB] Get:331 http://ftpmaster.internal/ubuntu noble/main armhf python3-pil armhf 10.2.0-1 [447 kB] Get:332 http://ftpmaster.internal/ubuntu noble/universe armhf python3-recommonmark all 0.7.1+ds-5 [16.9 kB] Get:333 http://ftpmaster.internal/ubuntu noble-proposed/main armhf python3-greenlet armhf 3.0.3-0ubuntu2 [210 kB] Get:334 http://ftpmaster.internal/ubuntu noble/main armhf python3-sqlalchemy all 1.4.50+ds1-1 [1020 kB] Get:335 http://ftpmaster.internal/ubuntu noble/universe armhf rapidjson-dev all 1.1.0+dfsg2-7.1 [96.7 kB] Get:336 http://ftpmaster.internal/ubuntu noble/main armhf xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] Get:337 http://ftpmaster.internal/ubuntu noble/main armhf xfonts-utils armhf 1:7.7+6build2 [89.8 kB] Get:338 http://ftpmaster.internal/ubuntu noble/universe armhf tex-gyre all 20180621-6 [6396 kB] Get:339 http://ftpmaster.internal/ubuntu noble/universe armhf texlive-fonts-recommended all 2023.20240207-1 [4973 kB] Get:340 http://ftpmaster.internal/ubuntu noble/universe armhf libfontbox-java all 1:1.8.16-5 [208 kB] Get:341 http://ftpmaster.internal/ubuntu noble/universe armhf libpdfbox-java all 1:1.8.16-5 [5521 kB] Get:342 http://ftpmaster.internal/ubuntu noble/universe armhf texlive-latex-recommended all 2023.20240207-1 [8826 kB] Get:343 http://ftpmaster.internal/ubuntu noble/universe armhf texlive-pictures all 2023.20240207-1 [16.7 MB] Get:344 http://ftpmaster.internal/ubuntu noble/universe armhf texlive-latex-extra all 2023.20240207-1 [19.2 MB] Get:345 http://ftpmaster.internal/ubuntu noble/universe armhf libeigen3-dev all 3.4.0-4 [1056 kB] Preconfiguring packages ... Fetched 453 MB in 37s (12.4 MB/s) (Reading database ... 12451 files and directories currently installed.) Removing libgdbm-compat4:armhf (1.23-5) ... Removing libgdbm6:armhf (1.23-5) ... (Reading database ... 12441 files and directories currently installed.) Preparing to unpack .../optipng_0.7.8+ds-1build1_armhf.deb ... Unpacking optipng (0.7.8+ds-1build1) over (0.7.7-2build1) ... (Reading database ... 12441 files and directories currently installed.) Removing libpng16-16:armhf (1.6.43-1) ... Selecting previously unselected package libpng16-16t64:armhf. (Reading database ... 12431 files and directories currently installed.) Preparing to unpack .../libpng16-16t64_1.6.43-3_armhf.deb ... Unpacking libpng16-16t64:armhf (1.6.43-3) ... Selecting previously unselected package libpython3.12-minimal:armhf. Preparing to unpack .../libpython3.12-minimal_3.12.2-4build2_armhf.deb ... Unpacking libpython3.12-minimal:armhf (3.12.2-4build2) ... Selecting previously unselected package libexpat1:armhf. 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(Reading database ... 13215 files and directories currently installed.) Preparing to unpack .../000-python3_3.12.2-0ubuntu1_armhf.deb ... Unpacking python3 (3.12.2-0ubuntu1) ... Selecting previously unselected package libpython3.11-minimal:armhf. Preparing to unpack .../001-libpython3.11-minimal_3.11.8-1build3_armhf.deb ... Unpacking libpython3.11-minimal:armhf (3.11.8-1build3) ... Selecting previously unselected package python3.11-minimal. Preparing to unpack .../002-python3.11-minimal_3.11.8-1build3_armhf.deb ... Unpacking python3.11-minimal (3.11.8-1build3) ... Selecting previously unselected package m4. Preparing to unpack .../003-m4_1.4.19-4_armhf.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package flex. Preparing to unpack .../004-flex_2.6.4-8.2_armhf.deb ... Unpacking flex (2.6.4-8.2) ... Selecting previously unselected package libfftw3-double3:armhf. Preparing to unpack .../005-libfftw3-double3_3.3.10-1ubuntu2_armhf.deb ... Unpacking libfftw3-double3:armhf (3.3.10-1ubuntu2) ... Selecting previously unselected package libbrotli1:armhf. Preparing to unpack .../006-libbrotli1_1.1.0-2_armhf.deb ... Unpacking libbrotli1:armhf (1.1.0-2) ... Selecting previously unselected package libfreetype6:armhf. Preparing to unpack .../007-libfreetype6_2.13.2+dfsg-1build1_armhf.deb ... Unpacking libfreetype6:armhf (2.13.2+dfsg-1build1) ... Selecting previously unselected package fonts-dejavu-mono. Preparing to unpack .../008-fonts-dejavu-mono_2.37-8_all.deb ... Unpacking fonts-dejavu-mono (2.37-8) ... Selecting previously unselected package fonts-dejavu-core. Preparing to unpack .../009-fonts-dejavu-core_2.37-8_all.deb ... Unpacking fonts-dejavu-core (2.37-8) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../010-fontconfig-config_2.15.0-1.1ubuntu1_armhf.deb ... Unpacking fontconfig-config (2.15.0-1.1ubuntu1) ... Selecting previously unselected package libfontconfig1:armhf. 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Unpacking libdeflate0:armhf (1.19-1) ... Selecting previously unselected package liblerc4:armhf. Preparing to unpack .../028-liblerc4_4.0.0+ds-4ubuntu1_armhf.deb ... Unpacking liblerc4:armhf (4.0.0+ds-4ubuntu1) ... Selecting previously unselected package libwebp7:armhf. Preparing to unpack .../029-libwebp7_1.3.2-0.4build1_armhf.deb ... Unpacking libwebp7:armhf (1.3.2-0.4build1) ... Selecting previously unselected package libtiff6:armhf. Preparing to unpack .../030-libtiff6_4.5.1+git230720-4ubuntu1_armhf.deb ... Unpacking libtiff6:armhf (4.5.1+git230720-4ubuntu1) ... Selecting previously unselected package libwebpdemux2:armhf. Preparing to unpack .../031-libwebpdemux2_1.3.2-0.4build1_armhf.deb ... Unpacking libwebpdemux2:armhf (1.3.2-0.4build1) ... Selecting previously unselected package libwebpmux3:armhf. Preparing to unpack .../032-libwebpmux3_1.3.2-0.4build1_armhf.deb ... Unpacking libwebpmux3:armhf (1.3.2-0.4build1) ... Selecting previously unselected package libxau6:armhf. 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Setting up libpcre2-posix3:armhf (10.42-4ubuntu1) ... Setting up dwz (0.15-1build5) ... Setting up libdav1d7:armhf (1.4.0-1) ... Setting up liblqr-1-0:armhf (0.4.2-2.1build1) ... Setting up libclang-common-17-dev:armhf (1:17.0.6-9) ... Setting up librhash0:armhf (1.4.3-3) ... Setting up libuchardet0:armhf (0.0.8-1) ... Setting up bison (2:3.8.2+dfsg-1build1) ... update-alternatives: using /usr/bin/bison.yacc to provide /usr/bin/yacc (yacc) in auto mode Setting up debugedit (1:5.0-5build1) ... Setting up fonts-lmodern (2.005-1) ... Setting up liblua5.4-0:armhf (5.4.6-3build1) ... Setting up libopenjp2-7:armhf (2.5.0-2build1) ... Setting up libthai-data (0.1.29-2) ... Setting up xorg-sgml-doctools (1:1.11-1.1) ... Setting up netbase (6.4) ... Setting up sgml-base (1.31) ... Setting up cmake-data (3.28.3-1build4) ... Setting up libboost-dev:armhf (1.83.0.1ubuntu2) ... Setting up libpython3.11-minimal:armhf (3.11.8-1build3) ... Setting up libboost-system1.83-dev:armhf (1.83.0-2.1ubuntu2) ... Setting up libperl5.38t64:armhf (5.38.2-3.2) ... Setting up pandoc-data (3.1.3-1) ... Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up libcoordgen3:armhf (3.0.2-1) ... Setting up libde265-0:armhf (1.0.15-1build1) ... Setting up libwebpmux3:armhf (1.3.2-0.4build1) ... Setting up libbsd0:armhf (0.12.1-1) ... Setting up libxml2:armhf (2.9.14+dfsg-1.3ubuntu1) ... Setting up xdg-utils (1.1.3-4.1ubuntu3) ... update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode Setting up libldap2:armhf (2.6.7+dfsg-1~exp1ubuntu6) ... Setting up libbrotli-dev:armhf (1.1.0-2) ... Setting up libsynctex2:armhf (2023.20230311.66589-9build1) ... Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... Setting up libbz2-dev:armhf (1.0.8-5ubuntu1) ... Setting up libpotrace0:armhf (1.16-2) ... Setting up libjpeg8:armhf (8c-2ubuntu11) ... Setting up x11proto-dev (2023.2-1) ... Setting up python3.11-minimal (3.11.8-1build3) ... Setting up libblkid-dev:armhf (2.39.3-9ubuntu2) ... Setting up libpaper1:armhf (1.1.29) ... Creating config file /etc/papersize with new version Setting up libz3-dev:armhf (4.8.12-3.1) ... Setting up libice6:armhf (2:1.0.10-1build2) ... Setting up libxdmcp6:armhf (1:1.1.3-0ubuntu5) ... Setting up flex (2.6.4-8.2) ... Setting up liblapack3:armhf (3.12.0-3) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode Setting up libncurses-dev:armhf (6.4+20240113-1ubuntu1) ... Setting up libxcb1:armhf (1.15-1) ... Setting up gettext (0.21-14ubuntu1) ... Setting up libpdfbox-java (1:1.8.16-5) ... Setting up libxau-dev:armhf (1:1.0.9-1build5) ... Setting up libboost-chrono1.83-dev:armhf (1.83.0-2.1ubuntu2) ... Setting up libpcre2-dev:armhf (10.42-4ubuntu1) ... Setting up libice-dev:armhf (2:1.0.10-1build2) ... Setting up libtool (2.4.7-7) ... Setting up libgirepository-2.0-0:armhf (2.79.3-3ubuntu5) ... Setting up libxcb-render0:armhf (1.15-1) ... Setting up libselinux1-dev:armhf (3.5-2build2) ... Setting up fontconfig-config (2.15.0-1.1ubuntu1) ... Setting up libwebpdemux2:armhf (1.3.2-0.4build1) ... Setting up libedit2:armhf (3.1-20230828-1) ... Setting up libboost-system-dev:armhf (1.83.0.1ubuntu2) ... Setting up libpng-dev:armhf (1.6.43-3) ... Setting up libcommons-parent-java (56-1) ... Setting up libboost-serialization1.83-dev:armhf (1.83.0-2.1ubuntu2) ... Setting up libpq5:armhf (16.2-1ubuntu2) ... Setting up libcommons-logging-java (1.3.0-1ubuntu1) ... Setting up libglib2.0-bin (2.79.3-3ubuntu5) ... Setting up libpq-dev (16.2-1ubuntu2) ... Setting up libobjc4:armhf (14-20240303-1ubuntu1) ... Setting up libxcb-shm0:armhf (1.15-1) ... Setting up libpaper-utils (1.1.29) ... Setting up pkgconf:armhf (1.8.1-2) ... Setting up libmaeparser1:armhf (1.3.1-1build1) ... Setting up tex-common (6.18) ... update-language: texlive-base not installed and configured, doing nothing! Setting up libthai0:armhf (0.1.29-2) ... Setting up libxdmcp-dev:armhf (1:1.1.3-0ubuntu5) ... Setting up perl (5.38.2-3.2) ... Setting up libptexenc1:armhf (2023.20230311.66589-9build1) ... Setting up libllvm17t64:armhf (1:17.0.6-9) ... Setting up pandoc (3.1.3+ds-2) ... Setting up libfreetype6:armhf (2.13.2+dfsg-1build1) ... Setting up libclang1-17t64 (1:17.0.6-9) ... Setting up libboost-date-time1.83-dev:armhf (1.83.0-2.1ubuntu2) ... Setting up x11proto-core-dev (2023.2-1) ... Setting up optipng (0.7.8+ds-1build1) ... Setting up shared-mime-info (2.4-1build1) ... Setting up libeigen3-dev (3.4.0-4) ... Setting up icu-devtools (74.2-1ubuntu1) ... Setting up libjs-sphinxdoc (7.2.6-5) ... Setting up libdpkg-perl (1.22.5ubuntu4) ... Setting up libraw23t64:armhf (0.21.2-2.1) ... Setting up autoconf (2.71-3) ... Setting up groff-base (1.23.0-3build1) ... Setting up libtiff6:armhf (4.5.1+git230720-4ubuntu1) ... Setting up xml-core (0.19) ... Setting up libjson-perl (4.10000-1) ... Setting up llvm-17-runtime (1:17.0.6-9) ... Setting up libcurl4:armhf (8.5.0-2ubuntu6) ... Setting up libsub-override-perl (0.10-1) ... Setting up libx11-6:armhf (2:1.8.7-1) ... Setting up libharfbuzz0b:armhf (8.3.0-2build1) ... Setting up libgdk-pixbuf-2.0-0:armhf (2.42.10+dfsg-3ubuntu1) ... Setting up libfontconfig1:armhf (2.15.0-1.1ubuntu1) ... Setting up libcoordgen-dev:armhf (3.0.2-1) ... Setting up libsm6:armhf (2:1.2.3-1build2) ... Setting up libarchive13t64:armhf (3.7.2-1.1ubuntu1) ... Setting up libicu-dev:armhf (74.2-1ubuntu1) ... Setting up libmount-dev:armhf (2.39.3-9ubuntu2) ... Setting up libobjc-13-dev:armhf (13.2.0-17ubuntu2) ... Setting up libllvm18:armhf (1:18.1.0-1ubuntu3) ... Setting up libmaeparser-dev:armhf (1.3.1-1build1) ... Setting up automake (1:1.16.5-1.3ubuntu1) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libboost-thread1.83-dev:armhf (1.83.0-2.1ubuntu2) ... Setting up postgresql-client-common (257) ... Setting up libclang1-18 (1:18.1.0-1ubuntu3) ... Setting up fontconfig (2.15.0-1.1ubuntu1) ... Regenerating fonts cache... done. Setting up llvm-17-linker-tools (1:17.0.6-9) ... Setting up libxcb1-dev:armhf (1.15-1) ... Setting up libpython3.12-stdlib:armhf (3.12.2-4build2) ... Setting up libxpm4:armhf (1:3.5.17-1build1) ... Setting up libxrender1:armhf (1:0.9.10-1.1) ... Setting up libsm-dev:armhf (2:1.2.3-1build2) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up preview-latex-style (13.2-1) ... Setting up libpython3.11-stdlib:armhf (3.11.8-1build3) ... Setting up libdebhelper-perl (13.14.1ubuntu5) ... Setting up python3.12 (3.12.2-4build2) ... Setting up postgresql-client-16 (16.2-1ubuntu2) ... update-alternatives: using /usr/share/postgresql/16/man/man1/psql.1.gz to provide /usr/share/man/man1/psql.1.gz (psql.1.gz) in auto mode Setting up libpango-1.0-0:armhf (1.52.1+ds-1) ... Setting up libx11-dev:armhf (2:1.8.7-1) ... Setting up libxext6:armhf (2:1.3.4-1build1) ... Setting up xfonts-utils (1:7.7+6build2) ... Setting up man-db (2.12.0-3build4) ... Not building database; man-db/auto-update is not 'true'. Created symlink /etc/systemd/system/timers.target.wants/man-db.timer → /usr/lib/systemd/system/man-db.timer. Setting up libcairo2:armhf (1.18.0-1ubuntu1) ... Setting up dpkg-dev (1.22.5ubuntu4) ... Setting up libfreetype-dev:armhf (2.13.2+dfsg-1build1) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up libpython3.12t64:armhf (3.12.2-4build2) ... Setting up dh-autoreconf (20) ... Setting up libclang-cpp17t64 (1:17.0.6-9) ... Setting up libxcb-shm0-dev:armhf (1.15-1) ... Setting up libxml2-dev:armhf (2.9.14+dfsg-1.3ubuntu1) ... Setting up libraqm0:armhf (0.10.1-1) ... Setting up sphinx-common (7.2.6-5) ... Setting up libxt6t64:armhf (1:1.2.1-1.2) ... Setting up postgresql-common (257) ... Creating config file /etc/postgresql-common/createcluster.conf with new version Building PostgreSQL dictionaries from installed myspell/hunspell packages... Removing obsolete dictionary files: Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Created symlink /etc/systemd/system/multi-user.target.wants/postgresql.service → /usr/lib/systemd/system/postgresql.service. Setting up libboost-regex1.83-dev:armhf (1.83.0-2.1ubuntu2) ... Setting up libxcb-render0-dev:armhf (1.15-1) ... Setting up libxext-dev:armhf (2:1.3.4-1build1) ... Setting up cmake (3.28.3-1build4) ... Setting up build-essential (12.10ubuntu1) ... Setting up libcairo-gobject2:armhf (1.18.0-1ubuntu1) ... Setting up libpangoft2-1.0-0:armhf (1.52.1+ds-1) ... Setting up libboost-regex-dev:armhf (1.83.0.1ubuntu2) ... Setting up libclang-cpp18 (1:18.1.0-1ubuntu3) ... Setting up libxrender-dev:armhf (1:0.9.10-1.1) ... Setting up llvm-17 (1:17.0.6-9) ... Setting up tex-gyre (20180621-6) ... Setting up libboost-thread-dev:armhf (1.83.0.1ubuntu2) ... Setting up libpangocairo-1.0-0:armhf (1.52.1+ds-1) ... Setting up libpython3-stdlib:armhf (3.12.2-0ubuntu1) ... Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up libcairo-script-interpreter2:armhf (1.18.0-1ubuntu1) ... Setting up python3.11 (3.11.8-1build3) ... Setting up libxmu6:armhf (2:1.1.3-3build1) ... Setting up libxi6:armhf (2:1.8.1-1) ... Setting up libfontconfig-dev:armhf (2.15.0-1.1ubuntu1) ... Setting up libboost-iostreams1.83-dev:armhf (1.83.0-2.1ubuntu2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up clang-17 (1:17.0.6-9) ... Setting up python3 (3.12.2-0ubuntu1) ... Setting up libpython3.12-dev:armhf (3.12.2-4build2) ... Setting up libxaw7:armhf (2:1.0.14-1build1) ... Setting up libboost-iostreams-dev:armhf (1.83.0.1ubuntu2) ... Setting up python3-markupsafe (2.1.5-1) ... Setting up python3-tz (2024.1-2) ... Setting up librsvg2-2:armhf (2.57.91+dfsg-2ubuntu1) ... Setting up python3-six (1.16.0-4) ... Setting up python3-pil:armhf (10.2.0-1) ... Setting up python3-roman (3.3-3) ... Setting up python3-jinja2 (3.1.2-1ubuntu1) ... Setting up doxygen (1.9.8+ds-2build3) ... Setting up python3-packaging (23.2-1) ... Setting up python3-certifi (2023.11.17-1) ... Setting up python3-snowballstemmer (2.2.0-4) ... Setting up python3-mdurl (0.1.2-1) ... Setting up python3-greenlet (3.0.3-0ubuntu2) ... Setting up python3-idna (3.6-2) ... Setting up python3.12-dev (3.12.2-4build2) ... Setting up python3-urllib3 (2.0.7-1) ... Setting up python3-markdown-it (3.0.0-2) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up texlive-binaries (2023.20230311.66589-9build1) ... update-alternatives: using /usr/bin/xdvi-xaw to provide /usr/bin/xdvi.bin (xdvi.bin) in auto mode update-alternatives: using /usr/bin/bibtex.original to provide /usr/bin/bibtex (bibtex) in auto mode Setting up python3-dateutil (2.8.2-3) ... Setting up texlive-base (2023.20240207-1) ... tl-paper: setting paper size for dvips to a4: /var/lib/texmf/dvips/config/config-paper.ps tl-paper: setting paper size for dvipdfmx to a4: /var/lib/texmf/dvipdfmx/dvipdfmx-paper.cfg tl-paper: setting paper size for xdvi to a4: /var/lib/texmf/xdvi/XDvi-paper tl-paper: setting paper size for pdftex to a4: /var/lib/texmf/tex/generic/tex-ini-files/pdftexconfig.tex Setting up python3-imagesize (1.4.1-1) ... Setting up python3-commonmark (0.9.1-5) ... Setting up python3-pkg-resources (68.1.2-2ubuntu1) ... Setting up libglib2.0-dev-bin (2.79.3-3ubuntu5) ... Setting up librsvg2-bin (2.57.91+dfsg-2ubuntu1) ... Setting up libpython3-dev:armhf (3.12.2-0ubuntu1) ... Setting up python3-setuptools (68.1.2-2ubuntu1) ... Setting up python3-babel (2.10.3-3build1) ... update-alternatives: using /usr/bin/pybabel-python3 to provide /usr/bin/pybabel (pybabel) in auto mode Setting up python3-alabaster (0.7.12-1) ... Setting up python3-mdit-py-plugins (0.4.0-1) ... Setting up python3-yaml (6.0.1-2) ... Setting up debhelper (13.14.1ubuntu5) ... Setting up python3-sqlalchemy (1.4.50+ds1-1) ... Setting up python3-pygments (2.17.2+dfsg-1) ... Setting up python3-chardet (5.2.0+dfsg-1) ... Setting up libglib2.0-dev:armhf (2.79.3-3ubuntu5) ... Setting up texlive-latex-base (2023.20240207-1) ... Setting up python3-dev (3.12.2-0ubuntu1) ... Setting up texlive-latex-recommended (2023.20240207-1) ... Setting up python3-requests (2.31.0+dfsg-1ubuntu1) ... Setting up libboost-python1.83-dev (1.83.0-2.1ubuntu2) ... Setting up python3-numpy (1:1.24.2-2) ... Setting up texlive-pictures (2023.20240207-1) ... Setting up llvm-17-tools (1:17.0.6-9) ... Setting up texlive-fonts-recommended (2023.20240207-1) ... Setting up libcairo2-dev:armhf (1.18.0-1ubuntu1) ... Setting up llvm-17-dev (1:17.0.6-9) ... Setting up dh-python (6.20231223ubuntu2) ... Setting up python3-pandas-lib:armhf (2.1.4+dfsg-4ubuntu2) ... Setting up latexmk (1:4.83-1) ... Setting up texlive-latex-extra (2023.20240207-1) ... Setting up libboost-python-dev (1.83.0.1ubuntu2) ... Setting up python3-pandas (2.1.4+dfsg-4ubuntu2) ... Setting up postgresql-server-dev-16 (16.2-1ubuntu2) ... Setting up postgresql-server-dev-all:armhf (257) ... Setting up libheif-plugin-dav1d:armhf (1.17.6-1ubuntu1) ... Setting up libheif-plugin-libde265:armhf (1.17.6-1ubuntu1) ... Setting up libheif1:armhf (1.17.6-1ubuntu1) ... Setting up libmagickcore-6.q16-7t64:armhf (8:6.9.12.98+dfsg1-5.1ubuntu1) ... Setting up libmagickwand-6.q16-7t64:armhf (8:6.9.12.98+dfsg1-5.1ubuntu1) ... Setting up imagemagick-6.q16 (8:6.9.12.98+dfsg1-5.1ubuntu1) ... update-alternatives: using /usr/bin/compare-im6.q16 to provide /usr/bin/compare (compare) in auto mode update-alternatives: using /usr/bin/compare-im6.q16 to provide /usr/bin/compare-im6 (compare-im6) in auto mode update-alternatives: using /usr/bin/animate-im6.q16 to provide /usr/bin/animate (animate) in auto mode update-alternatives: using /usr/bin/animate-im6.q16 to provide /usr/bin/animate-im6 (animate-im6) in auto mode update-alternatives: using /usr/bin/convert-im6.q16 to provide /usr/bin/convert (convert) in auto mode update-alternatives: using /usr/bin/convert-im6.q16 to provide /usr/bin/convert-im6 (convert-im6) in auto mode update-alternatives: using /usr/bin/composite-im6.q16 to provide /usr/bin/composite (composite) in auto mode update-alternatives: using /usr/bin/composite-im6.q16 to provide /usr/bin/composite-im6 (composite-im6) in auto mode update-alternatives: using /usr/bin/conjure-im6.q16 to provide /usr/bin/conjure (conjure) in auto mode update-alternatives: using /usr/bin/conjure-im6.q16 to provide /usr/bin/conjure-im6 (conjure-im6) in auto mode update-alternatives: using /usr/bin/import-im6.q16 to provide /usr/bin/import (import) in auto mode update-alternatives: using /usr/bin/import-im6.q16 to provide /usr/bin/import-im6 (import-im6) in auto mode update-alternatives: using /usr/bin/identify-im6.q16 to provide /usr/bin/identify (identify) in auto mode update-alternatives: using /usr/bin/identify-im6.q16 to provide /usr/bin/identify-im6 (identify-im6) in auto mode update-alternatives: using /usr/bin/stream-im6.q16 to provide /usr/bin/stream (stream) in auto mode update-alternatives: using /usr/bin/stream-im6.q16 to provide /usr/bin/stream-im6 (stream-im6) in auto mode update-alternatives: using /usr/bin/display-im6.q16 to provide /usr/bin/display (display) in auto mode update-alternatives: using /usr/bin/display-im6.q16 to provide /usr/bin/display-im6 (display-im6) in auto mode update-alternatives: using /usr/bin/montage-im6.q16 to provide /usr/bin/montage (montage) in auto mode update-alternatives: using /usr/bin/montage-im6.q16 to provide /usr/bin/montage-im6 (montage-im6) in auto mode update-alternatives: using /usr/bin/mogrify-im6.q16 to provide /usr/bin/mogrify (mogrify) in auto mode update-alternatives: using /usr/bin/mogrify-im6.q16 to provide /usr/bin/mogrify-im6 (mogrify-im6) in auto mode Setting up imagemagick (8:6.9.12.98+dfsg1-5.1ubuntu1) ... Processing triggers for libc-bin (2.39-0ubuntu6) ... Processing triggers for systemd (255.4-1ubuntu4) ... Processing triggers for sgml-base (1.31) ... Setting up docutils-common (0.20.1+dfsg-3) ... Processing triggers for sgml-base (1.31) ... Setting up python3-docutils (0.20.1+dfsg-3) ... Setting up python3-sphinx (7.2.6-5) ... Setting up python3-myst-parser (2.0.0-1) ... Setting up python3-recommonmark (0.7.1+ds-5) ... /usr/lib/python3/dist-packages/recommonmark/transform.py:254: SyntaxWarning: invalid escape sequence '\w' match = re.search('[ ]?[\w_-]+::.*', language) Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... Processing triggers for tex-common (6.18) ... Running updmap-sys. This may take some time... done. Running mktexlsr /var/lib/texmf ... done. Building format(s) --all. This may take some time... done. +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (armhf included in any all) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 5.4.0-173-generic #191-Ubuntu SMP Fri Feb 2 13:54:37 UTC 2024 arm64 (armv7l) Toolchain package versions: binutils_2.42-3ubuntu1 dpkg-dev_1.22.5ubuntu4 g++-13_13.2.0-17ubuntu2 gcc-13_13.2.0-17ubuntu2 libc6-dev_2.39-0ubuntu6 libstdc++-13-dev_13.2.0-17ubuntu2 libstdc++6_14-20240303-1ubuntu1 linux-libc-dev_6.8.0-19.19 Package versions: adduser_3.137ubuntu1 advancecomp_2.5-1 apt_2.7.13ubuntu1 apt-utils_2.7.13ubuntu1 autoconf_2.71-3 automake_1:1.16.5-1.3ubuntu1 autopoint_0.21-14ubuntu1 autotools-dev_20220109.1 base-files_13ubuntu7 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texlive-fonts-recommended_2023.20240207-1 texlive-latex-base_2023.20240207-1 texlive-latex-extra_2023.20240207-1 texlive-latex-recommended_2023.20240207-1 texlive-pictures_2023.20240207-1 tzdata_2024a-1ubuntu1 ubuntu-keyring_2023.11.28.1 ucf_3.0043+nmu1 util-linux_2.39.3-9ubuntu2 uuid-dev_2.39.3-9ubuntu2 uuid-runtime_2.39.3-9ubuntu2 x11-common_1:7.7+23ubuntu2 x11proto-core-dev_2023.2-1 x11proto-dev_2023.2-1 xdg-utils_1.1.3-4.1ubuntu3 xfonts-encodings_1:1.0.5-0ubuntu2 xfonts-utils_1:7.7+6build2 xml-core_0.19 xorg-sgml-doctools_1:1.11-1.1 xtrans-dev_1.4.0-1 xz-utils_5.6.0-0.2 zlib1g_1:1.3.dfsg-3.1ubuntu1 zlib1g-dev_1:1.3.dfsg-3.1ubuntu1 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: rdkit Binary: python3-rdkit, rdkit-doc, rdkit-data, librdkit1, librdkit-dev, postgresql-16-rdkit Architecture: any all Version: 202309.3-3build1 Maintainer: Debichem Team Uploaders: Michael Banck Homepage: http://www.rdkit.org Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/debichem-team/rdkit Vcs-Git: https://salsa.debian.org/debichem-team/rdkit.git Testsuite: autopkgtest Testsuite-Triggers: dpkg-dev, make Build-Depends: bison, catch2, cmake, debhelper-compat (= 13), dh-python, doxygen, flex, imagemagick, latexmk, libboost-dev, libboost-iostreams-dev, libboost-python-dev, libboost-regex-dev, libboost-system-dev, libboost-thread-dev, libcairo2-dev, libcoordgen-dev, libeigen3-dev, libfreetype-dev, libmaeparser-dev, librsvg2-bin, libsqlite3-dev, pandoc, postgresql-server-dev-all, python3-dev, python3-myst-parser, python3-numpy, python3-pandas, python3-pil | python3-imaging, python3-recommonmark, python3-sphinx, python3-sqlalchemy, rapidjson-dev, tex-gyre, texlive-fonts-recommended, texlive-latex-base, texlive-latex-extra, texlive-latex-recommended Package-List: librdkit-dev deb libdevel optional arch=any librdkit1 deb libs optional arch=any postgresql-16-rdkit deb database optional arch=any python3-rdkit deb python optional arch=any rdkit-data deb science optional arch=all rdkit-doc deb doc optional arch=all Checksums-Sha1: 6441bee2cdbc2a1ee07d32fb6e1422f71b91a6ee 61897848 rdkit_202309.3.orig.tar.xz 6664a534589dae7727b429ccfc81234e20e2f8a4 24956 rdkit_202309.3-3build1.debian.tar.xz Checksums-Sha256: 59f424979d8f2773337ab99605dea4ab4cadbd6c7fd4598fe263d6c19de7a14c 61897848 rdkit_202309.3.orig.tar.xz 4673625672083918d78c232c3b53c7d98d3e17f18c595015a29714ab168048b5 24956 rdkit_202309.3-3build1.debian.tar.xz Files: 9414102f1ecf8a2a3f62bf46b95f65a7 61897848 rdkit_202309.3.orig.tar.xz 05ff7c55c5c241fc1cf882d5e7df346c 24956 rdkit_202309.3-3build1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEVovyKmYzfL/Jprm3LIPbyOm9DjcFAmXjizwACgkQLIPbyOm9 DjeENw/9GHjaFZwcTr7TH39bdHMnpTlMcyRnmObEUIW+E0no7cyKCoEftrKeiZWm 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info: unpacking rdkit_202309.3.orig.tar.xz dpkg-source: info: unpacking rdkit_202309.3-3build1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying NoDownloads.patch dpkg-source: info: applying postgres_Makefile_fixes.patch dpkg-source: info: applying sphinx_imgconverter.patch dpkg-source: info: applying postgres_alternative_test_outputs.patch dpkg-source: info: applying sphinx_compile_fixes.patch dpkg-source: info: applying extra_float_digits dpkg-source: info: applying pg16 Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=4 HOME=/sbuild-nonexistent LANG=C.UTF-8 LC_ALL=C.UTF-8 LOGNAME=buildd PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=build-PACKAGEBUILD-27864092 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-27864092 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-27864092 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- Command: dpkg-buildpackage -us -uc -mLaunchpad Build Daemon -B -rfakeroot dpkg-buildpackage: info: source package rdkit dpkg-buildpackage: info: source version 202309.3-3build1 dpkg-buildpackage: info: source distribution noble dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf debian/rules clean pg_buildext checkcontrol dh clean --with python3 --buildsystem=cmake debian/rules override_dh_auto_clean make[1]: Entering directory '/<>' find /<> -name "*.pyc" | xargs rm -f rm -f -r Projects/DbCLI/testData/bzr/ rdkit/Chem/inchi.py rm -f -r Docs/Book/_build Code/docs rdkit/docs Code/doxygen_sqlite3.db rm -f \ Code/ForceField/MMFF/test_data/MMFF94_dative_min.sdf \ Code/ForceField/MMFF/test_data/MMFF94_dative_min_from_SMILES.sdf \ Code/ForceField/MMFF/test_data/MMFF94_hypervalent_min.sdf \ Code/ForceField/MMFF/test_data/MMFF94_hypervalent_min_from_SMILES.sdf \ Code/ForceField/MMFF/test_data/MMFF94_reference.log \ Code/ForceField/MMFF/test_data/MMFF94s_reference.log \ Code/ForceField/MMFF/test_data/testMMFFForceField.log \ Code/GraphMol/Depictor/test_data/cis_trans_cpp.out.sdf \ Code/GraphMol/Depictor/test_data/collisions.out.sdf \ Code/GraphMol/Depictor/test_data/first_200.out.sdf \ Code/GraphMol/Depictor/test_data/test1.out.sdf \ Code/GraphMol/FileParsers/test_data/blah.sdf \ Code/GraphMol/FileParsers/test_data/cdk2_stereo.sdf \ Code/GraphMol/FileParsers/test_data/outNCI_few.sdf \ Code/GraphMol/FileParsers/test_data/outNCI_few.tdt \ Code/GraphMol/FileParsers/test_data/outNCI_first_200.props.sdf \ Code/GraphMol/FileParsers/test_data/outSmiles.csv \ Code/GraphMol/ForceFieldHelpers/UFF/test_data/Issue62.sdf \ Code/GraphMol/MolAlign/test_data/ref_e2_pyCrippenO3A.sdf \ Code/GraphMol/SLNParse/lex.yysln.cpp \ Code/GraphMol/SLNParse/sln.tab.cpp \ Code/GraphMol/SLNParse/sln.tab.hpp \ Code/GraphMol/SmilesParse/lex.yysmarts.cpp \ Code/GraphMol/SmilesParse/lex.yysmiles.cpp \ Code/GraphMol/SmilesParse/smarts.tab.cpp \ Code/GraphMol/SmilesParse/smarts.tab.hpp \ Code/GraphMol/SmilesParse/smiles.tab.cpp \ Code/GraphMol/SmilesParse/smiles.tab.hpp \ Code/GraphMol/Wrap/test_data/outNCI_few.sdf \ Code/GraphMol/Wrap/test_data/outSmiles.txt \ Code/RDGeneral/versions.cpp \ Docs/Book/Cartridge.rst \ Docs/Book/Install.rst \ Docs/Book/Overview.rst \ rdkit/ML/Data/test_data/testgeneral.dat.pkl \ rdkit/ML/Data/test_data/testquant.qdat.pkl rm -f Code/RDGeneral/versions.h rdkit/sping/tests/testallps.ps dh_auto_clean pg_buildext clean /<>/Code/PgSQL/rdkit build-%v rm -rf build-*/ make[1]: Leaving directory '/<>' dh_autoreconf_clean -O--buildsystem=cmake dh_clean -O--buildsystem=cmake debian/rules binary-arch dh binary-arch --with python3 --buildsystem=cmake dh_update_autotools_config -a -O--buildsystem=cmake dh_autoreconf -a -O--buildsystem=cmake debian/rules override_dh_auto_configure make[1]: Entering directory '/<>' dh_auto_configure -- -DCMAKE_BUILD_TYPE=None -DCMAKE_SKIP_RPATH=ON -DRDK_INSTALL_INTREE=OFF -DRDK_INSTALL_STATIC_LIBS=OFF -DRDK_BUILD_THREADSAFE_SSS=ON -DRDK_BUILD_PYTHON_WRAPPERS=ON -DRDK_OPTIMIZE_POPCNT=OFF -DRDK_USE_URF=OFF -DRDK_INSTALL_COMIC_FONTS=OFF -DRDK_BUILD_CAIRO_SUPPORT=ON -DBoost_NO_BOOST_CMAKE=TRUE -DCMAKE_INSTALL_PREFIX=/usr -DCATCH_DIR=/usr/include/catch2 -DPYTHON_EXECUTABLE=/usr/bin/python3.12 ../ cd obj-arm-linux-gnueabihf && DEB_PYTHON_INSTALL_LAYOUT=deb cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/arm-linux-gnueabihf -DCMAKE_BUILD_TYPE=None -DCMAKE_SKIP_RPATH=ON -DRDK_INSTALL_INTREE=OFF -DRDK_INSTALL_STATIC_LIBS=OFF -DRDK_BUILD_THREADSAFE_SSS=ON -DRDK_BUILD_PYTHON_WRAPPERS=ON -DRDK_OPTIMIZE_POPCNT=OFF -DRDK_USE_URF=OFF -DRDK_INSTALL_COMIC_FONTS=OFF -DRDK_BUILD_CAIRO_SUPPORT=ON -DBoost_NO_BOOST_CMAKE=TRUE -DCMAKE_INSTALL_PREFIX=/usr -DCATCH_DIR=/usr/include/catch2 -DPYTHON_EXECUTABLE=/usr/bin/python3.12 ../ .. -- The C compiler identification is GNU 13.2.0 -- The CXX compiler identification is GNU 13.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done CMake Warning (dev) at CMakeLists.txt:293 (find_package): Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules are removed. Run "cmake --help-policy CMP0148" for policy details. Use the cmake_policy command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. -- Found PythonInterp: /usr/bin/python3.12 (found version "3.12.2") CMake Warning (dev) at CMakeLists.txt:302 (find_package): Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules are removed. Run "cmake --help-policy CMP0148" for policy details. Use the cmake_policy command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. -- Found PythonLibs: /usr/lib/arm-linux-gnueabihf/libpython3.12.so (found version "3.12.2") CMake Warning (dev) at Code/cmake/Modules/FindNumPy.cmake:10 (find_package): Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules are removed. Run "cmake --help-policy CMP0148" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Call Stack (most recent call first): CMakeLists.txt:317 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at Code/cmake/Modules/FindNumPy.cmake:14 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): CMakeLists.txt:317 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning at /usr/share/cmake-3.28/Modules/FindBoost.cmake:2234 (message): No header defined for python-py312; skipping header check (note: header-only libraries have no designated component) Call Stack (most recent call first): CMakeLists.txt:331 (find_package) Python Install directory /usr/lib/python3.12/site-packages PYTHON Py_ENABLE_SHARED: 1 PYTHON USING LINK LINE: -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions nbval not found, disabling the jupyter tests -- Found Eigen3: /usr/include/eigen3 (Required is at least version "2.91.0") -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- Found Boost: /usr/include (found suitable version "1.83.0", minimum required is "1.58.0") found components: system serialization iostreams regex -- Found Boost: /usr/include (found suitable version "1.83.0", minimum required is "1.58.0") found components: system iostreams regex == Using strict rotor definition -- maeparser include dir set as '/usr/include' -- maeparser libraries set as '/usr/lib/arm-linux-gnueabihf/libmaeparser.so' -- Found maeparser: /usr/include -- coordgen include dir set as /usr/include -- coordgen libraries set as '/usr/lib/arm-linux-gnueabihf/libcoordgen.so' -- Found coordgen: /usr/include CMake Warning (dev) at Code/GraphMol/FilterCatalog/CMakeLists.txt:5 (find_package): Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules are removed. Run "cmake --help-policy CMP0148" for policy details. Use the cmake_policy command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. -- Found PkgConfig: /usr/bin/pkg-config (found version "1.8.1") -- Found Cairo: /usr/include/cairo -- Found Freetype: /usr/lib/arm-linux-gnueabihf/libfreetype.so (found version "2.13.2") -- Could NOT find Boost (missing: program_options) (found suitable version "1.83.0", minimum required is "1.58.0") -- Configuring done (5.4s) -- Generating done (4.9s) CMake Warning: Manually-specified variables were not used by the project: CATCH_DIR CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /<>/obj-arm-linux-gnueabihf make[1]: Leaving directory '/<>' debian/rules override_dh_auto_build make[1]: Entering directory '/<>' dh_auto_build cd obj-arm-linux-gnueabihf && make -j4 "INSTALL=install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/<>/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/<> -B/<>/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /<>/obj-arm-linux-gnueabihf/CMakeFiles /<>/obj-arm-linux-gnueabihf//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' make -f External/INCHI-API/CMakeFiles/inchi_support.dir/build.make External/INCHI-API/CMakeFiles/inchi_support.dir/depend make -f External/CoordGen/CMakeFiles/coordgen_support.dir/build.make External/CoordGen/CMakeFiles/coordgen_support.dir/depend make -f Code/RDGeneral/CMakeFiles/RDGeneral.dir/build.make Code/RDGeneral/CMakeFiles/RDGeneral.dir/depend make -f External/RingFamilies/CMakeFiles/ringdecomposerlib_support.dir/build.make External/RingFamilies/CMakeFiles/ringdecomposerlib_support.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/External/INCHI-API /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/External/INCHI-API /<>/obj-arm-linux-gnueabihf/External/INCHI-API/CMakeFiles/inchi_support.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/External/CoordGen /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/External/CoordGen /<>/obj-arm-linux-gnueabihf/External/CoordGen/CMakeFiles/coordgen_support.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/RDGeneral /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/RDGeneral /<>/obj-arm-linux-gnueabihf/Code/RDGeneral/CMakeFiles/RDGeneral.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/External/RingFamilies /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/External/RingFamilies /<>/obj-arm-linux-gnueabihf/External/RingFamilies/CMakeFiles/ringdecomposerlib_support.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f External/INCHI-API/CMakeFiles/inchi_support.dir/build.make External/INCHI-API/CMakeFiles/inchi_support.dir/build make -f External/CoordGen/CMakeFiles/coordgen_support.dir/build.make External/CoordGen/CMakeFiles/coordgen_support.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/RDGeneral/CMakeFiles/RDGeneral.dir/build.make Code/RDGeneral/CMakeFiles/RDGeneral.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/External/INCHI-API && /usr/bin/cmake -E copy /<>/External/INCHI-API/python/noinchi.py /<>/rdkit/Chem/inchi.py make -f External/RingFamilies/CMakeFiles/ringdecomposerlib_support.dir/build.make External/RingFamilies/CMakeFiles/ringdecomposerlib_support.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'External/CoordGen/CMakeFiles/coordgen_support.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'External/RingFamilies/CMakeFiles/ringdecomposerlib_support.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 0%] Built target coordgen_support make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 0%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/Invariant.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK 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-DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/RDGeneral/CMakeFiles/RDGeneral.dir/types.cpp.o -MF CMakeFiles/RDGeneral.dir/types.cpp.o.d -o CMakeFiles/RDGeneral.dir/types.cpp.o -c /<>/Code/RDGeneral/types.cpp make -f Code/RDGeneral/CMakeFiles/rdkitCatch.dir/build.make Code/RDGeneral/CMakeFiles/rdkitCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/RDGeneral /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/RDGeneral /<>/obj-arm-linux-gnueabihf/Code/RDGeneral/CMakeFiles/rdkitCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f External/GA/CMakeFiles/ga.dir/build.make External/GA/CMakeFiles/ga.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/RDGeneral/CMakeFiles/rdkitCatch.dir/build.make Code/RDGeneral/CMakeFiles/rdkitCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 0%] Building CXX object External/GA/CMakeFiles/ga.dir/ga/StringChromosome.cpp.o cd /<>/obj-arm-linux-gnueabihf/External/GA && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Dga_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT External/GA/CMakeFiles/ga.dir/ga/StringChromosome.cpp.o -MF CMakeFiles/ga.dir/ga/StringChromosome.cpp.o.d -o CMakeFiles/ga.dir/ga/StringChromosome.cpp.o -c /<>/External/GA/ga/StringChromosome.cpp [ 0%] Building CXX object Code/RDGeneral/CMakeFiles/rdkitCatch.dir/catch_main.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/RDGeneral/CMakeFiles/rdkitCatch.dir/catch_main.cpp.o -MF CMakeFiles/rdkitCatch.dir/catch_main.cpp.o.d -o CMakeFiles/rdkitCatch.dir/catch_main.cpp.o -c /<>/Code/RDGeneral/catch_main.cpp [ 0%] Building CXX object External/GA/CMakeFiles/ga.dir/ga/Chromosome.cpp.o cd /<>/obj-arm-linux-gnueabihf/External/GA && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Dga_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT External/GA/CMakeFiles/ga.dir/ga/Chromosome.cpp.o -MF CMakeFiles/ga.dir/ga/Chromosome.cpp.o.d -o CMakeFiles/ga.dir/ga/Chromosome.cpp.o -c /<>/External/GA/ga/Chromosome.cpp [ 1%] Building CXX object External/GA/CMakeFiles/ga.dir/ga/IntegerStringChromosomePolicy.cpp.o cd /<>/obj-arm-linux-gnueabihf/External/GA && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Dga_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT External/GA/CMakeFiles/ga.dir/ga/IntegerStringChromosomePolicy.cpp.o -MF CMakeFiles/ga.dir/ga/IntegerStringChromosomePolicy.cpp.o.d -o CMakeFiles/ga.dir/ga/IntegerStringChromosomePolicy.cpp.o -c /<>/External/GA/ga/IntegerStringChromosomePolicy.cpp [ 1%] Building CXX object External/GA/CMakeFiles/ga.dir/ga/BinaryStringChromosomePolicy.cpp.o cd /<>/obj-arm-linux-gnueabihf/External/GA && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Dga_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT External/GA/CMakeFiles/ga.dir/ga/BinaryStringChromosomePolicy.cpp.o -MF CMakeFiles/ga.dir/ga/BinaryStringChromosomePolicy.cpp.o.d -o CMakeFiles/ga.dir/ga/BinaryStringChromosomePolicy.cpp.o -c /<>/External/GA/ga/BinaryStringChromosomePolicy.cpp [ 1%] Building CXX object External/GA/CMakeFiles/ga.dir/util/RandomUtil.cpp.o cd /<>/obj-arm-linux-gnueabihf/External/GA && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Dga_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT External/GA/CMakeFiles/ga.dir/util/RandomUtil.cpp.o -MF CMakeFiles/ga.dir/util/RandomUtil.cpp.o.d -o CMakeFiles/ga.dir/util/RandomUtil.cpp.o -c /<>/External/GA/util/RandomUtil.cpp [ 1%] Linking CXX static library librdkitCatch.a cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/cmake -P CMakeFiles/rdkitCatch.dir/cmake_clean_target.cmake cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdkitCatch.dir/link.txt --verbose=1 /usr/bin/ar qc librdkitCatch.a CMakeFiles/rdkitCatch.dir/catch_main.cpp.o /usr/bin/ranlib librdkitCatch.a make[4]: Leaving 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-DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDStreams_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/RDStreams/CMakeFiles/RDStreams.dir/streams.cpp.o -MF CMakeFiles/RDStreams.dir/streams.cpp.o.d -o CMakeFiles/RDStreams.dir/streams.cpp.o -c /<>/Code/RDStreams/streams.cpp [ 2%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/utils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/RDGeneral/CMakeFiles/RDGeneral.dir/utils.cpp.o -MF CMakeFiles/RDGeneral.dir/utils.cpp.o.d -o CMakeFiles/RDGeneral.dir/utils.cpp.o -c /<>/Code/RDGeneral/utils.cpp [ 2%] Building CXX object External/GA/CMakeFiles/ga.dir/util/Util.cpp.o cd /<>/obj-arm-linux-gnueabihf/External/GA && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Dga_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT External/GA/CMakeFiles/ga.dir/util/Util.cpp.o -MF CMakeFiles/ga.dir/util/Util.cpp.o.d -o CMakeFiles/ga.dir/util/Util.cpp.o -c /<>/External/GA/util/Util.cpp [ 2%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/RDGeneralExceptions.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/RDGeneral/CMakeFiles/RDGeneral.dir/RDGeneralExceptions.cpp.o -MF CMakeFiles/RDGeneral.dir/RDGeneralExceptions.cpp.o.d -o CMakeFiles/RDGeneral.dir/RDGeneralExceptions.cpp.o -c /<>/Code/RDGeneral/RDGeneralExceptions.cpp [ 2%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/RDLog.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/RDGeneral/CMakeFiles/RDGeneral.dir/RDLog.cpp.o -MF CMakeFiles/RDGeneral.dir/RDLog.cpp.o.d -o CMakeFiles/RDGeneral.dir/RDLog.cpp.o -c /<>/Code/RDGeneral/RDLog.cpp [ 2%] Linking CXX shared library ../../lib/libRDKitga.so cd /<>/obj-arm-linux-gnueabihf/External/GA && /usr/bin/cmake -E cmake_link_script CMakeFiles/ga.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitga.so.1 -o ../../lib/libRDKitga.so.1.2023.09.3 CMakeFiles/ga.dir/ga/StringChromosome.cpp.o CMakeFiles/ga.dir/ga/Chromosome.cpp.o CMakeFiles/ga.dir/ga/IntegerStringChromosomePolicy.cpp.o CMakeFiles/ga.dir/ga/BinaryStringChromosomePolicy.cpp.o CMakeFiles/ga.dir/util/RandomUtil.cpp.o CMakeFiles/ga.dir/util/Util.cpp.o /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so cd /<>/obj-arm-linux-gnueabihf/External/GA && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitga.so.1.2023.09.3 ../../lib/libRDKitga.so.1 ../../lib/libRDKitga.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 2%] Built target ga make -f Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ML/Cluster/Murtagh /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ML/Cluster/Murtagh /<>/obj-arm-linux-gnueabihf/Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 2%] Building C object Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/hc.c.o cd /<>/obj-arm-linux-gnueabihf/Code/ML/Cluster/Murtagh && /usr/bin/cc -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_HC_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Dhc_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -fPIC -fPIC -MD -MT Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/hc.c.o -MF CMakeFiles/hc.dir/hc.c.o.d -o CMakeFiles/hc.dir/hc.c.o -c /<>/Code/ML/Cluster/Murtagh/hc.c [ 2%] Building C object Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/hcdriver.c.o cd /<>/obj-arm-linux-gnueabihf/Code/ML/Cluster/Murtagh && /usr/bin/cc -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_HC_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Dhc_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -fPIC -fPIC -MD -MT Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/hcdriver.c.o -MF CMakeFiles/hc.dir/hcdriver.c.o.d -o CMakeFiles/hc.dir/hcdriver.c.o -c /<>/Code/ML/Cluster/Murtagh/hcdriver.c [ 2%] Linking C shared library ../../../../lib/libRDKithc.so cd /<>/obj-arm-linux-gnueabihf/Code/ML/Cluster/Murtagh && /usr/bin/cmake -E cmake_link_script CMakeFiles/hc.dir/link.txt --verbose=1 /usr/bin/cc -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKithc.so.1 -o ../../../../lib/libRDKithc.so.1.2023.09.3 CMakeFiles/hc.dir/hc.c.o CMakeFiles/hc.dir/hcdriver.c.o /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so 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-DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/RDGeneral/CMakeFiles/RDGeneral.dir/LocaleSwitcher.cpp.o -MF CMakeFiles/RDGeneral.dir/LocaleSwitcher.cpp.o.d -o CMakeFiles/RDGeneral.dir/LocaleSwitcher.cpp.o -c /<>/Code/RDGeneral/LocaleSwitcher.cpp [ 2%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/versions.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/RDGeneral/CMakeFiles/RDGeneral.dir/versions.cpp.o -MF CMakeFiles/RDGeneral.dir/versions.cpp.o.d -o CMakeFiles/RDGeneral.dir/versions.cpp.o -c /<>/Code/RDGeneral/versions.cpp [ 2%] Linking CXX shared library ../../lib/libRDKitRDStreams.so cd /<>/obj-arm-linux-gnueabihf/Code/RDStreams && /usr/bin/cmake -E cmake_link_script CMakeFiles/RDStreams.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitRDStreams.so.1 -o ../../lib/libRDKitRDStreams.so.1.2023.09.3 CMakeFiles/RDStreams.dir/streams.cpp.o /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so cd /<>/obj-arm-linux-gnueabihf/Code/RDStreams && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitRDStreams.so.1.2023.09.3 ../../lib/libRDKitRDStreams.so.1 ../../lib/libRDKitRDStreams.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 2%] Built target RDStreams [ 2%] Linking CXX shared library ../../lib/libRDKitRDGeneral.so cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/cmake -E cmake_link_script CMakeFiles/RDGeneral.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitRDGeneral.so.1 -o ../../lib/libRDKitRDGeneral.so.1.2023.09.3 CMakeFiles/RDGeneral.dir/Invariant.cpp.o CMakeFiles/RDGeneral.dir/types.cpp.o CMakeFiles/RDGeneral.dir/utils.cpp.o CMakeFiles/RDGeneral.dir/RDGeneralExceptions.cpp.o CMakeFiles/RDGeneral.dir/RDLog.cpp.o CMakeFiles/RDGeneral.dir/LocaleSwitcher.cpp.o CMakeFiles/RDGeneral.dir/versions.cpp.o -ldl /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitRDGeneral.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1 ../../lib/libRDKitRDGeneral.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 2%] Built target RDGeneral make -f Code/DataStructs/CMakeFiles/DataStructs.dir/build.make Code/DataStructs/CMakeFiles/DataStructs.dir/depend make -f Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build.make Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/depend make -f Code/RDBoost/CMakeFiles/RDBoost.dir/build.make Code/RDBoost/CMakeFiles/RDBoost.dir/depend make -f Code/RDGeneral/CMakeFiles/testDict.dir/build.make Code/RDGeneral/CMakeFiles/testDict.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/DataStructs /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/DataStructs /<>/obj-arm-linux-gnueabihf/Code/DataStructs/CMakeFiles/DataStructs.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Numerics/EigenSolvers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Numerics/EigenSolvers /<>/obj-arm-linux-gnueabihf/Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/RDBoost /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/RDBoost /<>/obj-arm-linux-gnueabihf/Code/RDBoost/CMakeFiles/RDBoost.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/RDGeneral /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/RDGeneral /<>/obj-arm-linux-gnueabihf/Code/RDGeneral/CMakeFiles/testDict.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build.make Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/RDBoost/CMakeFiles/RDBoost.dir/build.make Code/RDBoost/CMakeFiles/RDBoost.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/DataStructs/CMakeFiles/DataStructs.dir/build.make Code/DataStructs/CMakeFiles/DataStructs.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make -f Code/RDGeneral/CMakeFiles/testDict.dir/build.make Code/RDGeneral/CMakeFiles/testDict.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 2%] Building CXX object Code/RDBoost/CMakeFiles/RDBoost.dir/Wrap.cpp.o [ 2%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/BitVect.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/RDBoost && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDBoost_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDBOOST_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/RDBoost/CMakeFiles/RDBoost.dir/Wrap.cpp.o -MF CMakeFiles/RDBoost.dir/Wrap.cpp.o.d -o CMakeFiles/RDBoost.dir/Wrap.cpp.o -c /<>/Code/RDBoost/Wrap.cpp cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/DataStructs/CMakeFiles/DataStructs.dir/BitVect.cpp.o -MF CMakeFiles/DataStructs.dir/BitVect.cpp.o.d -o CMakeFiles/DataStructs.dir/BitVect.cpp.o -c /<>/Code/DataStructs/BitVect.cpp [ 2%] Building CXX object Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/PowerEigenSolver.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Numerics/EigenSolvers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DEigenSolvers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_EIGENSOLVERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/PowerEigenSolver.cpp.o -MF CMakeFiles/EigenSolvers.dir/PowerEigenSolver.cpp.o.d -o CMakeFiles/EigenSolvers.dir/PowerEigenSolver.cpp.o -c /<>/Code/Numerics/EigenSolvers/PowerEigenSolver.cpp [ 2%] Building CXX object Code/RDGeneral/CMakeFiles/testDict.dir/testDict.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/RDGeneral/CMakeFiles/testDict.dir/testDict.cpp.o -MF CMakeFiles/testDict.dir/testDict.cpp.o.d -o CMakeFiles/testDict.dir/testDict.cpp.o -c /<>/Code/RDGeneral/testDict.cpp [ 2%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/SparseBitVect.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/DataStructs/CMakeFiles/DataStructs.dir/SparseBitVect.cpp.o -MF CMakeFiles/DataStructs.dir/SparseBitVect.cpp.o.d -o CMakeFiles/DataStructs.dir/SparseBitVect.cpp.o -c /<>/Code/DataStructs/SparseBitVect.cpp [ 2%] Linking CXX shared library ../../../lib/libRDKitEigenSolvers.so cd /<>/obj-arm-linux-gnueabihf/Code/Numerics/EigenSolvers && /usr/bin/cmake -E cmake_link_script CMakeFiles/EigenSolvers.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitEigenSolvers.so.1 -o ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 CMakeFiles/EigenSolvers.dir/PowerEigenSolver.cpp.o ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/Numerics/EigenSolvers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1 ../../../lib/libRDKitEigenSolvers.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 2%] Built target EigenSolvers make -f Code/RDGeneral/CMakeFiles/testRDValue.dir/build.make Code/RDGeneral/CMakeFiles/testRDValue.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/RDGeneral /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/RDGeneral /<>/obj-arm-linux-gnueabihf/Code/RDGeneral/CMakeFiles/testRDValue.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/RDGeneral/CMakeFiles/testRDValue.dir/build.make Code/RDGeneral/CMakeFiles/testRDValue.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 3%] Building CXX object Code/RDGeneral/CMakeFiles/testRDValue.dir/testRDValue.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/RDGeneral/CMakeFiles/testRDValue.dir/testRDValue.cpp.o -MF CMakeFiles/testRDValue.dir/testRDValue.cpp.o.d -o CMakeFiles/testRDValue.dir/testRDValue.cpp.o -c /<>/Code/RDGeneral/testRDValue.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/RDGeneral/types.h:27, from /<>/Code/RDGeneral/testDict.cpp:14: /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(iterator) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:181:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 181 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/Code/RDBoost/Wrap.cpp:17: /<>/Code/RDBoost/PySequenceHolder.h: In member function ‘T PySequenceHolder::operator[](unsigned int) const [with T = double]’: /<>/Code/RDBoost/PySequenceHolder.h:68:9: warning: ‘*(const double*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 68 | T res = python::extract(d_seq[which]); | ^~~ /<>/Code/RDBoost/PySequenceHolder.h:68:23: note: ‘’ declared here 68 | T res = python::extract(d_seq[which]); | ^~~~~~~~~~~~~~~~~~~~~~~~ [ 3%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/ExplicitBitVect.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/DataStructs/CMakeFiles/DataStructs.dir/ExplicitBitVect.cpp.o -MF CMakeFiles/DataStructs.dir/ExplicitBitVect.cpp.o.d -o CMakeFiles/DataStructs.dir/ExplicitBitVect.cpp.o -c /<>/Code/DataStructs/ExplicitBitVect.cpp In file included from /usr/include/c++/13/vector:66: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void RDKit::Dict::clearVal(const std::string&)’ at /<>/Code/RDGeneral/Dict.h:320:20, inlined from ‘void testGithub2910()’ at /<>/Code/RDGeneral/testDict.cpp:717:13: /usr/include/c++/13/bits/stl_vector.h:1532:24: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1532 | { return _M_erase(begin() + (__position - cbegin())); } | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void RDKit::Dict::clearVal(const std::string&)’ at /<>/Code/RDGeneral/Dict.h:320:20, inlined from ‘void testGithub2910()’ at /<>/Code/RDGeneral/testDict.cpp:718:13: /usr/include/c++/13/bits/stl_vector.h:1532:24: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1532 | { return _M_erase(begin() + (__position - cbegin())); } | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void RDKit::Dict::clearVal(const std::string&)’ at /<>/Code/RDGeneral/Dict.h:320:20, inlined from ‘void testGithub2910()’ at /<>/Code/RDGeneral/testDict.cpp:719:13: /usr/include/c++/13/bits/stl_vector.h:1532:24: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1532 | { return _M_erase(begin() + (__position - cbegin())); } | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void RDKit::Dict::clearVal(const std::string&)’ at /<>/Code/RDGeneral/Dict.h:320:20, inlined from ‘void testGithub940()’ at /<>/Code/RDGeneral/testDict.cpp:55:16: /usr/include/c++/13/bits/stl_vector.h:1532:24: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1532 | { return _M_erase(begin() + (__position - cbegin())); } | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ [ 3%] Linking CXX shared library ../../lib/libRDKitRDBoost.so cd /<>/obj-arm-linux-gnueabihf/Code/RDBoost && /usr/bin/cmake -E cmake_link_script CMakeFiles/RDBoost.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitRDBoost.so.1 -o ../../lib/libRDKitRDBoost.so.1.2023.09.3 CMakeFiles/RDBoost.dir/Wrap.cpp.o ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so In file included from /usr/include/c++/13/memory:69, from /usr/include/boost/iostreams/stream_buffer.hpp:15, from /usr/include/boost/iostreams/stream.hpp:21, from /<>/Code/RDGeneral/RDLog.h:18: /usr/include/c++/13/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*]’: /usr/include/c++/13/bits/stl_uninitialized.h:113:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 113 | __do_uninit_copy(_InputIterator __first, _InputIterator __last, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_uninitialized.h:113:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 cd /<>/obj-arm-linux-gnueabihf/Code/RDBoost && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../lib/libRDKitRDBoost.so.1 ../../lib/libRDKitRDBoost.so In static member function ‘static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*; bool _TrivialValueTypes = false]’, inlined from ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*]’ at /usr/include/c++/13/bits/stl_uninitialized.h:185:15, inlined from ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*; _Tp = RDKit::Dict::Pair]’ at /usr/include/c++/13/bits/stl_uninitialized.h:373:37, inlined from ‘std::vector<_Tp, _Alloc>::pointer std::vector<_Tp, _Alloc>::_M_allocate_and_copy(size_type, _ForwardIterator, _ForwardIterator) [with _ForwardIterator = __gnu_cxx::__normal_iterator >; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1619:35, inlined from ‘std::vector<_Tp, _Alloc>& std::vector<_Tp, _Alloc>::operator=(const std::vector<_Tp, _Alloc>&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/vector.tcc:238:44, inlined from ‘RDKit::Dict& RDKit::Dict::operator=(const RDKit::Dict&)’ at /<>/Code/RDGeneral/Dict.h:113:21: /usr/include/c++/13/bits/stl_uninitialized.h:137:39: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 137 | { return std::__do_uninit_copy(__first, __last, __result); } | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 3%] Built target RDBoost make -f Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/build.make Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/RDGeneral /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/RDGeneral /<>/obj-arm-linux-gnueabihf/Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/build.make Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 3%] Building CXX object Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/testConcurrentQueue.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/testConcurrentQueue.cpp.o -MF CMakeFiles/testConcurrentQueue.dir/testConcurrentQueue.cpp.o.d -o CMakeFiles/testConcurrentQueue.dir/testConcurrentQueue.cpp.o -c /<>/Code/RDGeneral/testConcurrentQueue.cpp In static member function ‘static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*; bool _TrivialValueTypes = false]’, inlined from ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*]’ at /usr/include/c++/13/bits/stl_uninitialized.h:185:15, inlined from ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*; _Tp = RDKit::Dict::Pair]’ at /usr/include/c++/13/bits/stl_uninitialized.h:373:37, inlined from ‘std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:603:31, inlined from ‘RDKit::Dict::Dict(const RDKit::Dict&)’ at /<>/Code/RDGeneral/Dict.h:51:29: /usr/include/c++/13/bits/stl_uninitialized.h:137:39: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 137 | { return std::__do_uninit_copy(__first, __last, __result); } | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘void testRDAny()’ at /<>/Code/RDGeneral/testDict.cpp:173:18: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void testVectToString()’ at /<>/Code/RDGeneral/testDict.cpp:444:16: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void testVectToString()’ at /<>/Code/RDGeneral/testDict.cpp:445:16: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 4%] Linking CXX executable testConcurrentQueue cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/cmake -E cmake_link_script CMakeFiles/testConcurrentQueue.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testConcurrentQueue.dir/testConcurrentQueue.cpp.o -o testConcurrentQueue ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 4%] Built target testConcurrentQueue make -f Code/RDGeneral/CMakeFiles/dictTestsCatch.dir/build.make Code/RDGeneral/CMakeFiles/dictTestsCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/RDGeneral /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/RDGeneral /<>/obj-arm-linux-gnueabihf/Code/RDGeneral/CMakeFiles/dictTestsCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/RDGeneral/CMakeFiles/dictTestsCatch.dir/build.make Code/RDGeneral/CMakeFiles/dictTestsCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 4%] Building CXX object Code/RDGeneral/CMakeFiles/dictTestsCatch.dir/catch_dict.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/RDGeneral/CMakeFiles/dictTestsCatch.dir/catch_dict.cpp.o -MF CMakeFiles/dictTestsCatch.dir/catch_dict.cpp.o.d -o CMakeFiles/dictTestsCatch.dir/catch_dict.cpp.o -c /<>/Code/RDGeneral/catch_dict.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/RDGeneral/RDValue-taggedunion.h:36, from /<>/Code/RDGeneral/RDValue.h:39, from /<>/Code/RDGeneral/testRDValue.cpp:2: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 4%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/Utils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/DataStructs/CMakeFiles/DataStructs.dir/Utils.cpp.o -MF CMakeFiles/DataStructs.dir/Utils.cpp.o.d -o CMakeFiles/DataStructs.dir/Utils.cpp.o -c /<>/Code/DataStructs/Utils.cpp /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const long double&}; _Tp = long double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘void testVector() [with T = double]’ at /<>/Code/RDGeneral/testRDValue.cpp:71:17: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘void testVector() [with T = double]’ at /<>/Code/RDGeneral/testRDValue.cpp:72:17: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void testVector() [with T = double]’ at /<>/Code/RDGeneral/testRDValue.cpp:73:17: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {long double}; _Tp = long double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = long double; _Alloc = std::allocator]’, inlined from ‘void testVector() [with T = long double]’ at /<>/Code/RDGeneral/testRDValue.cpp:71:17: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator > >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = long double; _Alloc = std::allocator]’, inlined from ‘void testVector() [with T = long double]’ at /<>/Code/RDGeneral/testRDValue.cpp:72:17: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator > >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {long double}; _Tp = long double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = long double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void testVector() [with T = long double]’ at /<>/Code/RDGeneral/testRDValue.cpp:73:17: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator > >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 4%] Linking CXX executable testDict cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDict.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testDict.dir/testDict.cpp.o -o testDict ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 4%] Built target testDict make -f Code/RDGeneral/CMakeFiles/logTestsCatch.dir/build.make Code/RDGeneral/CMakeFiles/logTestsCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/RDGeneral /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/RDGeneral /<>/obj-arm-linux-gnueabihf/Code/RDGeneral/CMakeFiles/logTestsCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/RDGeneral/CMakeFiles/logTestsCatch.dir/build.make Code/RDGeneral/CMakeFiles/logTestsCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 4%] Building CXX object Code/RDGeneral/CMakeFiles/logTestsCatch.dir/catch_logs.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/RDGeneral/CMakeFiles/logTestsCatch.dir/catch_logs.cpp.o -MF CMakeFiles/logTestsCatch.dir/catch_logs.cpp.o.d -o CMakeFiles/logTestsCatch.dir/catch_logs.cpp.o -c /<>/Code/RDGeneral/catch_logs.cpp [ 4%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/base64.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/DataStructs/CMakeFiles/DataStructs.dir/base64.cpp.o -MF CMakeFiles/DataStructs.dir/base64.cpp.o.d -o CMakeFiles/DataStructs.dir/base64.cpp.o -c /<>/Code/DataStructs/base64.cpp [ 4%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/BitOps.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/DataStructs/CMakeFiles/DataStructs.dir/BitOps.cpp.o -MF CMakeFiles/DataStructs.dir/BitOps.cpp.o.d -o CMakeFiles/DataStructs.dir/BitOps.cpp.o -c /<>/Code/DataStructs/BitOps.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/catch2/interfaces/catch_interfaces_config.hpp:17, from /usr/include/catch2/benchmark/catch_benchmark.hpp:20, from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, from /usr/include/catch2/catch_all.hpp:25, from /<>/Code/RDGeneral/catch_dict.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 4%] Linking CXX executable testRDValue cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/cmake -E cmake_link_script CMakeFiles/testRDValue.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testRDValue.dir/testRDValue.cpp.o -o testRDValue ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 4%] Built target testRDValue make -f Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build.make Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/RDBoost/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/RDBoost/Wrap /<>/obj-arm-linux-gnueabihf/Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build.make Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 4%] Building CXX object Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/RDBase.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/RDBoost/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdBase_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/RDBase.cpp.o -MF CMakeFiles/rdBase.dir/RDBase.cpp.o.d -o CMakeFiles/rdBase.dir/RDBase.cpp.o -c /<>/Code/RDBoost/Wrap/RDBase.cpp [ 4%] Linking CXX executable logTestsCatch cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/cmake -E cmake_link_script CMakeFiles/logTestsCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/logTestsCatch.dir/catch_logs.cpp.o -o logTestsCatch librdkitCatch.a ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/libCatch2.a /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl [ 4%] Linking CXX executable dictTestsCatch cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/cmake -E cmake_link_script 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/usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 4%] Built target logTestsCatch make -f Code/Numerics/CMakeFiles/testMatrices.dir/build.make Code/Numerics/CMakeFiles/testMatrices.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Numerics /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Numerics /<>/obj-arm-linux-gnueabihf/Code/Numerics/CMakeFiles/testMatrices.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Numerics/CMakeFiles/testMatrices.dir/build.make Code/Numerics/CMakeFiles/testMatrices.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 4%] Building CXX object Code/Numerics/CMakeFiles/testMatrices.dir/testMatrices.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Numerics && 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-DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/DataStructs/CMakeFiles/DataStructs.dir/DiscreteValueVect.cpp.o -MF CMakeFiles/DataStructs.dir/DiscreteValueVect.cpp.o.d -o CMakeFiles/DataStructs.dir/DiscreteValueVect.cpp.o -c /<>/Code/DataStructs/DiscreteValueVect.cpp [ 5%] Building CXX object 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-Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/Catalogs/CMakeFiles/Catalogs.dir/CatalogParams.cpp.o -MF CMakeFiles/Catalogs.dir/CatalogParams.cpp.o.d -o CMakeFiles/Catalogs.dir/CatalogParams.cpp.o -c /<>/Code/Catalogs/CatalogParams.cpp [ 5%] Building CXX object Code/Catalogs/CMakeFiles/Catalogs.dir/CatalogEntry.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Catalogs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DCatalogs_EXPORTS -DRDKIT_CATALOGS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/Catalogs/CMakeFiles/Catalogs.dir/CatalogEntry.cpp.o -MF CMakeFiles/Catalogs.dir/CatalogEntry.cpp.o.d -o CMakeFiles/Catalogs.dir/CatalogEntry.cpp.o -c /<>/Code/Catalogs/CatalogEntry.cpp [ 5%] Linking CXX shared library ../../lib/libRDKitCatalogs.so cd /<>/obj-arm-linux-gnueabihf/Code/Catalogs && /usr/bin/cmake -E cmake_link_script CMakeFiles/Catalogs.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitCatalogs.so.1 -o ../../lib/libRDKitCatalogs.so.1.2023.09.3 CMakeFiles/Catalogs.dir/Catalog.cpp.o CMakeFiles/Catalogs.dir/CatalogParams.cpp.o CMakeFiles/Catalogs.dir/CatalogEntry.cpp.o ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/Catalogs && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../lib/libRDKitCatalogs.so.1 ../../lib/libRDKitCatalogs.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 5%] Built target Catalogs make -f Code/Query/CMakeFiles/testQuery.dir/build.make Code/Query/CMakeFiles/testQuery.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Query /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Query /<>/obj-arm-linux-gnueabihf/Code/Query/CMakeFiles/testQuery.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Query/CMakeFiles/testQuery.dir/build.make Code/Query/CMakeFiles/testQuery.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 5%] Building CXX object Code/Query/CMakeFiles/testQuery.dir/test.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Query && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/Query/CMakeFiles/testQuery.dir/test.cpp.o -MF CMakeFiles/testQuery.dir/test.cpp.o.d -o CMakeFiles/testQuery.dir/test.cpp.o -c /<>/Code/Query/test.cpp [ 5%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/FPBReader.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/DataStructs/CMakeFiles/DataStructs.dir/FPBReader.cpp.o -MF CMakeFiles/DataStructs.dir/FPBReader.cpp.o.d -o CMakeFiles/DataStructs.dir/FPBReader.cpp.o -c /<>/Code/DataStructs/FPBReader.cpp [ 5%] Linking CXX executable testMatrices cd /<>/obj-arm-linux-gnueabihf/Code/Numerics && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMatrices.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testMatrices.dir/testMatrices.cpp.o -o testMatrices ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 5%] Built target testMatrices make -f Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build.make Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/DataManip/MetricMatrixCalc /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/DataManip/MetricMatrixCalc /<>/obj-arm-linux-gnueabihf/Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build.make Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 5%] Building CXX object Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/testMatCalc.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataManip/MetricMatrixCalc && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/testMatCalc.cpp.o -MF CMakeFiles/testMatCalc.dir/testMatCalc.cpp.o.d -o CMakeFiles/testMatCalc.dir/testMatCalc.cpp.o -c /<>/Code/DataManip/MetricMatrixCalc/testMatCalc.cpp [ 5%] Linking CXX executable testMatCalc cd /<>/obj-arm-linux-gnueabihf/Code/DataManip/MetricMatrixCalc && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMatCalc.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testMatCalc.dir/testMatCalc.cpp.o -o testMatCalc ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 5%] Built target testMatCalc make -f Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/SimDivPickers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 5%] Building CXX object Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/DistPicker.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SIMDIVPICKERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSimDivPickers_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/DistPicker.cpp.o -MF CMakeFiles/SimDivPickers.dir/DistPicker.cpp.o.d -o CMakeFiles/SimDivPickers.dir/DistPicker.cpp.o -c /<>/Code/SimDivPickers/DistPicker.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/boost/dynamic_bitset/dynamic_bitset.hpp:27, from /usr/include/boost/dynamic_bitset.hpp:15, from /<>/Code/DataStructs/ExplicitBitVect.h:16, from /<>/Code/DataStructs/FPBReader.cpp:15: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double&, long long unsigned int}; _Tp = std::pair; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double&, long long unsigned int}; _Tp = std::pair; _Alloc = std::allocator >]’, inlined from ‘void RDKit::detail::tanimotoNeighbors(const FPBReader_impl*, const uint8_t*, double, std::vector >&, bool, unsigned int)’ at /<>/Code/DataStructs/FPBReader.cpp:474:25: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double&, long long unsigned int&}; _Tp = std::pair; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double&, long long unsigned int&}; _Tp = std::pair; _Alloc = std::allocator >]’, inlined from ‘void RDKit::detail::tverskyNeighbors(const FPBReader_impl*, const uint8_t*, double, double, double, std::vector >&, bool)’ at /<>/Code/DataStructs/FPBReader.cpp:528:23: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /usr/include/boost/dynamic_bitset/dynamic_bitset.hpp:25: /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1812 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/13/bits/stl_algo.h:1854:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1854 | __final_insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1854:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_algo.h:1859:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1859 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1864:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1864 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algo.h:61: /usr/include/c++/13/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Distance = int; _Tp = pair; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/13/bits/stl_heap.h:224:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1918 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_algo.h:1932:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1932 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator*, vector > >; _Compare = Rankers::]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘std::vector > RDKit::FPBReader::getTverskyNeighbors(const uint8_t*, double, double, double, bool) const’ at /<>/Code/DataStructs/FPBReader.cpp:745:12: /usr/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1947 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1948 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1949 | __comp); | ~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1950:38: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1950 | std::__final_insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator*, vector > >; _Compare = Rankers::]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘std::vector > RDKit::FPBReader::getTanimotoNeighbors(const uint8_t*, double, bool) const’ at /<>/Code/DataStructs/FPBReader.cpp:711:12: /usr/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1947 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1948 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1949 | __comp); | ~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1950:38: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1950 | std::__final_insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ [ 5%] Building CXX object Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/MaxMinPicker.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SIMDIVPICKERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSimDivPickers_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/MaxMinPicker.cpp.o -MF CMakeFiles/SimDivPickers.dir/MaxMinPicker.cpp.o.d -o CMakeFiles/SimDivPickers.dir/MaxMinPicker.cpp.o -c /<>/Code/SimDivPickers/MaxMinPicker.cpp [ 5%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/MultiFPBReader.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall 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../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 5%] Built target testQuery make -f Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ML/Cluster/Murtagh /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ML/Cluster/Murtagh /<>/obj-arm-linux-gnueabihf/Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 5%] Building CXX object Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/Clustering.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ML/Cluster/Murtagh && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DClustering_EXPORTS -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/Clustering.cpp.o -MF CMakeFiles/Clustering.dir/Clustering.cpp.o.d -o CMakeFiles/Clustering.dir/Clustering.cpp.o -c /<>/Code/ML/Cluster/Murtagh/Clustering.cpp [ 6%] Building CXX object Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/HierarchicalClusterPicker.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SIMDIVPICKERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSimDivPickers_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/HierarchicalClusterPicker.cpp.o -MF CMakeFiles/SimDivPickers.dir/HierarchicalClusterPicker.cpp.o.d -o CMakeFiles/SimDivPickers.dir/HierarchicalClusterPicker.cpp.o -c /<>/Code/SimDivPickers/HierarchicalClusterPicker.cpp In file included from /usr/include/c++/13/algorithm:61, from /usr/include/boost/iterator/iterator_concepts.hpp:26, from /usr/include/boost/range/concepts.hpp:20, from /usr/include/boost/range/size_type.hpp:20, from /usr/include/boost/range/size.hpp:21, from /usr/include/boost/range/functions.hpp:20, from /usr/include/boost/range/iterator_range_core.hpp:38, from /usr/include/boost/range/iterator_range.hpp:13, from /usr/include/boost/iostreams/traits.hpp:38, from /usr/include/boost/iostreams/detail/call_traits.hpp:15, from /usr/include/boost/iostreams/detail/adapter/device_adapter.hpp:22, from /usr/include/boost/iostreams/tee.hpp:18, from /<>/Code/RDGeneral/RDLog.h:17, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/DataStructs/MultiFPBReader.cpp:11: /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Val_comp_iter >]’: /usr/include/c++/13/bits/stl_algo.h:1792:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1792 | __unguarded_linear_insert(_RandomAccessIterator __last, | ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1812 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 In file included from /usr/include/c++/13/bits/stl_algo.h:61: /usr/include/c++/13/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Distance = int; _Tp = tuple; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/13/bits/stl_heap.h:224:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1918 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_algo.h:1932:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1932 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {std::tuple}; _Tp = std::tuple; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::tuple}; _Tp = std::tuple; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator*, vector > >; _Compare = RDKit::{anonymous}::]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘void RDKit::{anonymous}::generic_nbr_helper(std::vector >&, T, const sim_args&, unsigned int) [with T = void (*)(unsigned int, unsigned int, const sim_args*)]’ at /<>/Code/DataStructs/MultiFPBReader.cpp:125:12: /usr/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1947 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1948 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1949 | __comp); | ~~~~~~~ In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’, inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’ at /usr/include/c++/13/bits/stl_algo.h:1950:31, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator*, vector > >; _Compare = RDKit::{anonymous}::]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘void RDKit::{anonymous}::generic_nbr_helper(std::vector >&, T, const sim_args&, unsigned int) [with T = void (*)(unsigned int, unsigned int, const sim_args*)]’ at /<>/Code/DataStructs/MultiFPBReader.cpp:125:12: /usr/include/c++/13/bits/stl_algo.h:1859:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1859 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1864:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1864 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/RDBoost/Wrap/RDBase.cpp:10: /usr/include/c++/13/bits/stl_algobase.h: In function ‘_RandomAccessIterator std::__find_if(_RandomAccessIterator, _RandomAccessIterator, _Predicate, random_access_iterator_tag) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Predicate = __gnu_cxx::__ops::_Iter_equals_val]’: /usr/include/c++/13/bits/stl_algobase.h:2064:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2064 | __find_if(_RandomAccessIterator __first, _RandomAccessIterator __last, | ^~~~~~~~~ /usr/include/c++/13/bits/stl_algobase.h:2064:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In file included from /usr/include/c++/13/vector:72, from /usr/include/c++/13/functional:64, from /usr/include/boost/config/no_tr1/functional.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:15, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10: /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(iterator, iterator) [with _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:195:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 195 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc:195:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 [ 6%] Linking CXX shared library ../../lib/libRDKitDataStructs.so cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/DataStructs.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitDataStructs.so.1 -o ../../lib/libRDKitDataStructs.so.1.2023.09.3 CMakeFiles/DataStructs.dir/BitVect.cpp.o CMakeFiles/DataStructs.dir/SparseBitVect.cpp.o CMakeFiles/DataStructs.dir/ExplicitBitVect.cpp.o CMakeFiles/DataStructs.dir/Utils.cpp.o CMakeFiles/DataStructs.dir/base64.cpp.o CMakeFiles/DataStructs.dir/BitOps.cpp.o CMakeFiles/DataStructs.dir/DiscreteDistMat.cpp.o CMakeFiles/DataStructs.dir/DiscreteValueVect.cpp.o CMakeFiles/DataStructs.dir/FPBReader.cpp.o CMakeFiles/DataStructs.dir/MultiFPBReader.cpp.o ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1 ../../lib/libRDKitDataStructs.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 6%] Built target DataStructs make -f Code/Geometry/CMakeFiles/RDGeometryLib.dir/build.make Code/Geometry/CMakeFiles/RDGeometryLib.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Geometry /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Geometry /<>/obj-arm-linux-gnueabihf/Code/Geometry/CMakeFiles/RDGeometryLib.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Geometry/CMakeFiles/RDGeometryLib.dir/build.make Code/Geometry/CMakeFiles/RDGeometryLib.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 6%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/point.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Geometry && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/Geometry/CMakeFiles/RDGeometryLib.dir/point.cpp.o -MF CMakeFiles/RDGeometryLib.dir/point.cpp.o.d -o CMakeFiles/RDGeometryLib.dir/point.cpp.o -c /<>/Code/Geometry/point.cpp /usr/include/c++/13/bits/vector.tcc: In function ‘void std::vector<_Tp, _Alloc>::_M_range_insert(iterator, _ForwardIterator, _ForwardIterator, std::forward_iterator_tag) [with _ForwardIterator = __gnu_cxx::__normal_iterator >; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:751:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 751 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc:751:7: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/13/bits/vector.tcc:751:7: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 [ 6%] Linking CXX shared library ../../lib/libRDKitSimDivPickers.so cd /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers && /usr/bin/cmake -E cmake_link_script CMakeFiles/SimDivPickers.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitSimDivPickers.so.1 -o ../../lib/libRDKitSimDivPickers.so.1.2023.09.3 CMakeFiles/SimDivPickers.dir/DistPicker.cpp.o CMakeFiles/SimDivPickers.dir/MaxMinPicker.cpp.o CMakeFiles/SimDivPickers.dir/HierarchicalClusterPicker.cpp.o ../../lib/libRDKithc.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitSimDivPickers.so.1.2023.09.3 ../../lib/libRDKitSimDivPickers.so.1 ../../lib/libRDKitSimDivPickers.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 6%] Built target SimDivPickers make -f Code/DataStructs/CMakeFiles/testDataStructs.dir/build.make Code/DataStructs/CMakeFiles/testDataStructs.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/DataStructs /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/DataStructs /<>/obj-arm-linux-gnueabihf/Code/DataStructs/CMakeFiles/testDataStructs.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/DataStructs/CMakeFiles/testDataStructs.dir/build.make Code/DataStructs/CMakeFiles/testDataStructs.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 7%] Building CXX object Code/DataStructs/CMakeFiles/testDataStructs.dir/testDatastructs.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/DataStructs/CMakeFiles/testDataStructs.dir/testDatastructs.cpp.o -MF CMakeFiles/testDataStructs.dir/testDatastructs.cpp.o.d -o CMakeFiles/testDataStructs.dir/testDatastructs.cpp.o -c /<>/Code/DataStructs/testDatastructs.cpp [ 7%] Linking CXX shared module ../../../../rdkit/ML/Cluster/Clustering.so cd /<>/obj-arm-linux-gnueabihf/Code/ML/Cluster/Murtagh && /usr/bin/cmake -E cmake_link_script CMakeFiles/Clustering.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/ML/Cluster/Clustering.so CMakeFiles/Clustering.dir/Clustering.cpp.o ../../../../lib/libRDKithc.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 -ldl /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 7%] Built target Clustering make -f Code/DataStructs/CMakeFiles/testFPB.dir/build.make Code/DataStructs/CMakeFiles/testFPB.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/DataStructs /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/DataStructs /<>/obj-arm-linux-gnueabihf/Code/DataStructs/CMakeFiles/testFPB.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/DataStructs/CMakeFiles/testFPB.dir/build.make Code/DataStructs/CMakeFiles/testFPB.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 7%] Building CXX object Code/DataStructs/CMakeFiles/testFPB.dir/testFPB.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/DataStructs/CMakeFiles/testFPB.dir/testFPB.cpp.o -MF CMakeFiles/testFPB.dir/testFPB.cpp.o.d -o CMakeFiles/testFPB.dir/testFPB.cpp.o -c /<>/Code/DataStructs/testFPB.cpp In file included from /<>/Code/RDBoost/Wrap/RDBase.cpp:14: /<>/Code/RDBoost/python_streambuf.h: In member function ‘virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(off_type, std::ios_base::seekdir, std::ios_base::openmode)’: /<>/Code/RDBoost/python_streambuf.h:420:16: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 420 | result = off_type(bp::extract(py_tell())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/Code/RDBoost/python_streambuf.h:420:56: note: ‘’ declared here 420 | result = off_type(bp::extract(py_tell())); | ^ /<>/Code/RDBoost/python_streambuf.h: In constructor ‘boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)’: /<>/Code/RDBoost/python_streambuf.h:185:56: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 185 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:185:56: note: ‘’ declared here 185 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:155:58: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 155 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:155:58: note: ‘’ declared here 155 | off_type py_pos = bp::extract(py_tell()); | ^ [ 7%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/Transform2D.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Geometry && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/Geometry/CMakeFiles/RDGeometryLib.dir/Transform2D.cpp.o -MF CMakeFiles/RDGeometryLib.dir/Transform2D.cpp.o.d -o CMakeFiles/RDGeometryLib.dir/Transform2D.cpp.o -c /<>/Code/Geometry/Transform2D.cpp In function ‘_Iterator std::__find_if(_Iterator, _Iterator, _Predicate) [with _Iterator = __gnu_cxx::__normal_iterator >; _Predicate = __gnu_cxx::__ops::_Iter_equals_val]’, inlined from ‘_IIter std::find(_IIter, _IIter, const _Tp&) [with _IIter = __gnu_cxx::__normal_iterator >; _Tp = double]’ at /usr/include/c++/13/bits/stl_algo.h:3897:28, inlined from ‘static bool boost::python::vector_indexing_suite::contains(Container&, const key_type&) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:146:29, inlined from ‘static bool boost::python::indexing_suite::base_contains(Container&, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>; bool NoProxy = true; bool NoSlice = false; Data = double; Index = unsigned int; Key = double]’ at /usr/include/boost/python/suite/indexing/indexing_suite.hpp:279:49: /usr/include/c++/13/bits/stl_algobase.h:2117:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2117 | return __find_if(__first, __last, __pred, | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 2118 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘_Iterator std::__find_if(_Iterator, _Iterator, _Predicate) [with _Iterator = __gnu_cxx::__normal_iterator >; _Predicate = __gnu_cxx::__ops::_Iter_equals_val]’, inlined from ‘_IIter std::find(_IIter, _IIter, const _Tp&) [with _IIter = __gnu_cxx::__normal_iterator >; _Tp = double]’ at /usr/include/c++/13/bits/stl_algo.h:3897:28, inlined from ‘static bool boost::python::vector_indexing_suite::contains(Container&, const key_type&) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:146:29, inlined from ‘static bool boost::python::indexing_suite::base_contains(Container&, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>; bool NoProxy = true; bool NoSlice = false; Data = double; Index = unsigned int; Key = double]’ at /usr/include/boost/python/suite/indexing/indexing_suite.hpp:286:53: /usr/include/c++/13/bits/stl_algobase.h:2117:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2117 | return __find_if(__first, __last, __pred, | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 2118 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘_Iterator std::__find_if(_Iterator, _Iterator, _Predicate) [with _Iterator = __gnu_cxx::__normal_iterator >; _Predicate = __gnu_cxx::__ops::_Iter_equals_val]’, inlined from ‘_IIter std::find(_IIter, _IIter, const _Tp&) [with _IIter = __gnu_cxx::__normal_iterator >; _Tp = double]’ at /usr/include/c++/13/bits/stl_algo.h:3897:28, inlined from ‘static bool boost::python::vector_indexing_suite::contains(Container&, const key_type&) [with Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:146:29, inlined from ‘static bool boost::python::indexing_suite::base_contains(Container&, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; bool NoProxy = false; bool NoSlice = false; Data = double; Index = unsigned int; Key = double]’ at /usr/include/boost/python/suite/indexing/indexing_suite.hpp:279:49: /usr/include/c++/13/bits/stl_algobase.h:2117:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2117 | return __find_if(__first, __last, __pred, | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 2118 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘_Iterator std::__find_if(_Iterator, _Iterator, _Predicate) [with _Iterator = __gnu_cxx::__normal_iterator >; _Predicate = __gnu_cxx::__ops::_Iter_equals_val]’, inlined from ‘_IIter std::find(_IIter, _IIter, const _Tp&) [with _IIter = __gnu_cxx::__normal_iterator >; _Tp = double]’ at /usr/include/c++/13/bits/stl_algo.h:3897:28, inlined from ‘static bool boost::python::vector_indexing_suite::contains(Container&, const key_type&) [with Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:146:29, inlined from ‘static bool boost::python::indexing_suite::base_contains(Container&, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; bool NoProxy = false; bool NoSlice = false; Data = double; Index = unsigned int; Key = double]’ at /usr/include/boost/python/suite/indexing/indexing_suite.hpp:286:53: /usr/include/c++/13/bits/stl_algobase.h:2117:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2117 | return __find_if(__first, __last, __pred, | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 2118 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 7%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/Transform3D.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Geometry && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/Geometry/CMakeFiles/RDGeometryLib.dir/Transform3D.cpp.o -MF CMakeFiles/RDGeometryLib.dir/Transform3D.cpp.o.d -o CMakeFiles/RDGeometryLib.dir/Transform3D.cpp.o -c /<>/Code/Geometry/Transform3D.cpp In file included from /usr/include/c++/13/vector:66: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator, const_iterator) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::delete_slice(Container&, index_type, index_type) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:134:28, inlined from ‘static void boost::python::vector_indexing_suite::delete_slice(Container&, index_type, index_type) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:128:9, inlined from ‘static void boost::python::detail::slice_helper::base_delete_slice(Container&, PySliceObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, true>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, true> >, unsigned int>; Data = double; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:697:42, inlined from ‘static void boost::python::indexing_suite::base_delete_item(Container&, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>; bool NoProxy = true; bool NoSlice = false; Data = double; Index = unsigned int; Key = double]’ at /usr/include/boost/python/suite/indexing/indexing_suite.hpp:256:49: /usr/include/c++/13/bits/stl_vector.h:1563:24: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1563 | return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg)); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator, const_iterator) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::delete_slice(Container&, index_type, index_type) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:134:28, inlined from ‘static void boost::python::vector_indexing_suite::delete_slice(Container&, index_type, index_type) [with Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:128:9, inlined from ‘static void boost::python::detail::slice_helper::base_delete_slice(Container&, PySliceObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, false>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, false> >, unsigned int>; Data = double; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:697:42, inlined from ‘static void boost::python::indexing_suite::base_delete_item(Container&, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; bool NoProxy = false; bool NoSlice = false; Data = double; Index = unsigned int; Key = double]’ at /usr/include/boost/python/suite/indexing/indexing_suite.hpp:256:49: /usr/include/c++/13/bits/stl_vector.h:1563:24: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1563 | return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg)); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_vector.h: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 7%] Linking CXX executable testFPB cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFPB.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testFPB.dir/testFPB.cpp.o -o testFPB ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘void boost::python::container_utils::extend_container(Container&, boost::python::api::object) [with Container = std::vector]’ at /usr/include/boost/python/suite/indexing/container_utils.hpp:36:36: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘void boost::python::container_utils::extend_container(Container&, boost::python::api::object) [with Container = std::vector]’ at /usr/include/boost/python/suite/indexing/container_utils.hpp:44:40: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, _InputIterator, _InputIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; = void; _Tp = double; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::extend(Container&, Iter, Iter) [with Iter = __gnu_cxx::__normal_iterator >; Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:200:29, inlined from ‘static void boost::python::vector_indexing_suite::base_extend(Container&, boost::python::api::object) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:236:36: /usr/include/c++/13/bits/stl_vector.h:1483:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1483 | _M_range_insert(begin() + __offset, __first, __last, | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1484 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_vector.h:1483:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, _InputIterator, _InputIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; = void; _Tp = double; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::extend(Container&, Iter, Iter) [with Iter = __gnu_cxx::__normal_iterator >; Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:200:29, inlined from ‘static void boost::python::vector_indexing_suite::base_extend(Container&, boost::python::api::object) [with Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:236:36: /usr/include/c++/13/bits/stl_vector.h:1483:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1483 | _M_range_insert(begin() + __offset, __first, __last, | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1484 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_vector.h:1483:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::append(Container&, const data_type&) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:193:32, inlined from ‘static void boost::python::vector_indexing_suite::base_append(Container&, boost::python::api::object) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:212:40: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::append(Container&, const data_type&) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:193:32, inlined from ‘static void boost::python::vector_indexing_suite::base_append(Container&, boost::python::api::object) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:220:44: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::append(Container&, const data_type&) [with Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:193:32, inlined from ‘static void boost::python::vector_indexing_suite::base_append(Container&, boost::python::api::object) [with Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:212:40: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::append(Container&, const data_type&) [with Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:193:32, inlined from ‘static void boost::python::vector_indexing_suite::base_append(Container&, boost::python::api::object) [with Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:220:44: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator, const_iterator) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, const data_type&) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:102:32, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, const data_type&) [with Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:95:9, inlined from ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, false>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, false> >, unsigned int>; Data = double; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:639:43: /usr/include/c++/13/bits/stl_vector.h:1563:24: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1563 | return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg)); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, const data_type&) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:103:33, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, const data_type&) [with Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:95:9, inlined from ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, false>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, false> >, unsigned int>; Data = double; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:639:43: /usr/include/c++/13/bits/vector.tcc:170:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 170 | _M_realloc_insert(begin() + (__position - cbegin()), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator, const_iterator) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, const data_type&) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:102:32, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, const data_type&) [with Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:95:9, inlined from ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, false>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, false> >, unsigned int>; Data = double; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:648:47: /usr/include/c++/13/bits/stl_vector.h:1563:24: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1563 | return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg)); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, const data_type&) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:103:33, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, const data_type&) [with Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:95:9, inlined from ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, false>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, false> >, unsigned int>; Data = double; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:648:47: /usr/include/c++/13/bits/vector.tcc:170:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 170 | _M_realloc_insert(begin() + (__position - cbegin()), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, false>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, false> >, unsigned int>; Data = double; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:664:43: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, _InputIterator, _InputIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; = void; _Tp = double; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, Iter, Iter) [with Iter = __gnu_cxx::__normal_iterator >; Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:113:33, inlined from ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, false>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, false> >, unsigned int>; Data = double; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:685:47: /usr/include/c++/13/bits/stl_vector.h:1483:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1483 | _M_range_insert(begin() + __offset, __first, __last, | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1484 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_vector.h:1483:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator, const_iterator) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, Iter, Iter) [with Iter = __gnu_cxx::__normal_iterator >; Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:116:32, inlined from ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, false>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, false> >, unsigned int>; Data = double; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:685:47: /usr/include/c++/13/bits/stl_vector.h:1563:24: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1563 | return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg)); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, _InputIterator, _InputIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; = void; _Tp = double; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, Iter, Iter) [with Iter = __gnu_cxx::__normal_iterator >; Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:117:33, inlined from ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, false>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, false> >, unsigned int>; Data = double; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:685:47: /usr/include/c++/13/bits/stl_vector.h:1483:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1483 | _M_range_insert(begin() + __offset, __first, __last, | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1484 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_vector.h:1483:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 [ 7%] Built target testFPB make -f Code/DataStructs/CMakeFiles/testMultiFPB.dir/build.make Code/DataStructs/CMakeFiles/testMultiFPB.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/DataStructs /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/DataStructs /<>/obj-arm-linux-gnueabihf/Code/DataStructs/CMakeFiles/testMultiFPB.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/DataStructs/CMakeFiles/testMultiFPB.dir/build.make Code/DataStructs/CMakeFiles/testMultiFPB.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 7%] Building CXX object Code/DataStructs/CMakeFiles/testMultiFPB.dir/testMultiFPB.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/DataStructs/CMakeFiles/testMultiFPB.dir/testMultiFPB.cpp.o -MF CMakeFiles/testMultiFPB.dir/testMultiFPB.cpp.o.d -o CMakeFiles/testMultiFPB.dir/testMultiFPB.cpp.o -c /<>/Code/DataStructs/testMultiFPB.cpp In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator, const_iterator) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, const data_type&) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:102:32, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, const data_type&) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:95:9, inlined from ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, true>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, true> >, unsigned int>; Data = double; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:639:43: /usr/include/c++/13/bits/stl_vector.h:1563:24: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1563 | return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg)); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, const data_type&) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:103:33, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, const data_type&) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:95:9, inlined from ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, true>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, true> >, unsigned int>; Data = double; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:639:43: /usr/include/c++/13/bits/vector.tcc:170:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 170 | _M_realloc_insert(begin() + (__position - cbegin()), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator, const_iterator) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, const data_type&) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:102:32, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, const data_type&) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:95:9, inlined from ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, true>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, true> >, unsigned int>; Data = double; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:648:47: /usr/include/c++/13/bits/stl_vector.h:1563:24: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1563 | return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg)); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, const data_type&) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:103:33, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, const data_type&) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:95:9, inlined from ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, true>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, true> >, unsigned int>; Data = double; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:648:47: /usr/include/c++/13/bits/vector.tcc:170:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 170 | _M_realloc_insert(begin() + (__position - cbegin()), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, true>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, true> >, unsigned int>; Data = double; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:664:43: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, _InputIterator, _InputIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; = void; _Tp = double; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, Iter, Iter) [with Iter = __gnu_cxx::__normal_iterator >; Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:113:33, inlined from ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, true>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, true> >, unsigned int>; Data = double; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:685:47: /usr/include/c++/13/bits/stl_vector.h:1483:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1483 | _M_range_insert(begin() + __offset, __first, __last, | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1484 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_vector.h:1483:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator, const_iterator) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, Iter, Iter) [with Iter = __gnu_cxx::__normal_iterator >; Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:116:32, inlined from ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, true>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, true> >, unsigned int>; Data = double; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:685:47: /usr/include/c++/13/bits/stl_vector.h:1563:24: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1563 | return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg)); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, _InputIterator, _InputIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; = void; _Tp = double; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, Iter, Iter) [with Iter = __gnu_cxx::__normal_iterator >; Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:117:33, inlined from ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, true>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, true> >, unsigned int>; Data = double; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:685:47: /usr/include/c++/13/bits/stl_vector.h:1483:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1483 | _M_range_insert(begin() + __offset, __first, __last, | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1484 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_vector.h:1483:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In file included from /usr/include/c++/13/vector:72, from /<>/Code/DataStructs/BitVect.h:14, from /<>/Code/DataStructs/BitVects.h:19, from /<>/Code/DataStructs/testDatastructs.cpp:17: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = ExplicitBitVect]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 8%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/UniformGrid3D.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Geometry && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/Geometry/CMakeFiles/RDGeometryLib.dir/UniformGrid3D.cpp.o -MF CMakeFiles/RDGeometryLib.dir/UniformGrid3D.cpp.o.d -o CMakeFiles/RDGeometryLib.dir/UniformGrid3D.cpp.o -c /<>/Code/Geometry/UniformGrid3D.cpp [ 8%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/GridUtils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Geometry && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/Geometry/CMakeFiles/RDGeometryLib.dir/GridUtils.cpp.o -MF CMakeFiles/RDGeometryLib.dir/GridUtils.cpp.o.d -o CMakeFiles/RDGeometryLib.dir/GridUtils.cpp.o -c /<>/Code/Geometry/GridUtils.cpp [ 8%] Linking CXX executable testDataStructs cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDataStructs.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testDataStructs.dir/testDatastructs.cpp.o -o testDataStructs ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 8%] Built target testDataStructs make -f Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build.make Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/DataStructs/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/DataStructs/Wrap /<>/obj-arm-linux-gnueabihf/Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build.make Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 9%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DataStructs.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DcDataStructs_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DataStructs.cpp.o -MF CMakeFiles/cDataStructs.dir/DataStructs.cpp.o.d -o CMakeFiles/cDataStructs.dir/DataStructs.cpp.o -c /<>/Code/DataStructs/Wrap/DataStructs.cpp [ 9%] Linking CXX shared module ../../../rdkit/rdBase.so cd /<>/obj-arm-linux-gnueabihf/Code/RDBoost/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdBase.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/rdBase.so CMakeFiles/rdBase.dir/RDBase.cpp.o ../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 -ldl /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so In file included from /usr/include/c++/13/vector:72, from /<>/Code/Geometry/GridUtils.h:14, from /<>/Code/Geometry/GridUtils.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const RDGeom::Point3D&}; _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 9%] Built target rdBase make -f Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build.make Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘std::vector RDGeom::findGridTerminalPoints(const UniformGrid3D&, double, double)’ at /<>/Code/Geometry/GridUtils.cpp:163:20: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/DataManip/MetricMatrixCalc/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/DataManip/MetricMatrixCalc/Wrap /<>/obj-arm-linux-gnueabihf/Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build.make Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 9%] Building CXX object Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/rdMetricMatrixCalc.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataManip/MetricMatrixCalc/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMetricMatrixCalc_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/rdMetricMatrixCalc.cpp.o -MF CMakeFiles/rdMetricMatrixCalc.dir/rdMetricMatrixCalc.cpp.o.d -o CMakeFiles/rdMetricMatrixCalc.dir/rdMetricMatrixCalc.cpp.o -c /<>/Code/DataManip/MetricMatrixCalc/Wrap/rdMetricMatrixCalc.cpp [ 9%] Linking CXX shared library ../../lib/libRDKitRDGeometryLib.so cd /<>/obj-arm-linux-gnueabihf/Code/Geometry && /usr/bin/cmake -E cmake_link_script CMakeFiles/RDGeometryLib.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitRDGeometryLib.so.1 -o ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 CMakeFiles/RDGeometryLib.dir/point.cpp.o CMakeFiles/RDGeometryLib.dir/Transform2D.cpp.o CMakeFiles/RDGeometryLib.dir/Transform3D.cpp.o CMakeFiles/RDGeometryLib.dir/UniformGrid3D.cpp.o CMakeFiles/RDGeometryLib.dir/GridUtils.cpp.o ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl [ 9%] Linking CXX executable testMultiFPB cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMultiFPB.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testMultiFPB.dir/testMultiFPB.cpp.o -o testMultiFPB ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/Geometry && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitRDGeometryLib.so.1 ../../lib/libRDKitRDGeometryLib.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 9%] Built target RDGeometryLib make -f Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/SimDivPickers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 9%] Building CXX object Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/testPickers.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/testPickers.cpp.o -MF CMakeFiles/testSimDivPickers.dir/testPickers.cpp.o.d -o CMakeFiles/testSimDivPickers.dir/testPickers.cpp.o -c /<>/Code/SimDivPickers/testPickers.cpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 9%] Built target testMultiFPB make -f Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/build.make Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/SimDivPickers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/build.make Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 9%] Building CXX object Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/catch_tests.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/catch_tests.cpp.o -MF CMakeFiles/pickersTestsCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/pickersTestsCatch.dir/catch_tests.cpp.o -c /<>/Code/SimDivPickers/catch_tests.cpp [ 10%] Linking CXX executable testSimDivPickers cd /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSimDivPickers.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testSimDivPickers.dir/testPickers.cpp.o -o testSimDivPickers ../../lib/libRDKitSimDivPickers.so.1.2023.09.3 ../../lib/libRDKithc.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 10%] Built target testSimDivPickers make -f Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build.make Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/SimDivPickers/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers/Wrap /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build.make Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 10%] Building CXX object Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/MaxMinPicker.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSimDivPickers_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/MaxMinPicker.cpp.o -MF CMakeFiles/rdSimDivPickers.dir/MaxMinPicker.cpp.o.d -o CMakeFiles/rdSimDivPickers.dir/MaxMinPicker.cpp.o -c /<>/Code/SimDivPickers/Wrap/MaxMinPicker.cpp [ 10%] Linking CXX executable pickersTestsCatch cd /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers && /usr/bin/cmake -E cmake_link_script CMakeFiles/pickersTestsCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/pickersTestsCatch.dir/catch_tests.cpp.o -o pickersTestsCatch ../RDGeneral/librdkitCatch.a ../../lib/libRDKitSimDivPickers.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/libCatch2.a ../../lib/libRDKithc.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 10%] Built target pickersTestsCatch make -f Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build.make Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ML/InfoTheory /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ML/InfoTheory /<>/obj-arm-linux-gnueabihf/Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build.make Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 10%] Building CXX object Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/InfoBitRanker.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ML/InfoTheory && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DInfoTheory_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_INFOTHEORY_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/InfoBitRanker.cpp.o -MF CMakeFiles/InfoTheory.dir/InfoBitRanker.cpp.o.d -o CMakeFiles/InfoTheory.dir/InfoBitRanker.cpp.o -c /<>/Code/ML/InfoTheory/InfoBitRanker.cpp [ 10%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DiscreteValueVect.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DcDataStructs_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DiscreteValueVect.cpp.o -MF CMakeFiles/cDataStructs.dir/DiscreteValueVect.cpp.o.d -o CMakeFiles/cDataStructs.dir/DiscreteValueVect.cpp.o -c /<>/Code/DataStructs/Wrap/DiscreteValueVect.cpp In file included from /<>/Code/DataManip/MetricMatrixCalc/Wrap/rdMetricMatrixCalc.cpp:15: /<>/Code/RDBoost/PySequenceHolder.h: In member function ‘T PySequenceHolder::operator[](unsigned int) const [with T = double]’: /<>/Code/RDBoost/PySequenceHolder.h:68:9: warning: ‘*(const double*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 68 | T res = python::extract(d_seq[which]); | ^~~ /<>/Code/RDBoost/PySequenceHolder.h:68:23: note: ‘’ declared here 68 | T res = python::extract(d_seq[which]); | ^~~~~~~~~~~~~~~~~~~~~~~~ [ 10%] Linking CXX shared module ../../../../rdkit/DataManip/Metric/rdMetricMatrixCalc.so cd /<>/obj-arm-linux-gnueabihf/Code/DataManip/MetricMatrixCalc/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMetricMatrixCalc.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/DataManip/Metric/rdMetricMatrixCalc.so CMakeFiles/rdMetricMatrixCalc.dir/rdMetricMatrixCalc.cpp.o ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 10%] Built target rdMetricMatrixCalc make -f Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ChemicalFeatures /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 10%] Building CXX object Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/FreeChemicalFeature.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DChemicalFeatures_EXPORTS -DRDKIT_CHEMICALFEATURES_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/FreeChemicalFeature.cpp.o -MF CMakeFiles/ChemicalFeatures.dir/FreeChemicalFeature.cpp.o.d -o CMakeFiles/ChemicalFeatures.dir/FreeChemicalFeature.cpp.o -c /<>/Code/ChemicalFeatures/FreeChemicalFeature.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/RDGeneral/types.h:27, from /<>/Code/ML/InfoTheory/InfoBitRanker.h:15, from /<>/Code/ML/InfoTheory/InfoBitRanker.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const std::pair&}; _Tp = std::pair; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = std::pair; _Alloc = std::allocator >]’, inlined from ‘void std::priority_queue<_Tp, _Sequence, _Compare>::push(const value_type&) [with _Tp = std::pair; _Sequence = std::vector >; _Compare = RDInfoTheory::gtDIPair]’ at /usr/include/c++/13/bits/stl_queue.h:740:13, inlined from ‘double* RDInfoTheory::InfoBitRanker::getTopN(unsigned int)’ at /<>/Code/ML/InfoTheory/InfoBitRanker.cpp:205:18: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = std::pair; _Alloc = std::allocator >]’, inlined from ‘void std::priority_queue<_Tp, _Sequence, _Compare>::push(const value_type&) [with _Tp = std::pair; _Sequence = std::vector >; _Compare = RDInfoTheory::gtDIPair]’ at /usr/include/c++/13/bits/stl_queue.h:740:13, inlined from ‘double* RDInfoTheory::InfoBitRanker::getTopN(unsigned int)’ at /<>/Code/ML/InfoTheory/InfoBitRanker.cpp:208:18: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 10%] Linking CXX shared library ../../../lib/libRDKitInfoTheory.so cd /<>/obj-arm-linux-gnueabihf/Code/ML/InfoTheory && /usr/bin/cmake -E cmake_link_script CMakeFiles/InfoTheory.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitInfoTheory.so.1 -o ../../../lib/libRDKitInfoTheory.so.1.2023.09.3 CMakeFiles/InfoTheory.dir/InfoBitRanker.cpp.o ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/ML/InfoTheory && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitInfoTheory.so.1.2023.09.3 ../../../lib/libRDKitInfoTheory.so.1 ../../../lib/libRDKitInfoTheory.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 10%] Built target InfoTheory make -f Code/GraphMol/CMakeFiles/GraphMol.dir/build.make Code/GraphMol/CMakeFiles/GraphMol.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/GraphMol.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/GraphMol.dir/build.make Code/GraphMol/CMakeFiles/GraphMol.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 10%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Atom.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/Atom.cpp.o -MF CMakeFiles/GraphMol.dir/Atom.cpp.o.d -o CMakeFiles/GraphMol.dir/Atom.cpp.o -c /<>/Code/GraphMol/Atom.cpp In file included from /<>/Code/SimDivPickers/Wrap/MaxMinPicker.cpp:19: /<>/Code/SimDivPickers/Wrap/PickerHelpers.h: In member function ‘double pyobjFunctor::operator()(unsigned int, unsigned int)’: /<>/Code/SimDivPickers/Wrap/PickerHelpers.h:52:48: warning: ‘*(const double*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 52 | return python::extract(dp_obj(i, j)); | ^ /<>/Code/SimDivPickers/Wrap/PickerHelpers.h:52:48: note: ‘’ declared here 52 | return python::extract(dp_obj(i, j)); | ^ [ 11%] Linking CXX shared library ../../lib/libRDKitChemicalFeatures.so cd /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures && /usr/bin/cmake -E cmake_link_script CMakeFiles/ChemicalFeatures.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitChemicalFeatures.so.1 -o ../../lib/libRDKitChemicalFeatures.so.1.2023.09.3 CMakeFiles/ChemicalFeatures.dir/FreeChemicalFeature.cpp.o ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitChemicalFeatures.so.1.2023.09.3 ../../lib/libRDKitChemicalFeatures.so.1 ../../lib/libRDKitChemicalFeatures.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 11%] Built target ChemicalFeatures make -f Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/Alignment.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Numerics/Alignment /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Numerics/Alignment /<>/obj-arm-linux-gnueabihf/Code/Numerics/Alignment/CMakeFiles/Alignment.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 11%] Building CXX object Code/Numerics/Alignment/CMakeFiles/Alignment.dir/AlignPoints.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Numerics/Alignment && /usr/bin/c++ -DAlignment_EXPORTS -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_ALIGNMENT_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/Numerics/Alignment/CMakeFiles/Alignment.dir/AlignPoints.cpp.o -MF CMakeFiles/Alignment.dir/AlignPoints.cpp.o.d -o CMakeFiles/Alignment.dir/AlignPoints.cpp.o -c /<>/Code/Numerics/Alignment/AlignPoints.cpp [ 11%] Building CXX object Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/LeaderPicker.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSimDivPickers_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/LeaderPicker.cpp.o -MF CMakeFiles/rdSimDivPickers.dir/LeaderPicker.cpp.o.d -o CMakeFiles/rdSimDivPickers.dir/LeaderPicker.cpp.o -c /<>/Code/SimDivPickers/Wrap/LeaderPicker.cpp [ 11%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/SparseIntVect.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DcDataStructs_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/SparseIntVect.cpp.o -MF CMakeFiles/cDataStructs.dir/SparseIntVect.cpp.o.d -o CMakeFiles/cDataStructs.dir/SparseIntVect.cpp.o -c /<>/Code/DataStructs/Wrap/SparseIntVect.cpp [ 11%] Linking CXX shared library ../../../lib/libRDKitAlignment.so cd /<>/obj-arm-linux-gnueabihf/Code/Numerics/Alignment && /usr/bin/cmake -E cmake_link_script CMakeFiles/Alignment.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitAlignment.so.1 -o ../../../lib/libRDKitAlignment.so.1.2023.09.3 CMakeFiles/Alignment.dir/AlignPoints.cpp.o ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/Numerics/Alignment && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1 ../../../lib/libRDKitAlignment.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 11%] Built target Alignment make -f Code/Geometry/CMakeFiles/testTransforms.dir/build.make Code/Geometry/CMakeFiles/testTransforms.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Geometry /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Geometry /<>/obj-arm-linux-gnueabihf/Code/Geometry/CMakeFiles/testTransforms.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Geometry/CMakeFiles/testTransforms.dir/build.make Code/Geometry/CMakeFiles/testTransforms.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 12%] Building CXX object Code/Geometry/CMakeFiles/testTransforms.dir/testTransforms.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Geometry && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/Geometry/CMakeFiles/testTransforms.dir/testTransforms.cpp.o -MF CMakeFiles/testTransforms.dir/testTransforms.cpp.o.d -o CMakeFiles/testTransforms.dir/testTransforms.cpp.o -c /<>/Code/Geometry/testTransforms.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/boost/graph/adjacency_list.hpp:16, from /<>/Code/GraphMol/ROMol.h:29, from /<>/Code/GraphMol/Atom.cpp:12: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 12%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/QueryAtom.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/QueryAtom.cpp.o -MF CMakeFiles/GraphMol.dir/QueryAtom.cpp.o.d -o CMakeFiles/GraphMol.dir/QueryAtom.cpp.o -c /<>/Code/GraphMol/QueryAtom.cpp /<>/Code/DataStructs/Wrap/SparseIntVect.cpp: In instantiation of ‘boost::python::list {anonymous}::BulkDice(const T&, boost::python::list, bool) [with T = RDKit::SparseIntVect]’: /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:190:16: required from ‘static void sparseIntVec_wrapper::wrapOne(const char*) [with IndexType = int]’ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:219:26: required from here /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:77:14: warning: possibly dangling reference to a temporary [-Wdangling-reference] 77 | const T &siv2 = python::extract(sivs[i])(); | ^~~~ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:77:48: note: the temporary was destroyed at the end of the full expression ‘boost::python::extract >(boost::python::api::proxy::operator boost::python::api::object() const [with Policies = boost::python::api::item_policies]()).boost::python::extract >::.boost::python::converter::extract_rvalue >::operator()()’ 77 | const T &siv2 = python::extract(sivs[i])(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp: In instantiation of ‘boost::python::list {anonymous}::BulkTanimoto(const T&, boost::python::list, bool) [with T = RDKit::SparseIntVect]’: /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:200:16: required from ‘static void sparseIntVec_wrapper::wrapOne(const char*) [with IndexType = int]’ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:219:26: required from here /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:90:14: warning: possibly dangling reference to a temporary [-Wdangling-reference] 90 | const T &siv2 = python::extract(sivs[i])(); | ^~~~ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:90:48: note: the temporary was destroyed at the end of the full expression ‘boost::python::extract >(boost::python::api::proxy::operator boost::python::api::object() const [with Policies = boost::python::api::item_policies]()).boost::python::extract >::.boost::python::converter::extract_rvalue >::operator()()’ 90 | const T &siv2 = python::extract(sivs[i])(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp: In instantiation of ‘boost::python::list {anonymous}::BulkTversky(const T&, boost::python::list, double, double, bool) [with T = RDKit::SparseIntVect]’: /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:211:16: required from ‘static void sparseIntVec_wrapper::wrapOne(const char*) [with IndexType = int]’ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:219:26: required from here /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:104:14: warning: possibly dangling reference to a temporary [-Wdangling-reference] 104 | const T &siv2 = python::extract(sivs[i])(); | ^~~~ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:104:48: note: the temporary was destroyed at the end of the full expression ‘boost::python::extract >(boost::python::api::proxy::operator boost::python::api::object() const [with Policies = boost::python::api::item_policies]()).boost::python::extract >::.boost::python::converter::extract_rvalue >::operator()()’ 104 | const T &siv2 = python::extract(sivs[i])(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp: In instantiation of ‘boost::python::list {anonymous}::BulkDice(const T&, boost::python::list, bool) [with T = RDKit::SparseIntVect]’: /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:190:16: required from ‘static void sparseIntVec_wrapper::wrapOne(const char*) [with IndexType = long long int]’ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:220:28: required from here /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:77:14: warning: possibly dangling reference to a temporary [-Wdangling-reference] 77 | const T &siv2 = python::extract(sivs[i])(); | ^~~~ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:77:48: note: the temporary was destroyed at the end of the full expression ‘boost::python::extract >(boost::python::api::proxy::operator boost::python::api::object() const [with Policies = boost::python::api::item_policies]()).boost::python::extract >::.boost::python::converter::extract_rvalue >::operator()()’ 77 | const T &siv2 = python::extract(sivs[i])(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp: In instantiation of ‘boost::python::list {anonymous}::BulkTanimoto(const T&, boost::python::list, bool) [with T = RDKit::SparseIntVect]’: /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:200:16: required from ‘static void sparseIntVec_wrapper::wrapOne(const char*) [with IndexType = long long int]’ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:220:28: required from here /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:90:14: warning: possibly dangling reference to a temporary [-Wdangling-reference] 90 | const T &siv2 = python::extract(sivs[i])(); | ^~~~ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:90:48: note: the temporary was destroyed at the end of the full expression ‘boost::python::extract >(boost::python::api::proxy::operator boost::python::api::object() const [with Policies = boost::python::api::item_policies]()).boost::python::extract >::.boost::python::converter::extract_rvalue >::operator()()’ 90 | const T &siv2 = python::extract(sivs[i])(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp: In instantiation of ‘boost::python::list {anonymous}::BulkTversky(const T&, boost::python::list, double, double, bool) [with T = RDKit::SparseIntVect]’: /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:211:16: required from ‘static void sparseIntVec_wrapper::wrapOne(const char*) [with IndexType = long long int]’ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:220:28: required from here /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:104:14: warning: possibly dangling reference to a temporary [-Wdangling-reference] 104 | const T &siv2 = python::extract(sivs[i])(); | ^~~~ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:104:48: note: the temporary was destroyed at the end of the full expression ‘boost::python::extract >(boost::python::api::proxy::operator boost::python::api::object() const [with Policies = boost::python::api::item_policies]()).boost::python::extract >::.boost::python::converter::extract_rvalue >::operator()()’ 104 | const T &siv2 = python::extract(sivs[i])(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp: In instantiation of ‘boost::python::list {anonymous}::BulkDice(const T&, boost::python::list, bool) [with T = RDKit::SparseIntVect]’: /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:190:16: required from ‘static void sparseIntVec_wrapper::wrapOne(const char*) [with IndexType = unsigned int]’ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:221:27: required from here /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:77:14: warning: possibly dangling reference to a temporary [-Wdangling-reference] 77 | const T &siv2 = python::extract(sivs[i])(); | ^~~~ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:77:48: note: the temporary was destroyed at the end of the full expression ‘boost::python::extract >(boost::python::api::proxy::operator boost::python::api::object() const [with Policies = boost::python::api::item_policies]()).boost::python::extract >::.boost::python::converter::extract_rvalue >::operator()()’ 77 | const T &siv2 = python::extract(sivs[i])(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp: In instantiation of ‘boost::python::list {anonymous}::BulkTanimoto(const T&, boost::python::list, bool) [with T = RDKit::SparseIntVect]’: /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:200:16: required from ‘static void sparseIntVec_wrapper::wrapOne(const char*) [with IndexType = unsigned int]’ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:221:27: required from here /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:90:14: warning: possibly dangling reference to a temporary [-Wdangling-reference] 90 | const T &siv2 = python::extract(sivs[i])(); | ^~~~ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:90:48: note: the temporary was destroyed at the end of the full expression ‘boost::python::extract >(boost::python::api::proxy::operator boost::python::api::object() const [with Policies = boost::python::api::item_policies]()).boost::python::extract >::.boost::python::converter::extract_rvalue >::operator()()’ 90 | const T &siv2 = python::extract(sivs[i])(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp: In instantiation of ‘boost::python::list {anonymous}::BulkTversky(const T&, boost::python::list, double, double, bool) [with T = RDKit::SparseIntVect]’: /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:211:16: required from ‘static void sparseIntVec_wrapper::wrapOne(const char*) [with IndexType = unsigned int]’ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:221:27: required from here /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:104:14: warning: possibly dangling reference to a temporary [-Wdangling-reference] 104 | const T &siv2 = python::extract(sivs[i])(); | ^~~~ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:104:48: note: the temporary was destroyed at the end of the full expression ‘boost::python::extract >(boost::python::api::proxy::operator boost::python::api::object() const [with Policies = boost::python::api::item_policies]()).boost::python::extract >::.boost::python::converter::extract_rvalue >::operator()()’ 104 | const T &siv2 = python::extract(sivs[i])(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp: In instantiation of ‘boost::python::list {anonymous}::BulkDice(const T&, boost::python::list, bool) [with T = RDKit::SparseIntVect]’: /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:190:16: required from ‘static void sparseIntVec_wrapper::wrapOne(const char*) [with IndexType = long long unsigned int]’ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:222:29: required from here /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:77:14: warning: possibly dangling reference to a temporary [-Wdangling-reference] 77 | const T &siv2 = python::extract(sivs[i])(); | ^~~~ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:77:48: note: the temporary was destroyed at the end of the full expression ‘boost::python::extract >(boost::python::api::proxy::operator boost::python::api::object() const [with Policies = boost::python::api::item_policies]()).boost::python::extract >::.boost::python::converter::extract_rvalue >::operator()()’ 77 | const T &siv2 = python::extract(sivs[i])(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp: In instantiation of ‘boost::python::list {anonymous}::BulkTanimoto(const T&, boost::python::list, bool) [with T = RDKit::SparseIntVect]’: /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:200:16: required from ‘static void sparseIntVec_wrapper::wrapOne(const char*) [with IndexType = long long unsigned int]’ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:222:29: required from here /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:90:14: warning: possibly dangling reference to a temporary [-Wdangling-reference] 90 | const T &siv2 = python::extract(sivs[i])(); | ^~~~ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:90:48: note: the temporary was destroyed at the end of the full expression ‘boost::python::extract >(boost::python::api::proxy::operator boost::python::api::object() const [with Policies = boost::python::api::item_policies]()).boost::python::extract >::.boost::python::converter::extract_rvalue >::operator()()’ 90 | const T &siv2 = python::extract(sivs[i])(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp: In instantiation of ‘boost::python::list {anonymous}::BulkTversky(const T&, boost::python::list, double, double, bool) [with T = RDKit::SparseIntVect]’: /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:211:16: required from ‘static void sparseIntVec_wrapper::wrapOne(const char*) [with IndexType = long long unsigned int]’ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:222:29: required from here /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:104:14: warning: possibly dangling reference to a temporary [-Wdangling-reference] 104 | const T &siv2 = python::extract(sivs[i])(); | ^~~~ /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:104:48: note: the temporary was destroyed at the end of the full expression ‘boost::python::extract >(boost::python::api::proxy::operator boost::python::api::object() const [with Policies = boost::python::api::item_policies]()).boost::python::extract >::.boost::python::converter::extract_rvalue >::operator()()’ 104 | const T &siv2 = python::extract(sivs[i])(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ [ 12%] Linking CXX executable testTransforms cd /<>/obj-arm-linux-gnueabihf/Code/Geometry && /usr/bin/cmake -E cmake_link_script CMakeFiles/testTransforms.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testTransforms.dir/testTransforms.cpp.o -o testTransforms ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 12%] Built target testTransforms make -f Code/Geometry/CMakeFiles/testGrid.dir/build.make Code/Geometry/CMakeFiles/testGrid.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Geometry /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Geometry /<>/obj-arm-linux-gnueabihf/Code/Geometry/CMakeFiles/testGrid.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Geometry/CMakeFiles/testGrid.dir/build.make Code/Geometry/CMakeFiles/testGrid.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 13%] Building CXX object Code/Geometry/CMakeFiles/testGrid.dir/testGrid.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Geometry && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/Geometry/CMakeFiles/testGrid.dir/testGrid.cpp.o -MF CMakeFiles/testGrid.dir/testGrid.cpp.o.d -o CMakeFiles/testGrid.dir/testGrid.cpp.o -c /<>/Code/Geometry/testGrid.cpp In file included from /<>/Code/SimDivPickers/Wrap/LeaderPicker.cpp:19: In member function ‘double pyobjFunctor::operator()(unsigned int, unsigned int)’, inlined from ‘unsigned int RDPickers::LeaderPickerState::compact(int*, int*, unsigned int) [with T = pyobjFunctor]’ at /<>/Code/SimDivPickers/LeaderPicker.h:263:18: /<>/Code/SimDivPickers/Wrap/PickerHelpers.h:52:48: warning: ‘*(const double*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 52 | return python::extract(dp_obj(i, j)); | ^ /<>/Code/SimDivPickers/Wrap/PickerHelpers.h: In member function ‘unsigned int RDPickers::LeaderPickerState::compact(int*, int*, unsigned int) [with T = pyobjFunctor]’: /<>/Code/SimDivPickers/Wrap/PickerHelpers.h:52:48: note: ‘’ declared here 52 | return python::extract(dp_obj(i, j)); | ^ [ 14%] Building CXX object Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/HierarchicalClusterPicker.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSimDivPickers_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/HierarchicalClusterPicker.cpp.o -MF CMakeFiles/rdSimDivPickers.dir/HierarchicalClusterPicker.cpp.o.d -o CMakeFiles/rdSimDivPickers.dir/HierarchicalClusterPicker.cpp.o -c /<>/Code/SimDivPickers/Wrap/HierarchicalClusterPicker.cpp [ 14%] Linking CXX executable testGrid cd /<>/obj-arm-linux-gnueabihf/Code/Geometry && /usr/bin/cmake -E cmake_link_script CMakeFiles/testGrid.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testGrid.dir/testGrid.cpp.o -o testGrid ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 14%] Built target testGrid make -f Code/Geometry/CMakeFiles/geometryTestsCatch.dir/build.make Code/Geometry/CMakeFiles/geometryTestsCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Geometry /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Geometry /<>/obj-arm-linux-gnueabihf/Code/Geometry/CMakeFiles/geometryTestsCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Geometry/CMakeFiles/geometryTestsCatch.dir/build.make Code/Geometry/CMakeFiles/geometryTestsCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 14%] Building CXX object Code/Geometry/CMakeFiles/geometryTestsCatch.dir/catch_tests.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Geometry && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/Geometry/CMakeFiles/geometryTestsCatch.dir/catch_tests.cpp.o -MF CMakeFiles/geometryTestsCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/geometryTestsCatch.dir/catch_tests.cpp.o -c /<>/Code/Geometry/catch_tests.cpp [ 14%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/QueryBond.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/QueryBond.cpp.o -MF CMakeFiles/GraphMol.dir/QueryBond.cpp.o.d -o CMakeFiles/GraphMol.dir/QueryBond.cpp.o -c /<>/Code/GraphMol/QueryBond.cpp [ 14%] Building CXX object Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/rdSimDivPickers.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSimDivPickers_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/rdSimDivPickers.cpp.o -MF CMakeFiles/rdSimDivPickers.dir/rdSimDivPickers.cpp.o.d -o CMakeFiles/rdSimDivPickers.dir/rdSimDivPickers.cpp.o -c /<>/Code/SimDivPickers/Wrap/rdSimDivPickers.cpp [ 14%] Linking CXX executable geometryTestsCatch cd /<>/obj-arm-linux-gnueabihf/Code/Geometry && /usr/bin/cmake -E cmake_link_script CMakeFiles/geometryTestsCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/geometryTestsCatch.dir/catch_tests.cpp.o -o geometryTestsCatch ../RDGeneral/librdkitCatch.a ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 /usr/lib/libCatch2.a ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 14%] Built target geometryTestsCatch make -f Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build.make Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Geometry/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Geometry/Wrap /<>/obj-arm-linux-gnueabihf/Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build.make Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 14%] Building CXX object Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/Point.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Geometry/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdGeometry_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/Point.cpp.o -MF CMakeFiles/rdGeometry.dir/Point.cpp.o.d -o CMakeFiles/rdGeometry.dir/Point.cpp.o -c /<>/Code/Geometry/Wrap/Point.cpp In file included from /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:18: /<>/Code/RDBoost/PySequenceHolder.h: In member function ‘T PySequenceHolder::operator[](unsigned int) const [with T = long long int]’: /<>/Code/RDBoost/PySequenceHolder.h:68:9: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 68 | T res = python::extract(d_seq[which]); | ^~~ /<>/Code/RDBoost/PySequenceHolder.h:68:23: note: ‘’ declared here 68 | T res = python::extract(d_seq[which]); | ^~~~~~~~~~~~~~~~~~~~~~~~ /<>/Code/RDBoost/PySequenceHolder.h: In member function ‘T PySequenceHolder::operator[](unsigned int) const [with T = long long unsigned int]’: /<>/Code/RDBoost/PySequenceHolder.h:68:9: warning: ‘*(const long long unsigned int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 68 | T res = python::extract(d_seq[which]); | ^~~ /<>/Code/RDBoost/PySequenceHolder.h:68:23: note: ‘’ declared here 68 | T res = python::extract(d_seq[which]); | ^~~~~~~~~~~~~~~~~~~~~~~~ [ 15%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Bond.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/Bond.cpp.o -MF CMakeFiles/GraphMol.dir/Bond.cpp.o.d -o CMakeFiles/GraphMol.dir/Bond.cpp.o -c /<>/Code/GraphMol/Bond.cpp [ 15%] Linking CXX shared module ../../../rdkit/SimDivFilters/rdSimDivPickers.so cd /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdSimDivPickers.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/SimDivFilters/rdSimDivPickers.so CMakeFiles/rdSimDivPickers.dir/MaxMinPicker.cpp.o CMakeFiles/rdSimDivPickers.dir/LeaderPicker.cpp.o CMakeFiles/rdSimDivPickers.dir/HierarchicalClusterPicker.cpp.o CMakeFiles/rdSimDivPickers.dir/rdSimDivPickers.cpp.o ../../../lib/libRDKitSimDivPickers.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../lib/libRDKithc.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 15%] Built target rdSimDivPickers [ 15%] Building CXX object Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/UniformGrid3D.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Geometry/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdGeometry_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/UniformGrid3D.cpp.o -MF CMakeFiles/rdGeometry.dir/UniformGrid3D.cpp.o.d -o CMakeFiles/rdGeometry.dir/UniformGrid3D.cpp.o -c /<>/Code/Geometry/Wrap/UniformGrid3D.cpp [ 15%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_SparseBV.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DcDataStructs_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_SparseBV.cpp.o -MF CMakeFiles/cDataStructs.dir/wrap_SparseBV.cpp.o.d -o CMakeFiles/cDataStructs.dir/wrap_SparseBV.cpp.o -c /<>/Code/DataStructs/Wrap/wrap_SparseBV.cpp In file included from /usr/include/c++/13/memory:69, from /usr/include/boost/iostreams/stream_buffer.hpp:15, from /usr/include/boost/iostreams/stream.hpp:21, from /<>/Code/RDGeneral/RDLog.h:18, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/Bond.h:19, from /<>/Code/GraphMol/Bond.cpp:10: /usr/include/c++/13/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*]’: /usr/include/c++/13/bits/stl_uninitialized.h:113:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 113 | __do_uninit_copy(_InputIterator __first, _InputIterator __last, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_uninitialized.h:113:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In static member function ‘static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*; bool _TrivialValueTypes = false]’, inlined from ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*]’ at /usr/include/c++/13/bits/stl_uninitialized.h:185:15, inlined from ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*; _Tp = RDKit::Dict::Pair]’ at /usr/include/c++/13/bits/stl_uninitialized.h:373:37, inlined from ‘std::vector<_Tp, _Alloc>::pointer std::vector<_Tp, _Alloc>::_M_allocate_and_copy(size_type, _ForwardIterator, _ForwardIterator) [with _ForwardIterator = __gnu_cxx::__normal_iterator >; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1619:35, inlined from ‘std::vector<_Tp, _Alloc>& std::vector<_Tp, _Alloc>::operator=(const std::vector<_Tp, _Alloc>&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/vector.tcc:238:44, inlined from ‘RDKit::Dict& RDKit::Dict::operator=(const RDKit::Dict&)’ at /<>/Code/RDGeneral/Dict.h:113:21, inlined from ‘RDKit::Bond& RDKit::Bond::operator=(const RDKit::Bond&)’ at /<>/Code/GraphMol/Bond.cpp:62:19: /usr/include/c++/13/bits/stl_uninitialized.h:137:39: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 137 | { return std::__do_uninit_copy(__first, __last, __result); } | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In static member function ‘static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*; bool _TrivialValueTypes = false]’, inlined from ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*]’ at /usr/include/c++/13/bits/stl_uninitialized.h:185:15, inlined from ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*; _Tp = RDKit::Dict::Pair]’ at /usr/include/c++/13/bits/stl_uninitialized.h:373:37, inlined from ‘std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:603:31, inlined from ‘RDKit::Dict::Dict(const RDKit::Dict&)’ at /<>/Code/RDGeneral/Dict.h:51:29, inlined from ‘RDKit::RDProps::RDProps(const RDKit::RDProps&)’ at /<>/Code/RDGeneral/RDProps.h:23:33, inlined from ‘RDKit::Bond::Bond(const RDKit::Bond&)’ at /<>/Code/GraphMol/Bond.cpp:24:46: /usr/include/c++/13/bits/stl_uninitialized.h:137:39: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 137 | { return std::__do_uninit_copy(__first, __last, __result); } | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 15%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/MolOps.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/MolOps.cpp.o -MF CMakeFiles/GraphMol.dir/MolOps.cpp.o.d -o CMakeFiles/GraphMol.dir/MolOps.cpp.o -c /<>/Code/GraphMol/MolOps.cpp [ 15%] Building CXX object Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/rdGeometry.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Geometry/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdGeometry_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/rdGeometry.cpp.o -MF CMakeFiles/rdGeometry.dir/rdGeometry.cpp.o.d -o CMakeFiles/rdGeometry.dir/rdGeometry.cpp.o -c /<>/Code/Geometry/Wrap/rdGeometry.cpp [ 15%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/FindRings.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/FindRings.cpp.o -MF CMakeFiles/GraphMol.dir/FindRings.cpp.o.d -o CMakeFiles/GraphMol.dir/FindRings.cpp.o -c /<>/Code/GraphMol/FindRings.cpp [ 15%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_ExplicitBV.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DcDataStructs_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_ExplicitBV.cpp.o -MF CMakeFiles/cDataStructs.dir/wrap_ExplicitBV.cpp.o.d -o CMakeFiles/cDataStructs.dir/wrap_ExplicitBV.cpp.o -c /<>/Code/DataStructs/Wrap/wrap_ExplicitBV.cpp [ 15%] Linking CXX shared module ../../../rdkit/Geometry/rdGeometry.so cd /<>/obj-arm-linux-gnueabihf/Code/Geometry/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdGeometry.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/Geometry/rdGeometry.so CMakeFiles/rdGeometry.dir/Point.cpp.o CMakeFiles/rdGeometry.dir/UniformGrid3D.cpp.o CMakeFiles/rdGeometry.dir/rdGeometry.cpp.o ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl In file included from /usr/include/c++/13/vector:72, from /usr/include/boost/graph/adjacency_list.hpp:16, from /<>/Code/GraphMol/ROMol.h:29, from /<>/Code/GraphMol/GraphMol.h:19, from /<>/Code/GraphMol/MolOps.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /<>/Code/GraphMol/FindRings.cpp: In function ‘void RDKit::MolOps::findRingFamilies(const RDKit::ROMol&)’: /<>/Code/GraphMol/FindRings.cpp:1348:36: warning: unused parameter ‘mol’ [-Wunused-parameter] 1348 | void findRingFamilies(const ROMol &mol) { | ~~~~~~~~~~~~~^~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 15%] Built target rdGeometry make -f Code/Numerics/CMakeFiles/testConrec.dir/build.make Code/Numerics/CMakeFiles/testConrec.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Numerics /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Numerics /<>/obj-arm-linux-gnueabihf/Code/Numerics/CMakeFiles/testConrec.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Numerics/CMakeFiles/testConrec.dir/build.make Code/Numerics/CMakeFiles/testConrec.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 15%] Building CXX object Code/Numerics/CMakeFiles/testConrec.dir/testConrec.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Numerics && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/Numerics/CMakeFiles/testConrec.dir/testConrec.cpp.o -MF CMakeFiles/testConrec.dir/testConrec.cpp.o.d -o CMakeFiles/testConrec.dir/testConrec.cpp.o -c /<>/Code/Numerics/testConrec.cpp /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘std::map > RDKit::MolOps::getMolFragsWithQuery(const RDKit::ROMol&, T (*)(const RDKit::ROMol&, const RDKit::Atom*), bool, const std::vector*, bool) [with T = int]’ at /<>/Code/GraphMol/MolOps.cpp:855:20: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘std::map > RDKit::MolOps::getMolFragsWithQuery(const RDKit::ROMol&, T (*)(const RDKit::ROMol&, const RDKit::Atom*), bool, const std::vector*, bool) [with T = int]’ at /<>/Code/GraphMol/MolOps.cpp:866:22: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘std::map > RDKit::MolOps::getMolFragsWithQuery(const RDKit::ROMol&, T (*)(const RDKit::ROMol&, const RDKit::Atom*), bool, const std::vector*, bool) [with T = unsigned int]’ at /<>/Code/GraphMol/MolOps.cpp:855:20: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘std::map > RDKit::MolOps::getMolFragsWithQuery(const RDKit::ROMol&, T (*)(const RDKit::ROMol&, const RDKit::Atom*), bool, const std::vector*, bool) [with T = unsigned int]’ at /<>/Code/GraphMol/MolOps.cpp:866:22: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::MolOps::{anonymous}::addHapticBond(RDKit::RWMol&, unsigned int, std::vector)’ at /<>/Code/GraphMol/MolOps.cpp:1073:20, inlined from ‘void RDKit::MolOps::dativeBondsToHaptic(RDKit::RWMol&)’ at /<>/Code/GraphMol/MolOps.cpp:1120:20: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘std::map > RDKit::MolOps::getMolFragsWithQuery(const RDKit::ROMol&, T (*)(const RDKit::ROMol&, const RDKit::Atom*), bool, const std::vector*, bool) [with T = std::__cxx11::basic_string]’ at /<>/Code/GraphMol/MolOps.cpp:855:20: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘std::map > RDKit::MolOps::getMolFragsWithQuery(const RDKit::ROMol&, T (*)(const RDKit::ROMol&, const RDKit::Atom*), bool, const std::vector*, bool) [with T = std::__cxx11::basic_string]’ at /<>/Code/GraphMol/MolOps.cpp:866:22: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘std::vector > RDKit::MolOps::getMolFrags(const RDKit::ROMol&, bool, RDKit::INT_VECT*, RDKit::VECT_INT_VECT*, bool)’ at /<>/Code/GraphMol/MolOps.cpp:736:26: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/FindRings.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /usr/include/catch2/interfaces/catch_interfaces_config.hpp:17, from /usr/include/catch2/benchmark/catch_benchmark.hpp:20, from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, from /usr/include/catch2/catch_all.hpp:25, from /<>/Code/Numerics/testConrec.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDGeom::Point2D, RDGeom::Point2D, double&}; _Tp = conrec::ConrecSegment; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDGeom::Point2D, RDGeom::Point2D, double&}; _Tp = conrec::ConrecSegment; _Alloc = std::allocator]’, inlined from ‘void conrec::Contour(const double*, size_t, size_t, size_t, size_t, const double*, const double*, size_t, double*, std::vector&)’ at /<>/Code/Numerics/Conrec.h:204:27: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 15%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/ROMol.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/ROMol.cpp.o -MF CMakeFiles/GraphMol.dir/ROMol.cpp.o.d -o CMakeFiles/GraphMol.dir/ROMol.cpp.o -c /<>/Code/GraphMol/ROMol.cpp /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const RDGeom::Point2D&}; _Tp = RDGeom::Point2D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {std::pair >, double>}; _Tp = std::pair, double>; _Alloc = std::allocator, double> >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector, double> >::iterator’ changed in GCC 7.1 In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘std::vector, double> > conrec::connectLineSegments(const std::vector&, double, double)’ at /<>/Code/Numerics/Conrec.h:266:26: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘std::vector, double> > conrec::connectLineSegments(const std::vector&, double, double)’ at /<>/Code/Numerics/Conrec.h:268:26: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘std::vector, double> > conrec::connectLineSegments(const std::vector&, double, double)’ at /<>/Code/Numerics/Conrec.h:280:28: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘std::vector, double> > conrec::connectLineSegments(const std::vector&, double, double)’ at /<>/Code/Numerics/Conrec.h:282:28: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::pair >, double>}; _Tp = std::pair, double>; _Alloc = std::allocator, double> >]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = std::pair, double>; _Alloc = std::allocator, double> >]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘std::vector, double> > conrec::connectLineSegments(const std::vector&, double, double)’ at /<>/Code/Numerics/Conrec.h:289:18: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator, double>*, std::vector, double> > >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 15%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_BitOps.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DcDataStructs_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_BitOps.cpp.o -MF CMakeFiles/cDataStructs.dir/wrap_BitOps.cpp.o.d -o CMakeFiles/cDataStructs.dir/wrap_BitOps.cpp.o -c /<>/Code/DataStructs/Wrap/wrap_BitOps.cpp [ 15%] Linking CXX executable testConrec cd /<>/obj-arm-linux-gnueabihf/Code/Numerics && /usr/bin/cmake -E cmake_link_script CMakeFiles/testConrec.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testConrec.dir/testConrec.cpp.o -o testConrec ../RDGeneral/librdkitCatch.a ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 /usr/lib/libCatch2.a ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 15%] Built target testConrec make -f Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Numerics/Alignment /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Numerics/Alignment /<>/obj-arm-linux-gnueabihf/Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 15%] Building CXX object Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/testAlignment.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Numerics/Alignment && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/testAlignment.cpp.o -MF CMakeFiles/testAlignment.dir/testAlignment.cpp.o.d -o CMakeFiles/testAlignment.dir/testAlignment.cpp.o -c /<>/Code/Numerics/Alignment/testAlignment.cpp [ 15%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/RWMol.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/RWMol.cpp.o -MF CMakeFiles/GraphMol.dir/RWMol.cpp.o.d -o CMakeFiles/GraphMol.dir/RWMol.cpp.o -c /<>/Code/GraphMol/RWMol.cpp [ 15%] Linking CXX executable testAlignment cd /<>/obj-arm-linux-gnueabihf/Code/Numerics/Alignment && /usr/bin/cmake -E cmake_link_script CMakeFiles/testAlignment.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testAlignment.dir/testAlignment.cpp.o -o testAlignment ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 15%] Built target testAlignment make -f Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/build.make Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Numerics/Alignment/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Numerics/Alignment/Wrap /<>/obj-arm-linux-gnueabihf/Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/build.make Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 16%] Building CXX object Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/rdAlignment.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Numerics/Alignment/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdAlignment_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/rdAlignment.cpp.o -MF CMakeFiles/rdAlignment.dir/rdAlignment.cpp.o.d -o CMakeFiles/rdAlignment.dir/rdAlignment.cpp.o -c /<>/Code/Numerics/Alignment/Wrap/rdAlignment.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/ROMol.cpp:14: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::vector >]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘unsigned int RDKit::ROMol::addAtom(RDKit::Atom*, bool, bool)’ at /<>/Code/GraphMol/ROMol.cpp:427:23: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/memory:69, from /usr/include/boost/iostreams/stream_buffer.hpp:15, from /usr/include/boost/iostreams/stream.hpp:21, from /<>/Code/RDGeneral/RDLog.h:18: /usr/include/c++/13/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*]’: /usr/include/c++/13/bits/stl_uninitialized.h:113:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 113 | __do_uninit_copy(_InputIterator __first, _InputIterator __last, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_uninitialized.h:113:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In static member function ‘static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*; bool _TrivialValueTypes = false]’, inlined from ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*]’ at /usr/include/c++/13/bits/stl_uninitialized.h:185:15, inlined from ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*; _Tp = RDKit::Dict::Pair]’ at /usr/include/c++/13/bits/stl_uninitialized.h:373:37, inlined from ‘std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:603:31, inlined from ‘RDKit::Dict::Dict(const RDKit::Dict&)’ at /<>/Code/RDGeneral/Dict.h:51:29, inlined from ‘RDKit::RDProps::RDProps(const RDKit::RDProps&)’ at /<>/Code/RDGeneral/RDProps.h:23:33, inlined from ‘RDKit::SubstanceGroup::SubstanceGroup(const RDKit::SubstanceGroup&)’ at /<>/Code/GraphMol/SubstanceGroup.h:99:3: /usr/include/c++/13/bits/stl_uninitialized.h:137:39: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 137 | { return std::__do_uninit_copy(__first, __last, __result); } | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In static member function ‘static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*; bool _TrivialValueTypes = false]’, inlined from ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*]’ at /usr/include/c++/13/bits/stl_uninitialized.h:185:15, inlined from ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*; _Tp = RDKit::Dict::Pair]’ at /usr/include/c++/13/bits/stl_uninitialized.h:373:37, inlined from ‘std::vector<_Tp, _Alloc>::pointer std::vector<_Tp, _Alloc>::_M_allocate_and_copy(size_type, _ForwardIterator, _ForwardIterator) [with _ForwardIterator = __gnu_cxx::__normal_iterator >; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1619:35, inlined from ‘std::vector<_Tp, _Alloc>& std::vector<_Tp, _Alloc>::operator=(const std::vector<_Tp, _Alloc>&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/vector.tcc:238:44, inlined from ‘RDKit::Dict& RDKit::Dict::operator=(const RDKit::Dict&)’ at /<>/Code/RDGeneral/Dict.h:113:21, inlined from ‘void RDKit::ROMol::initFromOther(const RDKit::ROMol&, bool, int)’ at /<>/Code/GraphMol/ROMol.cpp:147:21: /usr/include/c++/13/bits/stl_uninitialized.h:137:39: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 137 | { return std::__do_uninit_copy(__first, __last, __result); } | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /usr/include/boost/token_functions.hpp:34, from /usr/include/boost/token_iterator.hpp:24, from /usr/include/boost/tokenizer.hpp:20, from /<>/Code/GraphMol/RWMol.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘void RDKit::RWMol::insertMol(const RDKit::ROMol&)’ at /<>/Code/GraphMol/RWMol.cpp:81:48: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::RWMol::insertMol(const RDKit::ROMol&)’ at /<>/Code/GraphMol/RWMol.cpp:85:26: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::RWMol::insertMol(const RDKit::ROMol&)’ at /<>/Code/GraphMol/RWMol.cpp:97:29: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::RWMol::insertMol(const RDKit::ROMol&)’ at /<>/Code/GraphMol/RWMol.cpp:105:29: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘unsigned int RDKit::RWMol::addAtom(bool)’ at /<>/Code/GraphMol/RWMol.cpp:126:23: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 16%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/PeriodicTable.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/PeriodicTable.cpp.o -MF CMakeFiles/GraphMol.dir/PeriodicTable.cpp.o.d -o CMakeFiles/GraphMol.dir/PeriodicTable.cpp.o -c /<>/Code/GraphMol/PeriodicTable.cpp In file included from /usr/include/c++/13/bits/stl_algobase.h:64, from /usr/include/c++/13/bits/stl_tree.h:63, from /usr/include/c++/13/map:62, from /<>/Code/GraphMol/PeriodicTable.h:14, from /<>/Code/GraphMol/PeriodicTable.cpp:11: /usr/include/c++/13/bits/stl_pair.h: In instantiation of ‘constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = double&; _T2 = double&; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp>::type = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp2>::type = double]’: /<>/Code/GraphMol/PeriodicTable.cpp:96:57: required from here /usr/include/c++/13/bits/stl_pair.h:922:5: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 922 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ In file included from /<>/Code/Numerics/Alignment/Wrap/rdAlignment.cpp:16: /<>/Code/RDBoost/PySequenceHolder.h: In member function ‘T PySequenceHolder::operator[](unsigned int) const [with T = double]’: /<>/Code/RDBoost/PySequenceHolder.h:68:9: warning: ‘*(const double*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 68 | T res = python::extract(d_seq[which]); | ^~~ /<>/Code/RDBoost/PySequenceHolder.h:68:23: note: ‘’ declared here 68 | T res = python::extract(d_seq[which]); | ^~~~~~~~~~~~~~~~~~~~~~~~ [ 16%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/atomic_data.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/atomic_data.cpp.o -MF CMakeFiles/GraphMol.dir/atomic_data.cpp.o.d -o CMakeFiles/GraphMol.dir/atomic_data.cpp.o -c /<>/Code/GraphMol/atomic_data.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/GraphMol/PeriodicTable.h:15: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const RDKit::atomicData&}; _Tp = RDKit::atomicData; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ [ 16%] Linking CXX shared module ../../../../rdkit/Numerics/rdAlignment.so cd /<>/obj-arm-linux-gnueabihf/Code/Numerics/Alignment/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdAlignment.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Numerics/rdAlignment.so CMakeFiles/rdAlignment.dir/rdAlignment.cpp.o ../../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 16%] Built target rdAlignment make -f Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build.make Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ML/InfoTheory/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ML/InfoTheory/Wrap /<>/obj-arm-linux-gnueabihf/Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build.make Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 16%] Building CXX object Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/InfoBitRanker.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ML/InfoTheory/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdInfoTheory_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/InfoBitRanker.cpp.o -MF CMakeFiles/rdInfoTheory.dir/InfoBitRanker.cpp.o.d -o CMakeFiles/rdInfoTheory.dir/InfoBitRanker.cpp.o -c /<>/Code/ML/InfoTheory/Wrap/InfoBitRanker.cpp In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDKit::atomicData; _Alloc = std::allocator]’, inlined from ‘RDKit::PeriodicTable::PeriodicTable()’ at /<>/Code/GraphMol/PeriodicTable.cpp:47:25: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 16%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_FPB.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DcDataStructs_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_FPB.cpp.o -MF CMakeFiles/cDataStructs.dir/wrap_FPB.cpp.o.d -o CMakeFiles/cDataStructs.dir/wrap_FPB.cpp.o -c /<>/Code/DataStructs/Wrap/wrap_FPB.cpp [ 17%] Building CXX object Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/BitCorrMatGenerator.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ML/InfoTheory/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdInfoTheory_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/BitCorrMatGenerator.cpp.o -MF CMakeFiles/rdInfoTheory.dir/BitCorrMatGenerator.cpp.o.d -o CMakeFiles/rdInfoTheory.dir/BitCorrMatGenerator.cpp.o -c /<>/Code/ML/InfoTheory/Wrap/BitCorrMatGenerator.cpp [ 17%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/QueryOps.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/QueryOps.cpp.o -MF CMakeFiles/GraphMol.dir/QueryOps.cpp.o.d -o CMakeFiles/GraphMol.dir/QueryOps.cpp.o -c /<>/Code/GraphMol/QueryOps.cpp [ 17%] Building CXX object Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/rdInfoTheory.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ML/InfoTheory/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdInfoTheory_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/rdInfoTheory.cpp.o -MF CMakeFiles/rdInfoTheory.dir/rdInfoTheory.cpp.o.d -o CMakeFiles/rdInfoTheory.dir/rdInfoTheory.cpp.o -c /<>/Code/ML/InfoTheory/Wrap/rdInfoTheory.cpp [ 17%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/MolPickler.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/MolPickler.cpp.o -MF CMakeFiles/GraphMol.dir/MolPickler.cpp.o.d -o CMakeFiles/GraphMol.dir/MolPickler.cpp.o -c /<>/Code/GraphMol/MolPickler.cpp [ 17%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_Utils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DcDataStructs_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_Utils.cpp.o -MF CMakeFiles/cDataStructs.dir/wrap_Utils.cpp.o.d -o CMakeFiles/cDataStructs.dir/wrap_Utils.cpp.o -c /<>/Code/DataStructs/Wrap/wrap_Utils.cpp [ 18%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Canon.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/Canon.cpp.o -MF CMakeFiles/GraphMol.dir/Canon.cpp.o.d -o CMakeFiles/GraphMol.dir/Canon.cpp.o -c /<>/Code/GraphMol/Canon.cpp /<>/Code/GraphMol/MolPickler.cpp: In function ‘void RDKit::streamReadPositiveChar(std::istream&, char&, int)’: /<>/Code/GraphMol/MolPickler.cpp:72:11: warning: comparison is always false due to limited range of data type [-Wtype-limits] 72 | if (res < 0) { | ~~~~^~~ [ 18%] Linking CXX shared module ../../../../rdkit/ML/InfoTheory/rdInfoTheory.so cd /<>/obj-arm-linux-gnueabihf/Code/ML/InfoTheory/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdInfoTheory.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/ML/InfoTheory/rdInfoTheory.so CMakeFiles/rdInfoTheory.dir/InfoBitRanker.cpp.o CMakeFiles/rdInfoTheory.dir/BitCorrMatGenerator.cpp.o CMakeFiles/rdInfoTheory.dir/rdInfoTheory.cpp.o ../../../../lib/libRDKitInfoTheory.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 18%] Built target rdInfoTheory make -f Code/ML/Data/CMakeFiles/cQuantize.dir/build.make Code/ML/Data/CMakeFiles/cQuantize.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ML/Data /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ML/Data /<>/obj-arm-linux-gnueabihf/Code/ML/Data/CMakeFiles/cQuantize.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ML/Data/CMakeFiles/cQuantize.dir/build.make Code/ML/Data/CMakeFiles/cQuantize.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 19%] Building CXX object Code/ML/Data/CMakeFiles/cQuantize.dir/cQuantize.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ML/Data && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT 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/<>/Code/ML/Data/cQuantize.cpp [ 19%] Linking CXX shared module ../../../rdkit/DataStructs/cDataStructs.so cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/cDataStructs.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/DataStructs/cDataStructs.so CMakeFiles/cDataStructs.dir/DataStructs.cpp.o CMakeFiles/cDataStructs.dir/DiscreteValueVect.cpp.o CMakeFiles/cDataStructs.dir/SparseIntVect.cpp.o CMakeFiles/cDataStructs.dir/wrap_SparseBV.cpp.o CMakeFiles/cDataStructs.dir/wrap_ExplicitBV.cpp.o CMakeFiles/cDataStructs.dir/wrap_BitOps.cpp.o CMakeFiles/cDataStructs.dir/wrap_FPB.cpp.o CMakeFiles/cDataStructs.dir/wrap_Utils.cpp.o ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDBoost.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 19%] Built target cDataStructs make -f Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ChemicalFeatures /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 19%] Building CXX object Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/testChemicalFeatures.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/testChemicalFeatures.cpp.o -MF CMakeFiles/testChemicalFeatures.dir/testChemicalFeatures.cpp.o.d -o CMakeFiles/testChemicalFeatures.dir/testChemicalFeatures.cpp.o -c /<>/Code/ChemicalFeatures/testChemicalFeatures.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/Canon.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/MolPickler.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 19%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/AtomIterators.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/AtomIterators.cpp.o -MF CMakeFiles/GraphMol.dir/AtomIterators.cpp.o.d -o CMakeFiles/GraphMol.dir/AtomIterators.cpp.o -c /<>/Code/GraphMol/AtomIterators.cpp [ 19%] Linking CXX shared module ../../../rdkit/ML/Data/cQuantize.so cd /<>/obj-arm-linux-gnueabihf/Code/ML/Data && /usr/bin/cmake -E cmake_link_script CMakeFiles/cQuantize.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/ML/Data/cQuantize.so CMakeFiles/cQuantize.dir/cQuantize.cpp.o ../../../lib/libRDKitInfoTheory.so.1.2023.09.3 ../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 -ldl /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 19%] Linking CXX executable testChemicalFeatures cd /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures && /usr/bin/cmake -E cmake_link_script CMakeFiles/testChemicalFeatures.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testChemicalFeatures.dir/testChemicalFeatures.cpp.o -o testChemicalFeatures ../../lib/libRDKitChemicalFeatures.so.1.2023.09.3 ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 19%] Built target cQuantize [ 19%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/BondIterators.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/BondIterators.cpp.o -MF CMakeFiles/GraphMol.dir/BondIterators.cpp.o.d -o CMakeFiles/GraphMol.dir/BondIterators.cpp.o -c /<>/Code/GraphMol/BondIterators.cpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 19%] Built target testChemicalFeatures [ 19%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Aromaticity.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/Aromaticity.cpp.o -MF CMakeFiles/GraphMol.dir/Aromaticity.cpp.o.d -o CMakeFiles/GraphMol.dir/Aromaticity.cpp.o -c /<>/Code/GraphMol/Aromaticity.cpp [ 19%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Kekulize.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/Kekulize.cpp.o -MF CMakeFiles/GraphMol.dir/Kekulize.cpp.o.d -o CMakeFiles/GraphMol.dir/Kekulize.cpp.o -c /<>/Code/GraphMol/Kekulize.cpp [ 19%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/ConjugHybrid.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/ConjugHybrid.cpp.o -MF CMakeFiles/GraphMol.dir/ConjugHybrid.cpp.o.d -o CMakeFiles/GraphMol.dir/ConjugHybrid.cpp.o -c /<>/Code/GraphMol/ConjugHybrid.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/Aromaticity.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 19%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/AddHs.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/AddHs.cpp.o -MF CMakeFiles/GraphMol.dir/AddHs.cpp.o.d -o CMakeFiles/GraphMol.dir/AddHs.cpp.o -c /<>/Code/GraphMol/AddHs.cpp [ 19%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Matrices.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/Matrices.cpp.o -MF CMakeFiles/GraphMol.dir/Matrices.cpp.o.d -o CMakeFiles/GraphMol.dir/Matrices.cpp.o -c /<>/Code/GraphMol/Matrices.cpp /<>/Code/GraphMol/Kekulize.cpp: In function ‘void RDKit::{anonymous}::markDbondCands(RDKit::RWMol&, const RDKit::INT_VECT&, boost::dynamic_bitset<>&, RDKit::INT_VECT&, RDKit::INT_VECT&)’: /<>/Code/GraphMol/Kekulize.cpp:147:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 147 | numNonCandRings < numAtomRings) { | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ [ 19%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Chirality.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/Chirality.cpp.o -MF CMakeFiles/GraphMol.dir/Chirality.cpp.o.d -o CMakeFiles/GraphMol.dir/Chirality.cpp.o -c /<>/Code/GraphMol/Chirality.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/AddHs.cpp:10: /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(iterator) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:181:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 181 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /usr/include/boost/graph/adjacency_list.hpp:16, from /<>/Code/GraphMol/ROMol.h:29, from /<>/Code/GraphMol/Matrices.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 20%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/RingInfo.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/RingInfo.cpp.o -MF CMakeFiles/GraphMol.dir/RingInfo.cpp.o.d -o CMakeFiles/GraphMol.dir/RingInfo.cpp.o -c /<>/Code/GraphMol/RingInfo.cpp [ 20%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Conformer.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/Conformer.cpp.o -MF CMakeFiles/GraphMol.dir/Conformer.cpp.o.d -o CMakeFiles/GraphMol.dir/Conformer.cpp.o -c /<>/Code/GraphMol/Conformer.cpp /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void RDKit::Dict::clearVal(const std::string&)’ at /<>/Code/RDGeneral/Dict.h:320:20, inlined from ‘void RDKit::RDProps::clearProp(const std::string&) const’ at /<>/Code/RDGeneral/RDProps.h:145:21: /usr/include/c++/13/bits/stl_vector.h:1532:24: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1532 | { return _M_erase(begin() + (__position - cbegin())); } | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void RDKit::Dict::clearVal(const std::string&)’ at /<>/Code/RDGeneral/Dict.h:320:20, inlined from ‘void RDKit::RDProps::clearComputedProps() const’ at /<>/Code/RDGeneral/RDProps.h:153:25, inlined from ‘void RDKit::MolOps::addHs(RDKit::RWMol&, bool, bool, const RDKit::UINT_VECT*, bool)’ at /<>/Code/GraphMol/AddHs.cpp:531:30: /usr/include/c++/13/bits/stl_vector.h:1532:24: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1532 | { return _M_erase(begin() + (__position - cbegin())); } | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 20%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Renumber.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/Renumber.cpp.o -MF CMakeFiles/GraphMol.dir/Renumber.cpp.o.d -o CMakeFiles/GraphMol.dir/Renumber.cpp.o -c /<>/Code/GraphMol/Renumber.cpp [ 20%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/AdjustQuery.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/AdjustQuery.cpp.o -MF CMakeFiles/GraphMol.dir/AdjustQuery.cpp.o.d -o CMakeFiles/GraphMol.dir/AdjustQuery.cpp.o -c /<>/Code/GraphMol/AdjustQuery.cpp [ 20%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Resonance.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/Resonance.cpp.o -MF CMakeFiles/GraphMol.dir/Resonance.cpp.o.d -o CMakeFiles/GraphMol.dir/Resonance.cpp.o -c /<>/Code/GraphMol/Resonance.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/RDGeneral/types.h:27, from /<>/Code/GraphMol/Chirality.h:16, from /<>/Code/GraphMol/Chirality.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDGeom::Point3D}; _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDGeom::Point3D}; _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘std::optional RDKit::Chirality::atomChiralTypeFromBondDirPseudo3D(const RDKit::ROMol&, const RDKit::Bond*, const RDKit::Conformer*, double, double)’ at /<>/Code/GraphMol/Chirality.cpp:527:24: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /usr/include/boost/graph/adjacency_list.hpp:16, from /<>/Code/GraphMol/ROMol.h:29, from /<>/Code/GraphMol/GraphMol.h:19, from /<>/Code/GraphMol/Renumber.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘RDKit::ROMol* RDKit::MolOps::renumberAtoms(const RDKit::ROMol&, const std::vector&)’ at /<>/Code/GraphMol/Renumber.cpp:76:37: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘RDKit::ROMol* RDKit::MolOps::renumberAtoms(const RDKit::ROMol&, const std::vector&)’ at /<>/Code/GraphMol/Renumber.cpp:78:24: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 20%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/StereoGroup.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/StereoGroup.cpp.o -MF CMakeFiles/GraphMol.dir/StereoGroup.cpp.o.d -o CMakeFiles/GraphMol.dir/StereoGroup.cpp.o -c /<>/Code/GraphMol/StereoGroup.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/boost/graph/adjacency_list.hpp:16, from /<>/Code/GraphMol/ROMol.h:29, from /<>/Code/GraphMol/GraphMol.h:19, from /<>/Code/GraphMol/AdjustQuery.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 20%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/new_canon.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/new_canon.cpp.o -MF CMakeFiles/GraphMol.dir/new_canon.cpp.o.d -o CMakeFiles/GraphMol.dir/new_canon.cpp.o -c /<>/Code/GraphMol/new_canon.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/Resonance.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::vector >]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 20%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/SubstanceGroup.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/SubstanceGroup.cpp.o -MF CMakeFiles/GraphMol.dir/SubstanceGroup.cpp.o.d -o CMakeFiles/GraphMol.dir/SubstanceGroup.cpp.o -c /<>/Code/GraphMol/SubstanceGroup.cpp [ 20%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/FindStereo.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/FindStereo.cpp.o -MF CMakeFiles/GraphMol.dir/FindStereo.cpp.o.d -o CMakeFiles/GraphMol.dir/FindStereo.cpp.o -c /<>/Code/GraphMol/FindStereo.cpp [ 21%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/MonomerInfo.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/MonomerInfo.cpp.o -MF CMakeFiles/GraphMol.dir/MonomerInfo.cpp.o.d -o CMakeFiles/GraphMol.dir/MonomerInfo.cpp.o -c /<>/Code/GraphMol/MonomerInfo.cpp [ 21%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/NontetrahedralStereo.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/NontetrahedralStereo.cpp.o -MF CMakeFiles/GraphMol.dir/NontetrahedralStereo.cpp.o.d -o CMakeFiles/GraphMol.dir/NontetrahedralStereo.cpp.o -c /<>/Code/GraphMol/NontetrahedralStereo.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/Geometry/point.h:16, from /<>/Code/GraphMol/SubstanceGroup.h:24, from /<>/Code/GraphMol/SubstanceGroup.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const std::array&}; _Tp = std::array; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = std::array; _Alloc = std::allocator >]’, inlined from ‘void RDKit::SubstanceGroup::addBracket(const Bracket&)’ at /<>/Code/GraphMol/SubstanceGroup.cpp:133:23: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/FindStereo.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::__cxx11::basic_string]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::SubstanceGroup::CState}; _Tp = RDKit::SubstanceGroup::CState; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::SubstanceGroup::CState}; _Tp = RDKit::SubstanceGroup::CState; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::SubstanceGroup::CState; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::SubstanceGroup::addCState(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/SubstanceGroup.cpp:147:22: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 21%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/WedgeBonds.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/WedgeBonds.cpp.o -MF CMakeFiles/GraphMol.dir/WedgeBonds.cpp.o.d -o CMakeFiles/GraphMol.dir/WedgeBonds.cpp.o -c /<>/Code/GraphMol/WedgeBonds.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/WedgeBonds.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 21%] Linking CXX shared library ../../lib/libRDKitGraphMol.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/GraphMol.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitGraphMol.so.1 -o ../../lib/libRDKitGraphMol.so.1.2023.09.3 CMakeFiles/GraphMol.dir/Atom.cpp.o CMakeFiles/GraphMol.dir/QueryAtom.cpp.o CMakeFiles/GraphMol.dir/QueryBond.cpp.o CMakeFiles/GraphMol.dir/Bond.cpp.o CMakeFiles/GraphMol.dir/MolOps.cpp.o CMakeFiles/GraphMol.dir/FindRings.cpp.o CMakeFiles/GraphMol.dir/ROMol.cpp.o CMakeFiles/GraphMol.dir/RWMol.cpp.o CMakeFiles/GraphMol.dir/PeriodicTable.cpp.o CMakeFiles/GraphMol.dir/atomic_data.cpp.o CMakeFiles/GraphMol.dir/QueryOps.cpp.o CMakeFiles/GraphMol.dir/MolPickler.cpp.o CMakeFiles/GraphMol.dir/Canon.cpp.o CMakeFiles/GraphMol.dir/AtomIterators.cpp.o CMakeFiles/GraphMol.dir/BondIterators.cpp.o CMakeFiles/GraphMol.dir/Aromaticity.cpp.o CMakeFiles/GraphMol.dir/Kekulize.cpp.o CMakeFiles/GraphMol.dir/ConjugHybrid.cpp.o CMakeFiles/GraphMol.dir/AddHs.cpp.o CMakeFiles/GraphMol.dir/Matrices.cpp.o CMakeFiles/GraphMol.dir/Chirality.cpp.o CMakeFiles/GraphMol.dir/RingInfo.cpp.o CMakeFiles/GraphMol.dir/Conformer.cpp.o CMakeFiles/GraphMol.dir/Renumber.cpp.o CMakeFiles/GraphMol.dir/AdjustQuery.cpp.o CMakeFiles/GraphMol.dir/Resonance.cpp.o CMakeFiles/GraphMol.dir/StereoGroup.cpp.o CMakeFiles/GraphMol.dir/new_canon.cpp.o CMakeFiles/GraphMol.dir/SubstanceGroup.cpp.o CMakeFiles/GraphMol.dir/FindStereo.cpp.o CMakeFiles/GraphMol.dir/MonomerInfo.cpp.o CMakeFiles/GraphMol.dir/NontetrahedralStereo.cpp.o CMakeFiles/GraphMol.dir/WedgeBonds.cpp.o ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../lib/libRDKitGraphMol.so.1 ../../lib/libRDKitGraphMol.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 21%] Built target GraphMol make -f Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/depend make -f Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/depend make -f Code/GraphMol/GenericGroups/CMakeFiles/GenericGroups.dir/build.make Code/GraphMol/GenericGroups/CMakeFiles/GenericGroups.dir/depend make -f Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolTransforms /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolTransforms /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/GenericGroups /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/GenericGroups /<>/obj-arm-linux-gnueabihf/Code/GraphMol/GenericGroups/CMakeFiles/GenericGroups.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Trajectory /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Trajectory /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build make -f Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build make -f Code/GraphMol/GenericGroups/CMakeFiles/GenericGroups.dir/build.make Code/GraphMol/GenericGroups/CMakeFiles/GenericGroups.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 21%] Building CXX object Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/MolTransforms.cpp.o [ 21%] Building CXX object Code/GraphMol/GenericGroups/CMakeFiles/GenericGroups.dir/GenericGroups.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolTransforms && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolTransforms_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLTRANSFORMS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/MolTransforms.cpp.o -MF CMakeFiles/MolTransforms.dir/MolTransforms.cpp.o.d -o CMakeFiles/MolTransforms.dir/MolTransforms.cpp.o -c /<>/Code/GraphMol/MolTransforms/MolTransforms.cpp cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/GenericGroups && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGenericGroups_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GENERICGROUPS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/GenericGroups/CMakeFiles/GenericGroups.dir/GenericGroups.cpp.o -MF CMakeFiles/GenericGroups.dir/GenericGroups.cpp.o.d -o CMakeFiles/GenericGroups.dir/GenericGroups.cpp.o -c /<>/Code/GraphMol/GenericGroups/GenericGroups.cpp [ 21%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmilesParse.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmilesParse.cpp.o -MF CMakeFiles/SmilesParse.dir/SmilesParse.cpp.o.d -o CMakeFiles/SmilesParse.dir/SmilesParse.cpp.o -c /<>/Code/GraphMol/SmilesParse/SmilesParse.cpp [ 21%] Building CXX object Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/Trajectory.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Trajectory && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_TRAJECTORY_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DTrajectory_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/Trajectory.cpp.o -MF CMakeFiles/Trajectory.dir/Trajectory.cpp.o.d -o CMakeFiles/Trajectory.dir/Trajectory.cpp.o -c /<>/Code/GraphMol/Trajectory/Trajectory.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/Trajectory/Trajectory.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘unsigned int RDKit::Trajectory::addConformersToMol(RDKit::ROMol&, int, int)’ at /<>/Code/GraphMol/Trajectory/Trajectory.cpp:103:49: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘unsigned int RDKit::Trajectory::addConformersToMol(RDKit::ROMol&, int, int)’ at /<>/Code/GraphMol/Trajectory/Trajectory.cpp:105:23: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const RDKit::Snapshot&}; _Tp = RDKit::Snapshot; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, const value_type&) [with _Tp = RDKit::Snapshot; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:133:5: note: parameter passing for argument of type ‘std::vector::const_iterator’ changed in GCC 7.1 133 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc:170:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 170 | _M_realloc_insert(begin() + (__position - cbegin()), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/Code/GraphMol/Trajectory/Trajectory.cpp: In member function ‘unsigned int RDKit::Trajectory::insertSnapshot(unsigned int, RDKit::Snapshot)’: /<>/Code/GraphMol/Trajectory/Trajectory.cpp:78:33: note: parameter passing for argument of type ‘std::vector::const_iterator’ changed in GCC 7.1 78 | return (d_snapshotVect->insert(d_snapshotVect->begin() + snapshotNum, s) - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 21%] Linking CXX shared library ../../../lib/libRDKitTrajectory.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Trajectory && /usr/bin/cmake -E cmake_link_script CMakeFiles/Trajectory.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitTrajectory.so.1 -o ../../../lib/libRDKitTrajectory.so.1.2023.09.3 CMakeFiles/Trajectory.dir/Trajectory.cpp.o ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl In file included from /usr/include/c++/13/vector:72, from /usr/include/boost/graph/adjacency_list.hpp:16, from /<>/Code/GraphMol/ROMol.h:29, from /<>/Code/GraphMol/RWMol.h:22, from /<>/Code/GraphMol/SmilesParse/SmilesParse.h:14, from /<>/Code/GraphMol/SmilesParse/SmilesParse.cpp:26: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Trajectory && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitTrajectory.so.1.2023.09.3 ../../../lib/libRDKitTrajectory.so.1 ../../../lib/libRDKitTrajectory.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 21%] Built target Trajectory make -f Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Subgraphs /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' In file included from /usr/include/c++/13/bits/stl_algo.h:61, from /usr/include/c++/13/algorithm:61, from /usr/include/boost/iterator/iterator_concepts.hpp:26, from /usr/include/boost/range/concepts.hpp:20, from /usr/include/boost/range/size_type.hpp:20, from /usr/include/boost/range/size.hpp:21, from /usr/include/boost/range/functions.hpp:20, from /usr/include/boost/range/iterator_range_core.hpp:38, from /usr/include/boost/range/iterator_range.hpp:13, from /usr/include/boost/iostreams/traits.hpp:38, from /usr/include/boost/iostreams/detail/call_traits.hpp:15, from /usr/include/boost/iostreams/detail/adapter/device_adapter.hpp:22, from /usr/include/boost/iostreams/tee.hpp:18, from /<>/Code/RDGeneral/RDLog.h:17, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/Geometry/point.h:23, from /<>/Code/GraphMol/MolTransforms/MolTransforms.h:14, from /<>/Code/GraphMol/MolTransforms/MolTransforms.cpp:10: /usr/include/c++/13/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Distance = int; _Tp = pair; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, const pair&)> >]’: /usr/include/c++/13/bits/stl_heap.h:224:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ [ 21%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/Subgraphs.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SUBGRAPHS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSubgraphs_EXPORTS -I/<>/External -I/<>/External/boost-numeric-bindings -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/Subgraphs.cpp.o -MF CMakeFiles/Subgraphs.dir/Subgraphs.cpp.o.d -o CMakeFiles/Subgraphs.dir/Subgraphs.cpp.o -c /<>/Code/GraphMol/Subgraphs/Subgraphs.cpp /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Val_comp_iter&, const pair&)> >]’: /usr/include/c++/13/bits/stl_algo.h:1792:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1792 | __unguarded_linear_insert(_RandomAccessIterator __last, | ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, const pair&)> >]’: /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1812 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, const pair&)> >]’: /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1918 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_algo.h:1932:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1932 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/Geometry/point.h:16: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {unsigned int&, double&}; _Tp = std::pair; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /usr/include/boost/graph/adjacency_list.hpp:16, from /<>/Code/GraphMol/ROMol.h:29, from /<>/Code/GraphMol/RWMol.h:22, from /<>/Code/GraphMol/GenericGroups/GenericGroups.h:11, from /<>/Code/GraphMol/GenericGroups/GenericGroups.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {unsigned int&, double&}; _Tp = std::pair; _Alloc = std::allocator >]’, inlined from ‘RDGeom::Transform3D* MolTransforms::computeCanonicalTransform(const RDKit::Conformer&, const RDGeom::Point3D*, bool, bool)’ at /<>/Code/GraphMol/MolTransforms/MolTransforms.cpp:286:35: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, const pair&)> >]’, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator*, vector > >; _Compare = MolTransforms::computeCanonicalTransform(const RDKit::Conformer&, const RDGeom::Point3D*, bool, bool)::&, const pair&)>]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘RDGeom::Transform3D* MolTransforms::computeCanonicalTransform(const RDKit::Conformer&, const RDGeom::Point3D*, bool, bool)’ at /<>/Code/GraphMol/MolTransforms/MolTransforms.cpp:288:16: /usr/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1947 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1948 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1949 | __comp); | ~~~~~~~ In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, const pair&)> >]’, inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, const pair&)> >]’ at /usr/include/c++/13/bits/stl_algo.h:1950:31, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator*, vector > >; _Compare = MolTransforms::computeCanonicalTransform(const RDKit::Conformer&, const RDGeom::Point3D*, bool, bool)::&, const pair&)>]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘RDGeom::Transform3D* MolTransforms::computeCanonicalTransform(const RDKit::Conformer&, const RDGeom::Point3D*, bool, bool)’ at /<>/Code/GraphMol/MolTransforms/MolTransforms.cpp:288:16: /usr/include/c++/13/bits/stl_algo.h:1859:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1859 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1864:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1864 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ [ 21%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmilesParseOps.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmilesParseOps.cpp.o -MF CMakeFiles/SmilesParse.dir/SmilesParseOps.cpp.o.d -o CMakeFiles/SmilesParse.dir/SmilesParseOps.cpp.o -c /<>/Code/GraphMol/SmilesParse/SmilesParseOps.cpp [ 21%] Linking CXX shared library ../../../lib/libRDKitMolTransforms.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolTransforms && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolTransforms.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMolTransforms.so.1 -o ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 CMakeFiles/MolTransforms.dir/MolTransforms.cpp.o ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolTransforms && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1 ../../../lib/libRDKitMolTransforms.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 21%] Built target MolTransforms [ 21%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/SubgraphUtils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SUBGRAPHS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSubgraphs_EXPORTS -I/<>/External -I/<>/External/boost-numeric-bindings -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/SubgraphUtils.cpp.o -MF CMakeFiles/Subgraphs.dir/SubgraphUtils.cpp.o.d -o CMakeFiles/Subgraphs.dir/SubgraphUtils.cpp.o -c /<>/Code/GraphMol/Subgraphs/SubgraphUtils.cpp [ 21%] Linking CXX shared library ../../../lib/libRDKitGenericGroups.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/GenericGroups && /usr/bin/cmake -E cmake_link_script CMakeFiles/GenericGroups.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitGenericGroups.so.1 -o ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 CMakeFiles/GenericGroups.dir/GenericGroups.cpp.o ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/GenericGroups && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1 ../../../lib/libRDKitGenericGroups.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 21%] Built target GenericGroups make -f Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/PartialCharges /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/PartialCharges /<>/obj-arm-linux-gnueabihf/Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 21%] Building CXX object Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/GasteigerCharges.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/PartialCharges && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DPartialCharges_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_PARTIALCHARGES_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/GasteigerCharges.cpp.o -MF CMakeFiles/PartialCharges.dir/GasteigerCharges.cpp.o.d -o CMakeFiles/PartialCharges.dir/GasteigerCharges.cpp.o -c /<>/Code/GraphMol/PartialCharges/GasteigerCharges.cpp [ 21%] Building CXX object Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/GasteigerParams.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/PartialCharges && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DPartialCharges_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_PARTIALCHARGES_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/GasteigerParams.cpp.o -MF CMakeFiles/PartialCharges.dir/GasteigerParams.cpp.o.d -o CMakeFiles/PartialCharges.dir/GasteigerParams.cpp.o -c /<>/Code/GraphMol/PartialCharges/GasteigerParams.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/GraphMol/Subgraphs/Subgraphs.h:32, from /<>/Code/GraphMol/Subgraphs/SubgraphUtils.h:14, from /<>/Code/GraphMol/Subgraphs/SubgraphUtils.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/GraphMol/PartialCharges/GasteigerCharges.h:14, from /<>/Code/GraphMol/PartialCharges/GasteigerCharges.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘RDKit::ROMol* RDKit::Subgraphs::pathToSubmol(const RDKit::ROMol&, const RDKit::PATH_TYPE&, bool, RDKit::INT_MAP_INT&)’ at /<>/Code/GraphMol/Subgraphs/SubgraphUtils.cpp:95:55: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘RDKit::ROMol* RDKit::Subgraphs::pathToSubmol(const RDKit::ROMol&, const RDKit::PATH_TYPE&, bool, RDKit::INT_MAP_INT&)’ at /<>/Code/GraphMol/Subgraphs/SubgraphUtils.cpp:99:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘void RDKit::computeGasteigerCharges(const ROMol&, std::vector&, int, bool)’ at /<>/Code/GraphMol/PartialCharges/GasteigerCharges.cpp:120:15: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘void RDKit::computeGasteigerCharges(const ROMol&, std::vector&, int, bool)’ at /<>/Code/GraphMol/PartialCharges/GasteigerCharges.cpp:123:14: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘void RDKit::computeGasteigerCharges(const ROMol&, std::vector&, int, bool)’ at /<>/Code/GraphMol/PartialCharges/GasteigerCharges.cpp:126:15: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/SmilesParse/SmilesParseOps.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ make -f Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/CIPLabeler /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 21%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/CIPMol.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/CIPMol.cpp.o -MF CMakeFiles/CIPLabeler.dir/CIPMol.cpp.o.d -o CMakeFiles/CIPLabeler.dir/CIPMol.cpp.o -c /<>/Code/GraphMol/CIPLabeler/CIPMol.cpp [ 21%] Linking CXX shared library ../../../lib/libRDKitSubgraphs.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs && /usr/bin/cmake -E cmake_link_script CMakeFiles/Subgraphs.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitSubgraphs.so.1 -o ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 CMakeFiles/Subgraphs.dir/Subgraphs.cpp.o CMakeFiles/Subgraphs.dir/SubgraphUtils.cpp.o ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1 ../../../lib/libRDKitSubgraphs.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 21%] Built target Subgraphs make -f Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build.make Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolTransforms/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolTransforms/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build.make Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 22%] Building CXX object Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/rdMolTransforms.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolTransforms/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolTransforms_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/rdMolTransforms.cpp.o -MF CMakeFiles/rdMolTransforms.dir/rdMolTransforms.cpp.o.d -o CMakeFiles/rdMolTransforms.dir/rdMolTransforms.cpp.o -c /<>/Code/GraphMol/MolTransforms/Wrap/rdMolTransforms.cpp [ 22%] Linking CXX shared library ../../../lib/libRDKitPartialCharges.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/PartialCharges && /usr/bin/cmake -E cmake_link_script CMakeFiles/PartialCharges.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitPartialCharges.so.1 -o ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 CMakeFiles/PartialCharges.dir/GasteigerCharges.cpp.o CMakeFiles/PartialCharges.dir/GasteigerParams.cpp.o ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/PartialCharges && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1 ../../../lib/libRDKitPartialCharges.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 22%] Built target PartialCharges make -f Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ShapeHelpers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ShapeHelpers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 22%] Building CXX object Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/ShapeEncoder.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ShapeHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SHAPEHELPERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DShapeHelpers_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/ShapeEncoder.cpp.o -MF CMakeFiles/ShapeHelpers.dir/ShapeEncoder.cpp.o.d -o CMakeFiles/ShapeHelpers.dir/ShapeEncoder.cpp.o -c /<>/Code/GraphMol/ShapeHelpers/ShapeEncoder.cpp [ 22%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmilesWrite.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmilesWrite.cpp.o -MF CMakeFiles/SmilesParse.dir/SmilesWrite.cpp.o.d -o CMakeFiles/SmilesParse.dir/SmilesWrite.cpp.o -c /<>/Code/GraphMol/SmilesParse/SmilesWrite.cpp [ 22%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/CIPLabeler.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/CIPLabeler.cpp.o -MF CMakeFiles/CIPLabeler.dir/CIPLabeler.cpp.o.d -o CMakeFiles/CIPLabeler.dir/CIPLabeler.cpp.o -c /<>/Code/GraphMol/CIPLabeler/CIPLabeler.cpp [ 22%] Building CXX object Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/ShapeUtils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ShapeHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SHAPEHELPERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DShapeHelpers_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/ShapeUtils.cpp.o -MF CMakeFiles/ShapeHelpers.dir/ShapeUtils.cpp.o.d -o CMakeFiles/ShapeHelpers.dir/ShapeUtils.cpp.o -c /<>/Code/GraphMol/ShapeHelpers/ShapeUtils.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/GraphMol/SmilesParse/SmilesWrite.h:15, from /<>/Code/GraphMol/SmilesParse/SmilesWrite.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 22%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Mancude.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Mancude.cpp.o -MF CMakeFiles/CIPLabeler.dir/Mancude.cpp.o.d -o CMakeFiles/CIPLabeler.dir/Mancude.cpp.o -c /<>/Code/GraphMol/CIPLabeler/Mancude.cpp [ 22%] Linking CXX shared module ../../../../rdkit/Chem/rdMolTransforms.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolTransforms/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolTransforms.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolTransforms.so CMakeFiles/rdMolTransforms.dir/rdMolTransforms.cpp.o ../../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 22%] Built target rdMolTransforms make -f Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolCatalog /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolCatalog /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 22%] Building CXX object Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/MolCatalogEntry.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/MolCatalogEntry.cpp.o -MF CMakeFiles/MolCatalog.dir/MolCatalogEntry.cpp.o.d -o CMakeFiles/MolCatalog.dir/MolCatalogEntry.cpp.o -c /<>/Code/GraphMol/MolCatalog/MolCatalogEntry.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/c++/13/functional:64, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:37, from /usr/include/boost/smart_ptr/shared_ptr.hpp:18, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/smart_ptr.hpp:19, from /<>/Code/DataStructs/DiscreteValueVect.h:14, from /<>/Code/GraphMol/ShapeHelpers/ShapeUtils.h:13, from /<>/Code/GraphMol/ShapeHelpers/ShapeUtils.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ [ 22%] Linking CXX shared library ../../../lib/libRDKitShapeHelpers.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ShapeHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/ShapeHelpers.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitShapeHelpers.so.1 -o ../../../lib/libRDKitShapeHelpers.so.1.2023.09.3 CMakeFiles/ShapeHelpers.dir/ShapeEncoder.cpp.o CMakeFiles/ShapeHelpers.dir/ShapeUtils.cpp.o ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ShapeHelpers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitShapeHelpers.so.1.2023.09.3 ../../../lib/libRDKitShapeHelpers.so.1 ../../../lib/libRDKitShapeHelpers.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 22%] Built target ShapeHelpers make -f Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolInterchange /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 22%] Building CXX object Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/Parser.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolInterchange_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLINTERCHANGE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/rapidjson -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/Parser.cpp.o -MF CMakeFiles/MolInterchange.dir/Parser.cpp.o.d -o CMakeFiles/MolInterchange.dir/Parser.cpp.o -c /<>/Code/GraphMol/MolInterchange/Parser.cpp [ 22%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmartsWrite.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmartsWrite.cpp.o -MF CMakeFiles/SmilesParse.dir/SmartsWrite.cpp.o.d -o CMakeFiles/SmilesParse.dir/SmartsWrite.cpp.o -c /<>/Code/GraphMol/SmilesParse/SmartsWrite.cpp [ 23%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Digraph.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Digraph.cpp.o -MF CMakeFiles/CIPLabeler.dir/Digraph.cpp.o.d -o CMakeFiles/CIPLabeler.dir/Digraph.cpp.o -c /<>/Code/GraphMol/CIPLabeler/Digraph.cpp [ 23%] Building CXX object Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/MolCatalogParams.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/MolCatalogParams.cpp.o -MF CMakeFiles/MolCatalog.dir/MolCatalogParams.cpp.o.d -o CMakeFiles/MolCatalog.dir/MolCatalogParams.cpp.o -c /<>/Code/GraphMol/MolCatalog/MolCatalogParams.cpp [ 23%] Linking CXX shared library ../../../lib/libRDKitMolCatalog.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolCatalog.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMolCatalog.so.1 -o ../../../lib/libRDKitMolCatalog.so.1.2023.09.3 CMakeFiles/MolCatalog.dir/MolCatalogEntry.cpp.o CMakeFiles/MolCatalog.dir/MolCatalogParams.cpp.o ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolCatalog && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolCatalog.so.1.2023.09.3 ../../../lib/libRDKitMolCatalog.so.1 ../../../lib/libRDKitMolCatalog.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 23%] Built target MolCatalog make -f Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SLNParse /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 23%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/SLNParse.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SLNPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSLNParse_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/SLNParse.cpp.o -MF CMakeFiles/SLNParse.dir/SLNParse.cpp.o.d -o CMakeFiles/SLNParse.dir/SLNParse.cpp.o -c /<>/Code/GraphMol/SLNParse/SLNParse.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/GraphMol/SmilesParse/SmartsWrite.h:15, from /<>/Code/GraphMol/SmilesParse/SmartsWrite.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 23%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Node.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Node.cpp.o -MF CMakeFiles/CIPLabeler.dir/Node.cpp.o.d -o CMakeFiles/CIPLabeler.dir/Node.cpp.o -c /<>/Code/GraphMol/CIPLabeler/Node.cpp [ 23%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/CXSmilesOps.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/CXSmilesOps.cpp.o -MF CMakeFiles/SmilesParse.dir/CXSmilesOps.cpp.o.d -o CMakeFiles/SmilesParse.dir/CXSmilesOps.cpp.o -c /<>/Code/GraphMol/SmilesParse/CXSmilesOps.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/MolInterchange/Parser.cpp:14: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {std::array}; _Tp = std::array; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::SubstanceGroup::CState}; _Tp = RDKit::SubstanceGroup::CState; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::array}; _Tp = std::array; _Alloc = std::allocator >]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = std::array; _Alloc = std::allocator >]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::MolInterchange::{anonymous}::readSubstanceGroups(RDKit::RWMol*, const rapidjson::Value&)’ at /<>/Code/GraphMol/MolInterchange/Parser.cpp:340:35: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::SubstanceGroup::CState}; _Tp = RDKit::SubstanceGroup::CState; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::SubstanceGroup::CState; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::MolInterchange::{anonymous}::readSubstanceGroups(RDKit::RWMol*, const rapidjson::Value&)’ at /<>/Code/GraphMol/MolInterchange/Parser.cpp:359:34: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 23%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Edge.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Edge.cpp.o -MF CMakeFiles/CIPLabeler.dir/Edge.cpp.o.d -o CMakeFiles/CIPLabeler.dir/Edge.cpp.o -c /<>/Code/GraphMol/CIPLabeler/Edge.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/SLNParse/SLNParse.cpp:35: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setPODVal(const std::string&, T) [with T = int]’ at /<>/Code/RDGeneral/Dict.h:285:20, inlined from ‘void RDKit::Dict::setVal(const std::string&, int)’ at /<>/Code/RDGeneral/Dict.h:294:60, inlined from ‘void RDKit::RDProps::setProp(const std::string&, T, bool) const [with T = int]’ at /<>/Code/RDGeneral/RDProps.h:86:19, inlined from ‘void RDKit::SLNParse::finalizeQueryMol(RDKit::ROMol*, bool)’ at /<>/Code/GraphMol/SLNParse/SLNParse.cpp:113:17: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘void RDKit::MolInterchange::{anonymous}::processMol.constprop(RDKit::RWMol*, const rapidjson::Value&, const DefaultValueCache&, const DefaultValueCache&, const RDKit::MolInterchange::JSONParseParameters&)’ at /<>/Code/GraphMol/MolInterchange/Parser.cpp:887:52: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::MolInterchange::{anonymous}::readConformer(RDKit::Conformer*, const rapidjson::Value&)’ at /<>/Code/GraphMol/MolInterchange/Parser.cpp:428:21, inlined from ‘void RDKit::MolInterchange::{anonymous}::processMol.constprop(RDKit::RWMol*, const rapidjson::Value&, const DefaultValueCache&, const DefaultValueCache&, const RDKit::MolInterchange::JSONParseParameters&)’ at /<>/Code/GraphMol/MolInterchange/Parser.cpp:888:20: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 23%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Sort.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Sort.cpp.o -MF CMakeFiles/CIPLabeler.dir/Sort.cpp.o.d -o CMakeFiles/CIPLabeler.dir/Sort.cpp.o -c /<>/Code/GraphMol/CIPLabeler/Sort.cpp [ 23%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/configs/Configuration.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/configs/Configuration.cpp.o -MF CMakeFiles/CIPLabeler.dir/configs/Configuration.cpp.o.d -o CMakeFiles/CIPLabeler.dir/configs/Configuration.cpp.o -c /<>/Code/GraphMol/CIPLabeler/configs/Configuration.cpp [ 24%] Building CXX object Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/Writer.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolInterchange_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLINTERCHANGE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/rapidjson -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/Writer.cpp.o -MF CMakeFiles/MolInterchange.dir/Writer.cpp.o.d -o CMakeFiles/MolInterchange.dir/Writer.cpp.o -c /<>/Code/GraphMol/MolInterchange/Writer.cpp [ 24%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/SLNAttribs.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SLNPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSLNParse_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/SLNAttribs.cpp.o -MF CMakeFiles/SLNParse.dir/SLNAttribs.cpp.o.d -o CMakeFiles/SLNParse.dir/SLNAttribs.cpp.o -c /<>/Code/GraphMol/SLNParse/SLNAttribs.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/c++/13/functional:64, from /usr/include/boost/algorithm/string/detail/classification.hpp:17, from /usr/include/boost/algorithm/string/classification.hpp:18, from /usr/include/boost/algorithm/string/trim.hpp:23, from /usr/include/boost/algorithm/string.hpp:19, from /<>/Code/GraphMol/SmilesParse/CXSmilesOps.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 24%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/configs/Sp2Bond.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/configs/Sp2Bond.cpp.o -MF CMakeFiles/CIPLabeler.dir/configs/Sp2Bond.cpp.o.d -o CMakeFiles/CIPLabeler.dir/configs/Sp2Bond.cpp.o -c /<>/Code/GraphMol/CIPLabeler/configs/Sp2Bond.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/GraphMol/SLNParse/SLNAttribs.h:39, from /<>/Code/GraphMol/SLNParse/SLNAttribs.cpp:37: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/RDGeneral/types.h:27, from /<>/Code/GraphMol/Chirality.h:16, from /<>/Code/GraphMol/CIPLabeler/configs/Sp2Bond.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::__cxx11::basic_string]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘bool SmilesParseOps::parser::parse_coords(Iterator&, Iterator, RDKit::RWMol&, unsigned int) [with Iterator = __gnu_cxx::__normal_iterator >]’ at /<>/Code/GraphMol/SmilesParse/CXSmilesOps.cpp:422:16: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘bool SmilesParseOps::parser::parse_coords(Iterator&, Iterator, RDKit::RWMol&, unsigned int) [with Iterator = __gnu_cxx::__normal_iterator >]’ at /<>/Code/GraphMol/SmilesParse/CXSmilesOps.cpp:446:23: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 24%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/configs/Tetrahedral.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/configs/Tetrahedral.cpp.o -MF CMakeFiles/CIPLabeler.dir/configs/Tetrahedral.cpp.o.d -o CMakeFiles/CIPLabeler.dir/configs/Tetrahedral.cpp.o -c /<>/Code/GraphMol/CIPLabeler/configs/Tetrahedral.cpp [ 24%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/sln.tab.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SLNPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSLNParse_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/sln.tab.cpp.o -MF CMakeFiles/SLNParse.dir/sln.tab.cpp.o.d -o CMakeFiles/SLNParse.dir/sln.tab.cpp.o -c /<>/Code/GraphMol/SLNParse/sln.tab.cpp [ 24%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/smarts.tab.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/smarts.tab.cpp.o -MF CMakeFiles/SmilesParse.dir/smarts.tab.cpp.o.d -o CMakeFiles/SmilesParse.dir/smarts.tab.cpp.o -c /<>/Code/GraphMol/SmilesParse/smarts.tab.cpp [ 24%] Linking CXX shared library ../../../lib/libRDKitMolInterchange.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolInterchange.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMolInterchange.so.1 -o ../../../lib/libRDKitMolInterchange.so.1.2023.09.3 CMakeFiles/MolInterchange.dir/Parser.cpp.o CMakeFiles/MolInterchange.dir/Writer.cpp.o ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolInterchange.so.1.2023.09.3 ../../../lib/libRDKitMolInterchange.so.1 ../../../lib/libRDKitMolInterchange.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 24%] Built target MolInterchange make -f Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 24%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/rdqueries.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdqueries_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/rdqueries.cpp.o -MF CMakeFiles/rdqueries.dir/rdqueries.cpp.o.d -o CMakeFiles/rdqueries.dir/rdqueries.cpp.o -c /<>/Code/GraphMol/Wrap/rdqueries.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/GraphMol/CIPLabeler/configs/Configuration.h:14, from /<>/Code/GraphMol/CIPLabeler/configs/Tetrahedral.h:13, from /<>/Code/GraphMol/CIPLabeler/configs/Tetrahedral.cpp:12: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::__cxx11::basic_string]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 24%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule1a.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule1a.cpp.o -MF CMakeFiles/CIPLabeler.dir/rules/Rule1a.cpp.o.d -o CMakeFiles/CIPLabeler.dir/rules/Rule1a.cpp.o -c /<>/Code/GraphMol/CIPLabeler/rules/Rule1a.cpp [ 24%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule1b.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule1b.cpp.o -MF CMakeFiles/CIPLabeler.dir/rules/Rule1b.cpp.o.d -o CMakeFiles/CIPLabeler.dir/rules/Rule1b.cpp.o -c /<>/Code/GraphMol/CIPLabeler/rules/Rule1b.cpp [ 25%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule2.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule2.cpp.o -MF CMakeFiles/CIPLabeler.dir/rules/Rule2.cpp.o.d -o CMakeFiles/CIPLabeler.dir/rules/Rule2.cpp.o -c /<>/Code/GraphMol/CIPLabeler/rules/Rule2.cpp In file included from /usr/include/c++/13/vector:72, from sln.yy:40: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from smarts.yy:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 26%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/lex.yysln.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SLNPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSLNParse_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/lex.yysln.cpp.o -MF CMakeFiles/SLNParse.dir/lex.yysln.cpp.o.d -o CMakeFiles/SLNParse.dir/lex.yysln.cpp.o -c /<>/Code/GraphMol/SLNParse/lex.yysln.cpp [ 26%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/Queries.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdqueries_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/Queries.cpp.o -MF CMakeFiles/rdqueries.dir/Queries.cpp.o.d -o CMakeFiles/rdqueries.dir/Queries.cpp.o -c /<>/Code/GraphMol/Wrap/Queries.cpp [ 26%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/smiles.tab.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/smiles.tab.cpp.o -MF CMakeFiles/SmilesParse.dir/smiles.tab.cpp.o.d -o CMakeFiles/SmilesParse.dir/smiles.tab.cpp.o -c /<>/Code/GraphMol/SmilesParse/smiles.tab.cpp [ 26%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule3.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule3.cpp.o -MF CMakeFiles/CIPLabeler.dir/rules/Rule3.cpp.o.d -o CMakeFiles/CIPLabeler.dir/rules/Rule3.cpp.o -c /<>/Code/GraphMol/CIPLabeler/rules/Rule3.cpp [ 26%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule4a.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule4a.cpp.o -MF CMakeFiles/CIPLabeler.dir/rules/Rule4a.cpp.o.d -o CMakeFiles/CIPLabeler.dir/rules/Rule4a.cpp.o -c /<>/Code/GraphMol/CIPLabeler/rules/Rule4a.cpp [ 26%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule4b.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule4b.cpp.o -MF CMakeFiles/CIPLabeler.dir/rules/Rule4b.cpp.o.d -o CMakeFiles/CIPLabeler.dir/rules/Rule4b.cpp.o -c /<>/Code/GraphMol/CIPLabeler/rules/Rule4b.cpp [ 26%] Linking CXX shared library ../../../lib/libRDKitSLNParse.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/SLNParse.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitSLNParse.so.1 -o ../../../lib/libRDKitSLNParse.so.1.2023.09.3 CMakeFiles/SLNParse.dir/SLNParse.cpp.o CMakeFiles/SLNParse.dir/SLNAttribs.cpp.o CMakeFiles/SLNParse.dir/sln.tab.cpp.o CMakeFiles/SLNParse.dir/lex.yysln.cpp.o ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSLNParse.so.1.2023.09.3 ../../../lib/libRDKitSLNParse.so.1 ../../../lib/libRDKitSLNParse.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 26%] Built target SLNParse make -f Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 26%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/Trajectory.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdtrajectory_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/Trajectory.cpp.o -MF CMakeFiles/rdtrajectory.dir/Trajectory.cpp.o.d -o CMakeFiles/rdtrajectory.dir/Trajectory.cpp.o -c /<>/Code/GraphMol/Wrap/Trajectory.cpp In file included from /usr/include/c++/13/vector:72, from smiles.yy:12: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 27%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/lex.yysmarts.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/lex.yysmarts.cpp.o -MF CMakeFiles/SmilesParse.dir/lex.yysmarts.cpp.o.d -o CMakeFiles/SmilesParse.dir/lex.yysmarts.cpp.o -c /<>/Code/GraphMol/SmilesParse/lex.yysmarts.cpp [ 27%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule4c.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule4c.cpp.o -MF CMakeFiles/CIPLabeler.dir/rules/Rule4c.cpp.o.d -o 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-D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule5.cpp.o -MF CMakeFiles/CIPLabeler.dir/rules/Rule5.cpp.o.d -o CMakeFiles/CIPLabeler.dir/rules/Rule5.cpp.o -c /<>/Code/GraphMol/CIPLabeler/rules/Rule5.cpp [ 27%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule5New.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule5New.cpp.o -MF CMakeFiles/CIPLabeler.dir/rules/Rule5New.cpp.o.d -o CMakeFiles/CIPLabeler.dir/rules/Rule5New.cpp.o -c /<>/Code/GraphMol/CIPLabeler/rules/Rule5New.cpp [ 27%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule6.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule6.cpp.o -MF CMakeFiles/CIPLabeler.dir/rules/Rule6.cpp.o.d -o CMakeFiles/CIPLabeler.dir/rules/Rule6.cpp.o -c /<>/Code/GraphMol/CIPLabeler/rules/Rule6.cpp [ 27%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/lex.yysmiles.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/lex.yysmiles.cpp.o -MF CMakeFiles/SmilesParse.dir/lex.yysmiles.cpp.o.d -o CMakeFiles/SmilesParse.dir/lex.yysmiles.cpp.o -c /<>/Code/GraphMol/SmilesParse/lex.yysmiles.cpp [ 27%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/SequenceRule.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/SequenceRule.cpp.o -MF CMakeFiles/CIPLabeler.dir/rules/SequenceRule.cpp.o.d -o CMakeFiles/CIPLabeler.dir/rules/SequenceRule.cpp.o -c /<>/Code/GraphMol/CIPLabeler/rules/SequenceRule.cpp [ 27%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/rdTrajectory.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdtrajectory_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/rdTrajectory.cpp.o -MF CMakeFiles/rdtrajectory.dir/rdTrajectory.cpp.o.d -o CMakeFiles/rdtrajectory.dir/rdTrajectory.cpp.o -c /<>/Code/GraphMol/Wrap/rdTrajectory.cpp [ 28%] Linking CXX shared module ../../../rdkit/Chem/rdqueries.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdqueries.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/Chem/rdqueries.so CMakeFiles/rdqueries.dir/rdqueries.cpp.o CMakeFiles/rdqueries.dir/Queries.cpp.o ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 28%] Built target rdqueries make -f Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build.make Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ChemicalFeatures/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures/Wrap /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build.make Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 29%] Building CXX object Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/rdChemicalFeatures.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdChemicalFeatures_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/rdChemicalFeatures.cpp.o -MF CMakeFiles/rdChemicalFeatures.dir/rdChemicalFeatures.cpp.o.d -o CMakeFiles/rdChemicalFeatures.dir/rdChemicalFeatures.cpp.o -c /<>/Code/ChemicalFeatures/Wrap/rdChemicalFeatures.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/RDGeneral/types.h:27, from smiles.ll:25: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 30%] Linking CXX shared library ../../../lib/libRDKitCIPLabeler.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/cmake -E cmake_link_script CMakeFiles/CIPLabeler.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitCIPLabeler.so.1 -o ../../../lib/libRDKitCIPLabeler.so.1.2023.09.3 CMakeFiles/CIPLabeler.dir/CIPMol.cpp.o CMakeFiles/CIPLabeler.dir/CIPLabeler.cpp.o CMakeFiles/CIPLabeler.dir/Mancude.cpp.o CMakeFiles/CIPLabeler.dir/Digraph.cpp.o CMakeFiles/CIPLabeler.dir/Node.cpp.o CMakeFiles/CIPLabeler.dir/Edge.cpp.o CMakeFiles/CIPLabeler.dir/Sort.cpp.o CMakeFiles/CIPLabeler.dir/configs/Configuration.cpp.o CMakeFiles/CIPLabeler.dir/configs/Sp2Bond.cpp.o CMakeFiles/CIPLabeler.dir/configs/Tetrahedral.cpp.o CMakeFiles/CIPLabeler.dir/rules/Rule1a.cpp.o CMakeFiles/CIPLabeler.dir/rules/Rule1b.cpp.o CMakeFiles/CIPLabeler.dir/rules/Rule2.cpp.o CMakeFiles/CIPLabeler.dir/rules/Rule3.cpp.o CMakeFiles/CIPLabeler.dir/rules/Rule4a.cpp.o CMakeFiles/CIPLabeler.dir/rules/Rule4b.cpp.o CMakeFiles/CIPLabeler.dir/rules/Rule4c.cpp.o CMakeFiles/CIPLabeler.dir/rules/Rule5.cpp.o CMakeFiles/CIPLabeler.dir/rules/Rule5New.cpp.o CMakeFiles/CIPLabeler.dir/rules/Rule6.cpp.o CMakeFiles/CIPLabeler.dir/rules/SequenceRule.cpp.o ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitCIPLabeler.so.1.2023.09.3 ../../../lib/libRDKitCIPLabeler.so.1 ../../../lib/libRDKitCIPLabeler.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 30%] Built target CIPLabeler make -f Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Substruct /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 31%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/SubstructMatch.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SUBSTRUCTMATCH_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSubstructMatch_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/SubstructMatch.cpp.o -MF CMakeFiles/SubstructMatch.dir/SubstructMatch.cpp.o.d -o CMakeFiles/SubstructMatch.dir/SubstructMatch.cpp.o -c /<>/Code/GraphMol/Substruct/SubstructMatch.cpp [ 31%] Linking CXX shared library ../../../lib/libRDKitSmilesParse.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/SmilesParse.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitSmilesParse.so.1 -o ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 CMakeFiles/SmilesParse.dir/SmilesParse.cpp.o CMakeFiles/SmilesParse.dir/SmilesParseOps.cpp.o CMakeFiles/SmilesParse.dir/SmilesWrite.cpp.o CMakeFiles/SmilesParse.dir/SmartsWrite.cpp.o CMakeFiles/SmilesParse.dir/CXSmilesOps.cpp.o CMakeFiles/SmilesParse.dir/smarts.tab.cpp.o CMakeFiles/SmilesParse.dir/smiles.tab.cpp.o CMakeFiles/SmilesParse.dir/lex.yysmarts.cpp.o CMakeFiles/SmilesParse.dir/lex.yysmiles.cpp.o ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1 ../../../lib/libRDKitSmilesParse.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 31%] Built target SmilesParse make -f Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Numerics/Optimizer /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Numerics/Optimizer /<>/obj-arm-linux-gnueabihf/Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 31%] Building CXX object Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/BFGSOpt.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Numerics/Optimizer && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DOptimizer_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_OPTIMIZER_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/BFGSOpt.cpp.o -MF CMakeFiles/Optimizer.dir/BFGSOpt.cpp.o.d -o CMakeFiles/Optimizer.dir/BFGSOpt.cpp.o -c /<>/Code/Numerics/Optimizer/BFGSOpt.cpp [ 31%] Linking CXX shared module ../../../rdkit/Chem/rdtrajectory.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdtrajectory.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/Chem/rdtrajectory.so CMakeFiles/rdtrajectory.dir/Trajectory.cpp.o CMakeFiles/rdtrajectory.dir/rdTrajectory.cpp.o ../../../lib/libRDKitTrajectory.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 -ldl /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 31%] Built target rdtrajectory make -f Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolcpTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmolcpTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 31%] Building CXX object Code/GraphMol/CMakeFiles/graphmolcpTest.dir/cptest.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CMakeFiles/graphmolcpTest.dir/cptest.cpp.o -MF CMakeFiles/graphmolcpTest.dir/cptest.cpp.o.d -o CMakeFiles/graphmolcpTest.dir/cptest.cpp.o -c /<>/Code/GraphMol/cptest.cpp [ 31%] Building CXX object Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/FreeChemicalFeature.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdChemicalFeatures_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/FreeChemicalFeature.cpp.o -MF CMakeFiles/rdChemicalFeatures.dir/FreeChemicalFeature.cpp.o.d -o CMakeFiles/rdChemicalFeatures.dir/FreeChemicalFeature.cpp.o -c /<>/Code/ChemicalFeatures/Wrap/FreeChemicalFeature.cpp [ 32%] Building CXX object Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/LinearSearch.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Numerics/Optimizer && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DOptimizer_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_OPTIMIZER_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/LinearSearch.cpp.o -MF CMakeFiles/Optimizer.dir/LinearSearch.cpp.o.d -o CMakeFiles/Optimizer.dir/LinearSearch.cpp.o -c /<>/Code/Numerics/Optimizer/LinearSearch.cpp [ 32%] Linking CXX shared library ../../../lib/libRDKitOptimizer.so cd /<>/obj-arm-linux-gnueabihf/Code/Numerics/Optimizer && /usr/bin/cmake -E cmake_link_script CMakeFiles/Optimizer.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitOptimizer.so.1 -o ../../../lib/libRDKitOptimizer.so.1.2023.09.3 CMakeFiles/Optimizer.dir/BFGSOpt.cpp.o CMakeFiles/Optimizer.dir/LinearSearch.cpp.o ../../../lib/libRDKitTrajectory.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/Numerics/Optimizer && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitOptimizer.so.1.2023.09.3 ../../../lib/libRDKitOptimizer.so.1 ../../../lib/libRDKitOptimizer.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 32%] Built target Optimizer make -f Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolIterTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmolIterTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 32%] Building CXX object Code/GraphMol/CMakeFiles/graphmolIterTest.dir/itertest.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CMakeFiles/graphmolIterTest.dir/itertest.cpp.o -MF CMakeFiles/graphmolIterTest.dir/itertest.cpp.o.d -o CMakeFiles/graphmolIterTest.dir/itertest.cpp.o -c /<>/Code/GraphMol/itertest.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/cptest.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 32%] Linking CXX executable graphmolcpTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolcpTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/graphmolcpTest.dir/cptest.cpp.o -o graphmolcpTest ../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 32%] Built target graphmolcpTest make -f Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 32%] Building CXX object Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/memtest1.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/memtest1.cpp.o -MF CMakeFiles/graphmolMemTest1.dir/memtest1.cpp.o.d -o CMakeFiles/graphmolMemTest1.dir/memtest1.cpp.o -c /<>/Code/GraphMol/memtest1.cpp [ 32%] Linking CXX shared module ../../../rdkit/Chem/rdChemicalFeatures.so cd /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdChemicalFeatures.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/Chem/rdChemicalFeatures.so CMakeFiles/rdChemicalFeatures.dir/rdChemicalFeatures.cpp.o CMakeFiles/rdChemicalFeatures.dir/FreeChemicalFeature.cpp.o ../../../lib/libRDKitChemicalFeatures.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 32%] Built target rdChemicalFeatures make -f Code/GraphMol/CMakeFiles/test-valgrind.dir/build.make Code/GraphMol/CMakeFiles/test-valgrind.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/test-valgrind.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/test-valgrind.dir/build.make Code/GraphMol/CMakeFiles/test-valgrind.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 32%] Building CXX object Code/GraphMol/CMakeFiles/test-valgrind.dir/test-valgrind.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CMakeFiles/test-valgrind.dir/test-valgrind.cpp.o -MF CMakeFiles/test-valgrind.dir/test-valgrind.cpp.o.d -o CMakeFiles/test-valgrind.dir/test-valgrind.cpp.o -c /<>/Code/GraphMol/test-valgrind.cpp [ 32%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/SubstructUtils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SUBSTRUCTMATCH_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSubstructMatch_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/SubstructUtils.cpp.o -MF CMakeFiles/SubstructMatch.dir/SubstructUtils.cpp.o.d -o CMakeFiles/SubstructMatch.dir/SubstructUtils.cpp.o -c /<>/Code/GraphMol/Substruct/SubstructUtils.cpp [ 32%] Linking CXX executable graphmolIterTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolIterTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/graphmolIterTest.dir/itertest.cpp.o -o graphmolIterTest ../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 32%] Built target graphmolIterTest make -f Code/GraphMol/CMakeFiles/queryTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/queryTestsCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/queryTestsCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/queryTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/queryTestsCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 32%] Building CXX object Code/GraphMol/CMakeFiles/queryTestsCatch.dir/catch_queries.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CMakeFiles/queryTestsCatch.dir/catch_queries.cpp.o -MF CMakeFiles/queryTestsCatch.dir/catch_queries.cpp.o.d -o CMakeFiles/queryTestsCatch.dir/catch_queries.cpp.o -c /<>/Code/GraphMol/catch_queries.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/memtest1.cpp:13: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 32%] Linking CXX executable graphmolMemTest1 cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolMemTest1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/graphmolMemTest1.dir/memtest1.cpp.o -o graphmolMemTest1 ../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 32%] Built target graphmolMemTest1 make -f Code/GraphMol/CMakeFiles/molbundleTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/molbundleTestsCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/molbundleTestsCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/molbundleTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/molbundleTestsCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 32%] Building CXX object Code/GraphMol/CMakeFiles/molbundleTestsCatch.dir/catch_molbundle.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CMakeFiles/molbundleTestsCatch.dir/catch_molbundle.cpp.o -MF CMakeFiles/molbundleTestsCatch.dir/catch_molbundle.cpp.o.d -o CMakeFiles/molbundleTestsCatch.dir/catch_molbundle.cpp.o -c /<>/Code/GraphMol/catch_molbundle.cpp [ 32%] Linking CXX executable test-valgrind cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-valgrind.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now "CMakeFiles/test-valgrind.dir/test-valgrind.cpp.o" -o test-valgrind ../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 32%] Built target test-valgrind make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 32%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/test2.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/test2.cpp.o -MF CMakeFiles/smiTest2.dir/test2.cpp.o.d -o CMakeFiles/smiTest2.dir/test2.cpp.o -c /<>/Code/GraphMol/SmilesParse/test2.cpp [ 32%] Linking CXX executable queryTestsCatch cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/queryTestsCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/queryTestsCatch.dir/catch_queries.cpp.o -o queryTestsCatch ../RDGeneral/librdkitCatch.a ../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../lib/libRDKitGraphMol.so.1.2023.09.3 /usr/lib/libCatch2.a ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 32%] Built target queryTestsCatch make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Subgraphs /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 32%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/test1.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/<>/External/boost-numeric-bindings -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/test1.cpp.o -MF CMakeFiles/testSubgraphs1.dir/test1.cpp.o.d -o CMakeFiles/testSubgraphs1.dir/test1.cpp.o -c /<>/Code/GraphMol/Subgraphs/test1.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/GraphMol/Substruct/SubstructMatch.h:15, from /<>/Code/GraphMol/Substruct/SubstructUtils.h:14, from /<>/Code/GraphMol/Substruct/SubstructUtils.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {unsigned int, double}; _Tp = std::pair; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {unsigned int, double}; _Tp = std::pair; _Alloc = std::allocator >]’, inlined from ‘RDKit::detail::ScoreMatchesByDegreeOfCoreSubstitution::ScoreMatchesByDegreeOfCoreSubstitution(const RDKit::ROMol&, const RDKit::ROMol&, const std::vector > >&)’ at /<>/Code/GraphMol/Substruct/SubstructUtils.cpp:50:37: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/functional:67, from /<>/Code/GraphMol/Substruct/SubstructMatch.h:18: /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Val_comp_iter&, const pair&)>]’: /usr/include/c++/13/bits/stl_algo.h:1792:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1792 | __unguarded_linear_insert(_RandomAccessIterator __last, | ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, const pair&)>]’: /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1812 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 In file included from /usr/include/c++/13/bits/stl_algo.h:61: /usr/include/c++/13/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Distance = int; _Tp = pair; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, const pair&)>]’: /usr/include/c++/13/bits/stl_heap.h:224:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, const pair&)>]’: /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1918 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_algo.h:1932:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1932 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, const pair&)>]’, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator*, vector > >; _Compare = bool (*)(const pair&, const pair&)]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘std::vector > > RDKit::detail::ScoreMatchesByDegreeOfCoreSubstitution::sortMatchesByDegreeOfCoreSubstitution()’ at /<>/Code/GraphMol/Substruct/SubstructUtils.cpp:63:16, inlined from ‘std::vector > > RDKit::sortMatchesByDegreeOfCoreSubstitution(const ROMol&, const ROMol&, const std::vector > >&)’ at /<>/Code/GraphMol/Substruct/SubstructUtils.cpp:245:60: /usr/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1947 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1948 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1949 | __comp); | ~~~~~~~ In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, const pair&)>]’, inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, const pair&)>]’ at /usr/include/c++/13/bits/stl_algo.h:1950:31, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator*, vector > >; _Compare = bool (*)(const pair&, const pair&)]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘std::vector > > RDKit::detail::ScoreMatchesByDegreeOfCoreSubstitution::sortMatchesByDegreeOfCoreSubstitution()’ at /<>/Code/GraphMol/Substruct/SubstructUtils.cpp:63:16, inlined from ‘std::vector > > RDKit::sortMatchesByDegreeOfCoreSubstitution(const ROMol&, const ROMol&, const std::vector > >&)’ at /<>/Code/GraphMol/Substruct/SubstructUtils.cpp:245:60: /usr/include/c++/13/bits/stl_algo.h:1859:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1859 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1864:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1864 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ [ 32%] Linking CXX executable molbundleTestsCatch cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/molbundleTestsCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/molbundleTestsCatch.dir/catch_molbundle.cpp.o -o molbundleTestsCatch ../RDGeneral/librdkitCatch.a ../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../lib/libRDKitGraphMol.so.1.2023.09.3 /usr/lib/libCatch2.a ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 32%] Built target molbundleTestsCatch make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Subgraphs /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 32%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/test2.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/test2.cpp.o -MF CMakeFiles/testSubgraphs2.dir/test2.cpp.o.d -o CMakeFiles/testSubgraphs2.dir/test2.cpp.o -c /<>/Code/GraphMol/Subgraphs/test2.cpp [ 32%] Linking CXX executable smiTest2 cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/smiTest2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/smiTest2.dir/test2.cpp.o -o smiTest2 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 32%] Built target smiTest2 make -f Code/GraphMol/Subgraphs/CMakeFiles/subgraphsCatch.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/subgraphsCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Subgraphs /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs/CMakeFiles/subgraphsCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Subgraphs/CMakeFiles/subgraphsCatch.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/subgraphsCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 33%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/subgraphsCatch.dir/catch_tests.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/Subgraphs/CMakeFiles/subgraphsCatch.dir/catch_tests.cpp.o -MF CMakeFiles/subgraphsCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/subgraphsCatch.dir/catch_tests.cpp.o -c /<>/Code/GraphMol/Subgraphs/catch_tests.cpp [ 33%] Linking CXX shared library ../../../lib/libRDKitSubstructMatch.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct && /usr/bin/cmake -E cmake_link_script CMakeFiles/SubstructMatch.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitSubstructMatch.so.1 -o ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 CMakeFiles/SubstructMatch.dir/SubstructMatch.cpp.o CMakeFiles/SubstructMatch.dir/SubstructUtils.cpp.o ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1 ../../../lib/libRDKitSubstructMatch.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 33%] Built target SubstructMatch make -f Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/PartialCharges /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/PartialCharges /<>/obj-arm-linux-gnueabihf/Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 33%] Building CXX object Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/test1.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/PartialCharges && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/test1.cpp.o -MF CMakeFiles/testPartialCharges.dir/test1.cpp.o.d -o CMakeFiles/testPartialCharges.dir/test1.cpp.o -c /<>/Code/GraphMol/PartialCharges/test1.cpp [ 33%] Linking CXX executable testSubgraphs1 cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSubgraphs1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat 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-D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/rdPartialCharges.cpp.o -MF CMakeFiles/rdPartialCharges.dir/rdPartialCharges.cpp.o.d -o CMakeFiles/rdPartialCharges.dir/rdPartialCharges.cpp.o -c /<>/Code/GraphMol/PartialCharges/Wrap/rdPartialCharges.cpp [ 34%] Linking CXX executable testPartialCharges cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/PartialCharges && /usr/bin/cmake -E cmake_link_script CMakeFiles/testPartialCharges.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testPartialCharges.dir/test1.cpp.o -o testPartialCharges ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so 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-D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeature.cpp.o -MF CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeature.cpp.o.d -o CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeature.cpp.o -c /<>/Code/GraphMol/MolChemicalFeatures/MolChemicalFeature.cpp [ 34%] Linking CXX executable subgraphsCatch cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs && /usr/bin/cmake -E cmake_link_script CMakeFiles/subgraphsCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/subgraphsCatch.dir/catch_tests.cpp.o -o subgraphsCatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 /usr/lib/libCatch2.a ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving 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/<>/Code/GraphMol/MolCatalog/Wrap/rdMolCatalog.cpp [ 35%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureDef.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolChemicalFeatures_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCHEMICALFEATURES_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureDef.cpp.o -MF CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureDef.cpp.o.d -o CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureDef.cpp.o -c /<>/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureDef.cpp [ 35%] Linking CXX shared module ../../../../rdkit/Chem/rdPartialCharges.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/PartialCharges/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdPartialCharges.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 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-DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o -MF CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o.d -o 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/usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_REDUCEDGRAPHS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DReducedGraphs_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/ReducedGraphs.cpp.o -MF CMakeFiles/ReducedGraphs.dir/ReducedGraphs.cpp.o.d -o CMakeFiles/ReducedGraphs.dir/ReducedGraphs.cpp.o -c /<>/Code/GraphMol/ReducedGraphs/ReducedGraphs.cpp [ 35%] Linking CXX shared module ../../../../rdkit/Chem/rdMolCatalog.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolCatalog/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolCatalog.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolCatalog.so CMakeFiles/rdMolCatalog.dir/rdMolCatalog.cpp.o ../../../../lib/libRDKitMolCatalog.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../../lib/libRDKitCatalogs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 35%] Built target rdMolCatalog make -f Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/build.make Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolInterchange/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/build.make Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 35%] Linking CXX shared module ../../../../rdkit/Chem/rdCIPLabeler.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdCIPLabeler.dir/link.txt --verbose=1 [ 35%] Building CXX object Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/rdMolInterchange.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolInterchange_EXPORTS -I/<>/External -I/usr/include/rapidjson -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/rdMolInterchange.cpp.o -MF CMakeFiles/rdMolInterchange.dir/rdMolInterchange.cpp.o.d -o CMakeFiles/rdMolInterchange.dir/rdMolInterchange.cpp.o -c /<>/Code/GraphMol/MolInterchange/Wrap/rdMolInterchange.cpp /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdCIPLabeler.so CMakeFiles/rdCIPLabeler.dir/rdCIPLabeler.cpp.o ../../../../lib/libRDKitCIPLabeler.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 35%] Built target rdCIPLabeler make -f Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SLNParse /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 36%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/test.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/test.cpp.o -MF CMakeFiles/testSLNParse.dir/test.cpp.o.d -o CMakeFiles/testSLNParse.dir/test.cpp.o -c /<>/Code/GraphMol/SLNParse/test.cpp [ 36%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/FeatureParser.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolChemicalFeatures_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCHEMICALFEATURES_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/FeatureParser.cpp.o -MF CMakeFiles/MolChemicalFeatures.dir/FeatureParser.cpp.o.d -o CMakeFiles/MolChemicalFeatures.dir/FeatureParser.cpp.o -c /<>/Code/GraphMol/MolChemicalFeatures/FeatureParser.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/ReducedGraphs/ReducedGraphs.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::vector]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 36%] Linking CXX shared library ../../../lib/libRDKitReducedGraphs.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ReducedGraphs && /usr/bin/cmake -E cmake_link_script CMakeFiles/ReducedGraphs.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitReducedGraphs.so.1 -o ../../../lib/libRDKitReducedGraphs.so.1.2023.09.3 CMakeFiles/ReducedGraphs.dir/ReducedGraphs.cpp.o ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ReducedGraphs && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitReducedGraphs.so.1.2023.09.3 ../../../lib/libRDKitReducedGraphs.so.1 ../../../lib/libRDKitReducedGraphs.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 36%] Built target ReducedGraphs make -f Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build.make Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SLNParse/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build.make Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 36%] Building CXX object Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/rdSLNParse.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSLNParse_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/rdSLNParse.cpp.o -MF CMakeFiles/rdSLNParse.dir/rdSLNParse.cpp.o.d -o CMakeFiles/rdSLNParse.dir/rdSLNParse.cpp.o -c /<>/Code/GraphMol/SLNParse/Wrap/rdSLNParse.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureDef.h:15, from /<>/Code/GraphMol/MolChemicalFeatures/FeatureParser.h:18, from /<>/Code/GraphMol/MolChemicalFeatures/FeatureParser.cpp:11: /usr/include/c++/13/bits/vector.tcc: In function ‘void std::vector<_Tp, _Alloc>::_M_range_insert(iterator, _ForwardIterator, _ForwardIterator, std::forward_iterator_tag) [with _ForwardIterator = __gnu_cxx::__normal_iterator >; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:751:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 751 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc:751:7: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/13/bits/vector.tcc:751:7: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ [ 37%] Linking CXX shared module ../../../../rdkit/Chem/rdMolInterchange.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolInterchange.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolInterchange.so CMakeFiles/rdMolInterchange.dir/rdMolInterchange.cpp.o ../../../../lib/libRDKitMolInterchange.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘RDKit::MolChemicalFeatureDef* RDKit::Local::parseFeatureDef(std::istream&, const std::string&, unsigned int&, const std::map, std::__cxx11::basic_string >&)’ at /<>/Code/GraphMol/MolChemicalFeatures/FeatureParser.cpp:239:30: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, _InputIterator, _InputIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; = void; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolChemicalFeatureDef::setWeights(const std::vector&)’ at /<>/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureDef.h:45:21, inlined from ‘RDKit::MolChemicalFeatureDef* RDKit::Local::parseFeatureDef(std::istream&, const std::string&, unsigned int&, const std::map, std::__cxx11::basic_string >&)’ at /<>/Code/GraphMol/MolChemicalFeatures/FeatureParser.cpp:268:20: /usr/include/c++/13/bits/stl_vector.h:1483:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1483 | _M_range_insert(begin() + __offset, __first, __last, | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1484 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_vector.h:1483:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 37%] Built target rdMolInterchange make -f Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/build.make Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Abbreviations /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Abbreviations /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/build.make Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 37%] Building CXX object Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/Abbreviations.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Abbreviations && /usr/bin/c++ -DAbbreviations_EXPORTS -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_ABBREVIATIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/Abbreviations.cpp.o -MF CMakeFiles/Abbreviations.dir/Abbreviations.cpp.o.d -o CMakeFiles/Abbreviations.dir/Abbreviations.cpp.o -c /<>/Code/GraphMol/Abbreviations/Abbreviations.cpp [ 37%] Linking CXX shared library ../../../lib/libRDKitMolChemicalFeatures.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolChemicalFeatures.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMolChemicalFeatures.so.1 -o ../../../lib/libRDKitMolChemicalFeatures.so.1.2023.09.3 CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeature.cpp.o CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureDef.cpp.o CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o CMakeFiles/MolChemicalFeatures.dir/FeatureParser.cpp.o ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolChemicalFeatures.so.1.2023.09.3 ../../../lib/libRDKitMolChemicalFeatures.so.1 ../../../lib/libRDKitMolChemicalFeatures.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 37%] Built target MolChemicalFeatures make -f Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolAlign /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 37%] Building CXX object Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/AlignMolecules.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolAlign_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLALIGN_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/AlignMolecules.cpp.o -MF CMakeFiles/MolAlign.dir/AlignMolecules.cpp.o.d -o CMakeFiles/MolAlign.dir/AlignMolecules.cpp.o -c /<>/Code/GraphMol/MolAlign/AlignMolecules.cpp [ 37%] Linking CXX shared module ../../../../rdkit/Chem/rdSLNParse.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdSLNParse.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdSLNParse.so CMakeFiles/rdSLNParse.dir/rdSLNParse.cpp.o ../../../../lib/libRDKitSLNParse.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 37%] Built target rdSLNParse make -f Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Numerics/Optimizer /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Numerics/Optimizer /<>/obj-arm-linux-gnueabihf/Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 37%] Building CXX object Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/testOptimizer.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Numerics/Optimizer && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/testOptimizer.cpp.o -MF CMakeFiles/testOptimizer.dir/testOptimizer.cpp.o.d -o CMakeFiles/testOptimizer.dir/testOptimizer.cpp.o -c /<>/Code/Numerics/Optimizer/testOptimizer.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/Numerics/Optimizer/testOptimizer.cpp:14: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const RDKit::Snapshot&}; _Tp = RDKit::Snapshot; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/GraphMol/Substruct/SubstructMatch.h:15, from /<>/Code/GraphMol/Abbreviations/Abbreviations.h:13, from /<>/Code/GraphMol/Abbreviations/Abbreviations.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDKit::Snapshot; _Alloc = std::allocator]’, inlined from ‘int BFGSOpt::minimize(unsigned int, double*, double, unsigned int&, double&, EnergyFunctor, GradientFunctor, unsigned int, RDKit::SnapshotVect*, double, unsigned int) [with EnergyFunctor = double (*)(double*); GradientFunctor = double (*)(double*, double*)]’ at /<>/Code/Numerics/Optimizer/BFGSOpt.h:261:32: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDKit::Snapshot; _Alloc = std::allocator]’, inlined from ‘int BFGSOpt::minimize(unsigned int, double*, double, unsigned int&, double&, EnergyFunctor, GradientFunctor, unsigned int, RDKit::SnapshotVect*, double, unsigned int) [with EnergyFunctor = double (*)(double*); GradientFunctor = double (*)(double*, double*)]’ at /<>/Code/Numerics/Optimizer/BFGSOpt.h:285:32: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDKit::Snapshot; _Alloc = std::allocator]’, inlined from ‘int BFGSOpt::minimize(unsigned int, double*, double, unsigned int&, double&, EnergyFunctor, GradientFunctor, unsigned int, RDKit::SnapshotVect*, double, unsigned int) [with EnergyFunctor = double (*)(double*); GradientFunctor = double (*)(double*, double*)]’ at /<>/Code/Numerics/Optimizer/BFGSOpt.h:364:30: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 37%] Linking CXX executable testOptimizer cd /<>/obj-arm-linux-gnueabihf/Code/Numerics/Optimizer && /usr/bin/cmake -E cmake_link_script CMakeFiles/testOptimizer.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testOptimizer.dir/testOptimizer.cpp.o -o testOptimizer ../../../lib/libRDKitOptimizer.so.1.2023.09.3 ../../../lib/libRDKitTrajectory.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 37%] Built target testOptimizer make -f Code/ForceField/CMakeFiles/ForceField.dir/build.make Code/ForceField/CMakeFiles/ForceField.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ForceField /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ForceField /<>/obj-arm-linux-gnueabihf/Code/ForceField/CMakeFiles/ForceField.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ForceField/CMakeFiles/ForceField.dir/build.make Code/ForceField/CMakeFiles/ForceField.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 37%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/ForceField.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/ForceField.cpp.o -MF CMakeFiles/ForceField.dir/ForceField.cpp.o.d -o CMakeFiles/ForceField.dir/ForceField.cpp.o -c /<>/Code/ForceField/ForceField.cpp [ 37%] Building CXX object Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/AbbreviationsUtils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Abbreviations && /usr/bin/c++ -DAbbreviations_EXPORTS -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_ABBREVIATIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/AbbreviationsUtils.cpp.o -MF CMakeFiles/Abbreviations.dir/AbbreviationsUtils.cpp.o.d -o CMakeFiles/Abbreviations.dir/AbbreviationsUtils.cpp.o -c /<>/Code/GraphMol/Abbreviations/AbbreviationsUtils.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/Numerics/Matrix.h:14, from /<>/Code/Numerics/SquareMatrix.h:14, from /<>/Code/Geometry/Transform3D.h:16, from /<>/Code/GraphMol/MolAlign/AlignMolecules.h:14, from /<>/Code/GraphMol/MolAlign/AlignMolecules.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {unsigned int&, double&}; _Tp = std::pair; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {unsigned int&, double&}; _Tp = std::pair; _Alloc = std::allocator >]’, inlined from ‘RDKit::MolAlign::getAllConformerBestRMS(const RDKit::ROMol&, int, const std::vector > >&, int, bool, const RDNumeric::DoubleVector*)::’ at /<>/Code/GraphMol/MolAlign/AlignMolecules.cpp:326:33, inlined from ‘constexpr _Res std::__invoke_impl(__invoke_other, _Fn&&, _Args&& ...) [with _Res = void; _Fn = RDKit::MolAlign::getAllConformerBestRMS(const RDKit::ROMol&, int, const std::vector > >&, int, bool, const RDNumeric::DoubleVector*)::; _Args = {int}]’ at /usr/include/c++/13/bits/invoke.h:61:36, inlined from ‘constexpr typename std::__invoke_result<_Functor, _ArgTypes>::type std::__invoke(_Callable&&, _Args&& ...) [with _Callable = RDKit::MolAlign::getAllConformerBestRMS(const RDKit::ROMol&, int, const std::vector > >&, int, bool, const RDNumeric::DoubleVector*)::; _Args = {int}]’ at /usr/include/c++/13/bits/invoke.h:96:40, inlined from ‘typename std::thread::_Invoker<_Tuple>::__result<_Tuple>::type std::thread::_Invoker<_Tuple>::_M_invoke(std::_Index_tuple<_Ind ...>) [with unsigned int ..._Ind = {0, 1}; _Tuple = std::tuple > >&, int, bool, const RDNumeric::DoubleVector*)::, int>]’ at /usr/include/c++/13/bits/std_thread.h:292:26, inlined from ‘typename std::thread::_Invoker<_Tuple>::__result<_Tuple>::type std::thread::_Invoker<_Tuple>::operator()() [with _Tuple = std::tuple > >&, int, bool, const RDNumeric::DoubleVector*)::, int>]’ at /usr/include/c++/13/bits/std_thread.h:299:20, inlined from ‘void std::thread::_State_impl<_Callable>::_M_run() [with _Callable = std::thread::_Invoker > >&, int, bool, const RDNumeric::DoubleVector*)::, int> >]’ at /usr/include/c++/13/bits/std_thread.h:244:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::MolAlign::alignMolConformers(RDKit::ROMol&, const std::vector*, const std::vector*, const RDNumeric::DoubleVector*, bool, unsigned int, std::vector*)’ at /<>/Code/GraphMol/MolAlign/AlignMolecules.cpp:427:27: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::MolAlign::alignMolConformers(RDKit::ROMol&, const std::vector*, const std::vector*, const RDNumeric::DoubleVector*, bool, unsigned int, std::vector*)’ at /<>/Code/GraphMol/MolAlign/AlignMolecules.cpp:445:27: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘std::vector RDKit::MolAlign::getAllConformerBestRMS(const RDKit::ROMol&, int, const std::vector > >&, int, bool, const RDNumeric::DoubleVector*)’ at /<>/Code/GraphMol/MolAlign/AlignMolecules.cpp:303:22: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double&, unsigned int&, RDGeom::Transform3D&}; _Tp = std::tuple; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double&, unsigned int&, RDGeom::Transform3D&}; _Tp = std::tuple; _Alloc = std::allocator >]’, inlined from ‘RDKit::MolAlign::{anonymous}::getBestRMSInternal(const RDKit::ROMol&, const RDKit::ROMol&, int, int, const std::vector > >&, RDGeom::Transform3D*, RDKit::MatchVectType*, const RDNumeric::DoubleVector*, bool, unsigned int, unsigned int)::’ at /<>/Code/GraphMol/MolAlign/AlignMolecules.cpp:170:35, inlined from ‘constexpr _Res std::__invoke_impl(__invoke_other, _Fn&&, _Args&& ...) [with _Res = void; _Fn = RDKit::MolAlign::{anonymous}::getBestRMSInternal(const RDKit::ROMol&, const RDKit::ROMol&, int, int, const std::vector > >&, RDGeom::Transform3D*, RDKit::MatchVectType*, const RDNumeric::DoubleVector*, bool, unsigned int, unsigned int)::; _Args = {unsigned int}]’ at /usr/include/c++/13/bits/invoke.h:61:36, inlined from ‘constexpr typename std::__invoke_result<_Functor, _ArgTypes>::type std::__invoke(_Callable&&, _Args&& ...) [with _Callable = RDKit::MolAlign::{anonymous}::getBestRMSInternal(const RDKit::ROMol&, const RDKit::ROMol&, int, int, const std::vector > >&, RDGeom::Transform3D*, RDKit::MatchVectType*, const RDNumeric::DoubleVector*, bool, unsigned int, unsigned int)::; _Args = {unsigned int}]’ at /usr/include/c++/13/bits/invoke.h:96:40, inlined from ‘typename std::thread::_Invoker<_Tuple>::__result<_Tuple>::type std::thread::_Invoker<_Tuple>::_M_invoke(std::_Index_tuple<_Ind ...>) [with unsigned int ..._Ind = {0, 1}; _Tuple = std::tuple > >&, RDGeom::Transform3D*, RDKit::MatchVectType*, const RDNumeric::DoubleVector*, bool, unsigned int, unsigned int)::, unsigned int>]’ at /usr/include/c++/13/bits/std_thread.h:292:26, inlined from ‘typename std::thread::_Invoker<_Tuple>::__result<_Tuple>::type std::thread::_Invoker<_Tuple>::operator()() [with _Tuple = std::tuple > >&, RDGeom::Transform3D*, RDKit::MatchVectType*, const RDNumeric::DoubleVector*, bool, unsigned int, unsigned int)::, unsigned int>]’ at /usr/include/c++/13/bits/std_thread.h:299:20, inlined from ‘void std::thread::_State_impl<_Callable>::_M_run() [with _Callable = std::thread::_Invoker > >&, RDGeom::Transform3D*, RDKit::MatchVectType*, const RDNumeric::DoubleVector*, bool, unsigned int, unsigned int)::, unsigned int> >]’ at /usr/include/c++/13/bits/std_thread.h:244:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/ForceField/ForceField.h:14, from /<>/Code/ForceField/ForceField.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘double ForceFields::ForceField::calcEnergy(std::vector*) const’ at /<>/Code/ForceField/ForceField.cpp:316:26: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const RDKit::Snapshot&}; _Tp = RDKit::Snapshot; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ [ 37%] Linking CXX shared library ../../../lib/libRDKitMolAlign.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolAlign.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMolAlign.so.1 -o ../../../lib/libRDKitMolAlign.so.1.2023.09.3 CMakeFiles/MolAlign.dir/AlignMolecules.cpp.o ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDKit::Snapshot; _Alloc = std::allocator]’, inlined from ‘int BFGSOpt::minimize(unsigned int, double*, double, unsigned int&, double&, EnergyFunctor, GradientFunctor, unsigned int, RDKit::SnapshotVect*, double, unsigned int) [with EnergyFunctor = ForceFieldsHelper::calcEnergy; GradientFunctor = ForceFieldsHelper::calcGradient]’ at /<>/Code/Numerics/Optimizer/BFGSOpt.h:261:32, inlined from ‘int ForceFields::ForceField::minimize(unsigned int, RDKit::SnapshotVect*, unsigned int, double, double)’ at /<>/Code/ForceField/ForceField.cpp:289:24: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDKit::Snapshot; _Alloc = std::allocator]’, inlined from ‘int BFGSOpt::minimize(unsigned int, double*, double, unsigned int&, double&, EnergyFunctor, GradientFunctor, unsigned int, RDKit::SnapshotVect*, double, unsigned int) [with EnergyFunctor = ForceFieldsHelper::calcEnergy; GradientFunctor = ForceFieldsHelper::calcGradient]’ at /<>/Code/Numerics/Optimizer/BFGSOpt.h:285:32, inlined from ‘int ForceFields::ForceField::minimize(unsigned int, RDKit::SnapshotVect*, unsigned int, double, double)’ at /<>/Code/ForceField/ForceField.cpp:289:24: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDKit::Snapshot; _Alloc = std::allocator]’, inlined from ‘int BFGSOpt::minimize(unsigned int, double*, double, unsigned int&, double&, EnergyFunctor, GradientFunctor, unsigned int, RDKit::SnapshotVect*, double, unsigned int) [with EnergyFunctor = ForceFieldsHelper::calcEnergy; GradientFunctor = ForceFieldsHelper::calcGradient]’ at /<>/Code/Numerics/Optimizer/BFGSOpt.h:364:30, inlined from ‘int ForceFields::ForceField::minimize(unsigned int, RDKit::SnapshotVect*, unsigned int, double, double)’ at /<>/Code/ForceField/ForceField.cpp:289:24: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitMolAlign.so.1 ../../../lib/libRDKitMolAlign.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 37%] Built target MolAlign make -f Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 38%] Building CXX object Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/querytest.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/querytest.cpp.o -MF CMakeFiles/graphmolqueryTest.dir/querytest.cpp.o.d -o CMakeFiles/graphmolqueryTest.dir/querytest.cpp.o -c /<>/Code/GraphMol/querytest.cpp [ 38%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/AngleBend.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/UFF/AngleBend.cpp.o -MF CMakeFiles/ForceField.dir/UFF/AngleBend.cpp.o.d -o CMakeFiles/ForceField.dir/UFF/AngleBend.cpp.o -c /<>/Code/ForceField/UFF/AngleBend.cpp [ 38%] Linking CXX executable testSLNParse cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSLNParse.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testSLNParse.dir/test.cpp.o -o testSLNParse ../../../lib/libRDKitSLNParse.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 38%] Built target testSLNParse make -f Code/GraphMol/CMakeFiles/moliteratorTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/moliteratorTestsCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/moliteratorTestsCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/moliteratorTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/moliteratorTestsCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 38%] Building CXX object Code/GraphMol/CMakeFiles/moliteratorTestsCatch.dir/catch_moliterators.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CMakeFiles/moliteratorTestsCatch.dir/catch_moliterators.cpp.o -MF CMakeFiles/moliteratorTestsCatch.dir/catch_moliterators.cpp.o.d -o CMakeFiles/moliteratorTestsCatch.dir/catch_moliterators.cpp.o -c /<>/Code/GraphMol/catch_moliterators.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/GraphMol/Substruct/SubstructMatch.h:15, from /<>/Code/GraphMol/Abbreviations/Abbreviations.h:13, from /<>/Code/GraphMol/Abbreviations/AbbreviationsUtils.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setPODVal(const std::string&, T) [with T = unsigned int]’ at /<>/Code/RDGeneral/Dict.h:285:20, inlined from ‘void RDKit::Dict::setVal(const std::string&, unsigned int)’ at /<>/Code/RDGeneral/Dict.h:297:14, inlined from ‘void RDKit::RDProps::setProp(const std::string&, T, bool) const [with T = unsigned int]’ at /<>/Code/RDGeneral/RDProps.h:86:19, inlined from ‘RDKit::ROMol* RDKit::Abbreviations::Utils::detail::createAbbreviationMol(const std::string&, bool, bool)’ at /<>/Code/GraphMol/Abbreviations/AbbreviationsUtils.cpp:181:13: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 38%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/BondStretch.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/UFF/BondStretch.cpp.o -MF CMakeFiles/ForceField.dir/UFF/BondStretch.cpp.o.d -o CMakeFiles/ForceField.dir/UFF/BondStretch.cpp.o -c /<>/Code/ForceField/UFF/BondStretch.cpp [ 38%] Linking CXX shared library ../../../lib/libRDKitAbbreviations.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Abbreviations && /usr/bin/cmake -E cmake_link_script CMakeFiles/Abbreviations.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitAbbreviations.so.1 -o ../../../lib/libRDKitAbbreviations.so.1.2023.09.3 CMakeFiles/Abbreviations.dir/Abbreviations.cpp.o CMakeFiles/Abbreviations.dir/AbbreviationsUtils.cpp.o ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Abbreviations && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitAbbreviations.so.1.2023.09.3 ../../../lib/libRDKitAbbreviations.so.1 ../../../lib/libRDKitAbbreviations.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 38%] Built target Abbreviations make -f Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 38%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/smatest.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/smatest.cpp.o -MF CMakeFiles/smaTest1.dir/smatest.cpp.o.d -o CMakeFiles/smaTest1.dir/smatest.cpp.o -c /<>/Code/GraphMol/SmilesParse/smatest.cpp [ 38%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/Nonbonded.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/UFF/Nonbonded.cpp.o -MF CMakeFiles/ForceField.dir/UFF/Nonbonded.cpp.o.d -o CMakeFiles/ForceField.dir/UFF/Nonbonded.cpp.o -c /<>/Code/ForceField/UFF/Nonbonded.cpp [ 38%] Linking CXX executable moliteratorTestsCatch cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/moliteratorTestsCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/moliteratorTestsCatch.dir/catch_moliterators.cpp.o -o moliteratorTestsCatch ../RDGeneral/librdkitCatch.a ../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../lib/libRDKitSmilesParse.so.1.2023.09.3 /usr/lib/libCatch2.a ../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 38%] Built target moliteratorTestsCatch make -f Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FilterCatalog /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 38%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/Filters.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/Filters.cpp.o -MF CMakeFiles/FilterCatalog.dir/Filters.cpp.o.d -o CMakeFiles/FilterCatalog.dir/Filters.cpp.o -c /<>/Code/GraphMol/FilterCatalog/Filters.cpp [ 38%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/Inversion.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/UFF/Inversion.cpp.o -MF CMakeFiles/ForceField.dir/UFF/Inversion.cpp.o.d -o CMakeFiles/ForceField.dir/UFF/Inversion.cpp.o -c /<>/Code/ForceField/UFF/Inversion.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/querytest.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 39%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterCatalog.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterCatalog.cpp.o -MF CMakeFiles/FilterCatalog.dir/FilterCatalog.cpp.o.d -o CMakeFiles/FilterCatalog.dir/FilterCatalog.cpp.o -c /<>/Code/GraphMol/FilterCatalog/FilterCatalog.cpp [ 39%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/TorsionAngle.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/UFF/TorsionAngle.cpp.o -MF CMakeFiles/ForceField.dir/UFF/TorsionAngle.cpp.o.d -o CMakeFiles/ForceField.dir/UFF/TorsionAngle.cpp.o -c /<>/Code/ForceField/UFF/TorsionAngle.cpp [ 39%] Linking CXX executable graphmolqueryTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolqueryTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/graphmolqueryTest.dir/querytest.cpp.o -o graphmolqueryTest ../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 39%] Built target graphmolqueryTest make -f Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Fingerprints /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 39%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/Fingerprints.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/Fingerprints.cpp.o -MF CMakeFiles/Fingerprints.dir/Fingerprints.cpp.o.d -o CMakeFiles/Fingerprints.dir/Fingerprints.cpp.o -c /<>/Code/GraphMol/Fingerprints/Fingerprints.cpp [ 39%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/DistanceConstraint.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/UFF/DistanceConstraint.cpp.o -MF CMakeFiles/ForceField.dir/UFF/DistanceConstraint.cpp.o.d -o CMakeFiles/ForceField.dir/UFF/DistanceConstraint.cpp.o -c /<>/Code/ForceField/UFF/DistanceConstraint.cpp [ 39%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/AngleConstraint.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/UFF/AngleConstraint.cpp.o -MF CMakeFiles/ForceField.dir/UFF/AngleConstraint.cpp.o.d -o CMakeFiles/ForceField.dir/UFF/AngleConstraint.cpp.o -c /<>/Code/ForceField/UFF/AngleConstraint.cpp [ 39%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/PatternFingerprints.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/PatternFingerprints.cpp.o -MF CMakeFiles/Fingerprints.dir/PatternFingerprints.cpp.o.d -o CMakeFiles/Fingerprints.dir/PatternFingerprints.cpp.o -c /<>/Code/GraphMol/Fingerprints/PatternFingerprints.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/boost/graph/adjacency_list.hpp:16, from /<>/Code/Catalogs/Catalog.h:18, from /<>/Code/GraphMol/FilterCatalog/FilterCatalog.h:36, from /<>/Code/GraphMol/FilterCatalog/FilterCatalog.cpp:32: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::__cxx11::basic_string]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 40%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/TorsionConstraint.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/UFF/TorsionConstraint.cpp.o -MF CMakeFiles/ForceField.dir/UFF/TorsionConstraint.cpp.o.d -o CMakeFiles/ForceField.dir/UFF/TorsionConstraint.cpp.o -c /<>/Code/ForceField/UFF/TorsionConstraint.cpp [ 40%] Linking CXX executable smaTest1 cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/smaTest1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/smaTest1.dir/smatest.cpp.o -o smaTest1 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 40%] Built target smaTest1 make -f Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FragCatalog /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 40%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatalogUtils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFragCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatalogUtils.cpp.o -MF CMakeFiles/FragCatalog.dir/FragCatalogUtils.cpp.o.d -o CMakeFiles/FragCatalog.dir/FragCatalogUtils.cpp.o -c /<>/Code/GraphMol/FragCatalog/FragCatalogUtils.cpp [ 40%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/PositionConstraint.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/UFF/PositionConstraint.cpp.o -MF CMakeFiles/ForceField.dir/UFF/PositionConstraint.cpp.o.d -o CMakeFiles/ForceField.dir/UFF/PositionConstraint.cpp.o -c /<>/Code/ForceField/UFF/PositionConstraint.cpp [ 40%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterCatalogEntry.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterCatalogEntry.cpp.o -MF CMakeFiles/FilterCatalog.dir/FilterCatalogEntry.cpp.o.d -o CMakeFiles/FilterCatalog.dir/FilterCatalogEntry.cpp.o -c /<>/Code/GraphMol/FilterCatalog/FilterCatalogEntry.cpp [ 40%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/Params.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/UFF/Params.cpp.o -MF CMakeFiles/ForceField.dir/UFF/Params.cpp.o.d -o CMakeFiles/ForceField.dir/UFF/Params.cpp.o -c /<>/Code/ForceField/UFF/Params.cpp [ 40%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MorganFingerprints.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MorganFingerprints.cpp.o -MF CMakeFiles/Fingerprints.dir/MorganFingerprints.cpp.o.d -o CMakeFiles/Fingerprints.dir/MorganFingerprints.cpp.o -c /<>/Code/GraphMol/Fingerprints/MorganFingerprints.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/BadFileException.h:16, from /<>/Code/GraphMol/FragCatalog/FragCatalogUtils.cpp:13: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::__cxx11::basic_string]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 40%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/AngleBend.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/MMFF/AngleBend.cpp.o -MF CMakeFiles/ForceField.dir/MMFF/AngleBend.cpp.o.d -o CMakeFiles/ForceField.dir/MMFF/AngleBend.cpp.o -c /<>/Code/ForceField/MMFF/AngleBend.cpp [ 40%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatGenerator.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFragCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatGenerator.cpp.o -MF CMakeFiles/FragCatalog.dir/FragCatGenerator.cpp.o.d -o CMakeFiles/FragCatalog.dir/FragCatGenerator.cpp.o -c /<>/Code/GraphMol/FragCatalog/FragCatGenerator.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/RDGeneral/types.h:27, from /<>/Code/GraphMol/FilterCatalog/FilterCatalogEntry.h:37, from /<>/Code/GraphMol/FilterCatalog/Filters.h:36, from /<>/Code/GraphMol/FilterCatalog/FilterCatalogEntry.cpp:32: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 41%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/AtomPairs.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/AtomPairs.cpp.o -MF CMakeFiles/Fingerprints.dir/AtomPairs.cpp.o.d -o CMakeFiles/Fingerprints.dir/AtomPairs.cpp.o -c /<>/Code/GraphMol/Fingerprints/AtomPairs.cpp [ 41%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/BondStretch.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/MMFF/BondStretch.cpp.o -MF CMakeFiles/ForceField.dir/MMFF/BondStretch.cpp.o.d -o CMakeFiles/ForceField.dir/MMFF/BondStretch.cpp.o -c /<>/Code/ForceField/MMFF/BondStretch.cpp In file included from /usr/include/c++/13/set:62, from /usr/include/boost/graph/adjacency_list.hpp:18, from /<>/Code/Catalogs/Catalog.h:18, from /<>/Code/GraphMol/FragCatalog/FragCatGenerator.cpp:10: /usr/include/c++/13/bits/stl_tree.h: In function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = double; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = RDKit::ltDouble; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/stl_tree.h:2458:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, RDKit::ltDouble, std::allocator > >::const_iterator’ changed in GCC 7.1 2458 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 41%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterCatalogRunner.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterCatalogRunner.cpp.o -MF CMakeFiles/FilterCatalog.dir/FilterCatalogRunner.cpp.o.d -o CMakeFiles/FilterCatalog.dir/FilterCatalogRunner.cpp.o -c /<>/Code/GraphMol/FilterCatalog/FilterCatalogRunner.cpp In file included from /usr/include/c++/13/map:63, from /usr/include/boost/pending/container_traits.hpp:21, from /usr/include/boost/graph/named_graph.hpp:23, from /usr/include/boost/graph/adjacency_list.hpp:36: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = double; _Tp = int; _Compare = RDKit::ltDouble; _Alloc = std::allocator >]’, inlined from ‘unsigned int RDKit::addOrder1Paths(PATH_LIST&, const ROMol&, FragCatalog*, DOUBLE_INT_MAP&, const MatchVectType&)’ at /<>/Code/GraphMol/FragCatalog/FragCatGenerator.cpp:54:21: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, RDKit::ltDouble, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = double; _Tp = int; _Compare = RDKit::ltDouble; _Alloc = std::allocator >]’, inlined from ‘unsigned int RDKit::addOrder1Paths(PATH_LIST&, const ROMol&, FragCatalog*, DOUBLE_INT_MAP&, const MatchVectType&)’ at /<>/Code/GraphMol/FragCatalog/FragCatGenerator.cpp:71:19: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, RDKit::ltDouble, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /usr/include/boost/graph/adjacency_list.hpp:16: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ [ 41%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/StretchBend.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/MMFF/StretchBend.cpp.o -MF CMakeFiles/ForceField.dir/MMFF/StretchBend.cpp.o.d -o CMakeFiles/ForceField.dir/MMFF/StretchBend.cpp.o -c /<>/Code/ForceField/MMFF/StretchBend.cpp In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘unsigned int RDKit::addHigherOrderPaths(const INT_PATH_LIST_MAP&, const ROMol&, FragCatalog*, DOUBLE_INT_MAP&, const MatchVectType&)’ at /<>/Code/GraphMol/FragCatalog/FragCatGenerator.cpp:159:26: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = double; _Tp = int; _Compare = RDKit::ltDouble; _Alloc = std::allocator >]’, inlined from ‘unsigned int RDKit::addHigherOrderPaths(const INT_PATH_LIST_MAP&, const ROMol&, FragCatalog*, DOUBLE_INT_MAP&, const MatchVectType&)’ at /<>/Code/GraphMol/FragCatalog/FragCatGenerator.cpp:161:30: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, RDKit::ltDouble, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = double; _Tp = int; _Compare = RDKit::ltDouble; _Alloc = std::allocator >]’, inlined from ‘unsigned int RDKit::addHigherOrderPaths(const INT_PATH_LIST_MAP&, const ROMol&, FragCatalog*, DOUBLE_INT_MAP&, const MatchVectType&)’ at /<>/Code/GraphMol/FragCatalog/FragCatGenerator.cpp:190:19: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, RDKit::ltDouble, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = double; _Tp = int; _Compare = RDKit::ltDouble; _Alloc = std::allocator >]’, inlined from ‘unsigned int RDKit::addHigherOrderPaths(const INT_PATH_LIST_MAP&, const ROMol&, FragCatalog*, DOUBLE_INT_MAP&, const MatchVectType&)’ at /<>/Code/GraphMol/FragCatalog/FragCatGenerator.cpp:203:19: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, RDKit::ltDouble, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = double; _Tp = int; _Compare = RDKit::ltDouble; _Alloc = std::allocator >]’, inlined from ‘unsigned int RDKit::addHigherOrderPaths(const INT_PATH_LIST_MAP&, const ROMol&, FragCatalog*, DOUBLE_INT_MAP&, const MatchVectType&)’ at /<>/Code/GraphMol/FragCatalog/FragCatGenerator.cpp:208:30: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, RDKit::ltDouble, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ [ 41%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatalogEntry.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFragCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatalogEntry.cpp.o -MF CMakeFiles/FragCatalog.dir/FragCatalogEntry.cpp.o.d -o CMakeFiles/FragCatalog.dir/FragCatalogEntry.cpp.o -c /<>/Code/GraphMol/FragCatalog/FragCatalogEntry.cpp /<>/Code/ForceField/MMFF/StretchBend.cpp: In function ‘std::pair ForceFields::MMFF::Utils::calcStbnForceConstants(const ForceFields::MMFF::MMFFStbn*)’: /<>/Code/ForceField/MMFF/StretchBend.cpp:27:35: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 27 | const MMFFStbn *mmffStbnParams) { | ^ [ 41%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MACCS.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MACCS.cpp.o -MF CMakeFiles/Fingerprints.dir/MACCS.cpp.o.d -o CMakeFiles/Fingerprints.dir/MACCS.cpp.o -c /<>/Code/GraphMol/Fingerprints/MACCS.cpp [ 41%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/OopBend.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/MMFF/OopBend.cpp.o -MF CMakeFiles/ForceField.dir/MMFF/OopBend.cpp.o.d -o CMakeFiles/ForceField.dir/MMFF/OopBend.cpp.o -c /<>/Code/ForceField/MMFF/OopBend.cpp [ 41%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/TorsionAngle.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/MMFF/TorsionAngle.cpp.o -MF CMakeFiles/ForceField.dir/MMFF/TorsionAngle.cpp.o.d -o CMakeFiles/ForceField.dir/MMFF/TorsionAngle.cpp.o -c /<>/Code/ForceField/MMFF/TorsionAngle.cpp [ 41%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterMatchers.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterMatchers.cpp.o -MF CMakeFiles/FilterCatalog.dir/FilterMatchers.cpp.o.d -o CMakeFiles/FilterCatalog.dir/FilterMatchers.cpp.o -c /<>/Code/GraphMol/FilterCatalog/FilterMatchers.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/GraphMol/FragCatalog/FragCatParams.h:16, from /<>/Code/GraphMol/FragCatalog/FragCatalogEntry.h:14, from /<>/Code/GraphMol/FragCatalog/FragCatalogEntry.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 41%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatParams.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFragCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatParams.cpp.o -MF CMakeFiles/FragCatalog.dir/FragCatParams.cpp.o.d -o CMakeFiles/FragCatalog.dir/FragCatParams.cpp.o -c /<>/Code/GraphMol/FragCatalog/FragCatParams.cpp [ 41%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/Nonbonded.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/MMFF/Nonbonded.cpp.o -MF CMakeFiles/ForceField.dir/MMFF/Nonbonded.cpp.o.d -o CMakeFiles/ForceField.dir/MMFF/Nonbonded.cpp.o -c /<>/Code/ForceField/MMFF/Nonbonded.cpp [ 41%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MHFP.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MHFP.cpp.o -MF CMakeFiles/Fingerprints.dir/MHFP.cpp.o.d -o CMakeFiles/Fingerprints.dir/MHFP.cpp.o -c /<>/Code/GraphMol/Fingerprints/MHFP.cpp [ 41%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FunctionalGroupHierarchy.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FunctionalGroupHierarchy.cpp.o -MF CMakeFiles/FilterCatalog.dir/FunctionalGroupHierarchy.cpp.o.d -o CMakeFiles/FilterCatalog.dir/FunctionalGroupHierarchy.cpp.o -c /<>/Code/GraphMol/FilterCatalog/FunctionalGroupHierarchy.cpp [ 42%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/DistanceConstraint.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/MMFF/DistanceConstraint.cpp.o -MF CMakeFiles/ForceField.dir/MMFF/DistanceConstraint.cpp.o.d -o CMakeFiles/ForceField.dir/MMFF/DistanceConstraint.cpp.o -c /<>/Code/ForceField/MMFF/DistanceConstraint.cpp [ 42%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragFPGenerator.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFragCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragFPGenerator.cpp.o -MF CMakeFiles/FragCatalog.dir/FragFPGenerator.cpp.o.d -o CMakeFiles/FragCatalog.dir/FragFPGenerator.cpp.o -c /<>/Code/GraphMol/FragCatalog/FragFPGenerator.cpp [ 42%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/FingerprintGenerator.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/FingerprintGenerator.cpp.o -MF CMakeFiles/Fingerprints.dir/FingerprintGenerator.cpp.o.d -o CMakeFiles/Fingerprints.dir/FingerprintGenerator.cpp.o -c /<>/Code/GraphMol/Fingerprints/FingerprintGenerator.cpp [ 42%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/AngleConstraint.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/MMFF/AngleConstraint.cpp.o -MF CMakeFiles/ForceField.dir/MMFF/AngleConstraint.cpp.o.d -o CMakeFiles/ForceField.dir/MMFF/AngleConstraint.cpp.o -c /<>/Code/ForceField/MMFF/AngleConstraint.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/boost/graph/adjacency_list.hpp:16, from /<>/Code/Catalogs/Catalog.h:18, from /<>/Code/GraphMol/FilterCatalog/FilterCatalog.h:36, from /<>/Code/GraphMol/FilterCatalog/FunctionalGroupHierarchy.h:36, from /<>/Code/GraphMol/FilterCatalog/FunctionalGroupHierarchy.cpp:33: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::__cxx11::basic_string]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/set:62, from /usr/include/boost/graph/adjacency_list.hpp:18, from /<>/Code/Catalogs/Catalog.h:18, from /<>/Code/GraphMol/FragCatalog/FragFPGenerator.cpp:10: /usr/include/c++/13/bits/stl_tree.h: In function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = double; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = RDKit::ltDouble; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/stl_tree.h:2458:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, RDKit::ltDouble, std::allocator > >::const_iterator’ changed in GCC 7.1 2458 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 42%] Linking CXX shared library ../../../lib/libRDKitFilterCatalog.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/FilterCatalog.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitFilterCatalog.so.1 -o ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 CMakeFiles/FilterCatalog.dir/Filters.cpp.o CMakeFiles/FilterCatalog.dir/FilterCatalog.cpp.o CMakeFiles/FilterCatalog.dir/FilterCatalogEntry.cpp.o CMakeFiles/FilterCatalog.dir/FilterCatalogRunner.cpp.o CMakeFiles/FilterCatalog.dir/FilterMatchers.cpp.o CMakeFiles/FilterCatalog.dir/FunctionalGroupHierarchy.cpp.o ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl In file included from /usr/include/c++/13/map:63, from /usr/include/boost/pending/container_traits.hpp:21, from /usr/include/boost/graph/named_graph.hpp:23, from /usr/include/boost/graph/adjacency_list.hpp:36: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = double; _Tp = int; _Compare = RDKit::ltDouble; _Alloc = std::allocator >]’, inlined from ‘void RDKit::FragFPGenerator::computeFP(const RDKit::ROMol&, const RDKit::FragCatalog&, const RDKit::MatchVectType&, ExplicitBitVect*)’ at /<>/Code/GraphMol/FragCatalog/FragFPGenerator.cpp:75:17: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, RDKit::ltDouble, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = double; _Tp = int; _Compare = RDKit::ltDouble; _Alloc = std::allocator >]’, inlined from ‘void RDKit::FragFPGenerator::computeFP(const RDKit::ROMol&, const RDKit::FragCatalog&, const RDKit::MatchVectType&, ExplicitBitVect*)’ at /<>/Code/GraphMol/FragCatalog/FragFPGenerator.cpp:83:21: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, RDKit::ltDouble, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = double; _Tp = int; _Compare = RDKit::ltDouble; _Alloc = std::allocator >]’, inlined from ‘void RDKit::FragFPGenerator::computeFP(const RDKit::ROMol&, const RDKit::FragCatalog&, const RDKit::MatchVectType&, ExplicitBitVect*)’ at /<>/Code/GraphMol/FragCatalog/FragFPGenerator.cpp:114:17: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, RDKit::ltDouble, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = double; _Tp = int; _Compare = RDKit::ltDouble; _Alloc = std::allocator >]’, inlined from ‘void RDKit::FragFPGenerator::computeFP(const RDKit::ROMol&, const RDKit::FragCatalog&, const RDKit::MatchVectType&, ExplicitBitVect*)’ at /<>/Code/GraphMol/FragCatalog/FragFPGenerator.cpp:141:26: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, RDKit::ltDouble, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = double; _Tp = int; _Compare = RDKit::ltDouble; _Alloc = std::allocator >]’, inlined from ‘void RDKit::FragFPGenerator::computeFP(const RDKit::ROMol&, const RDKit::FragCatalog&, const RDKit::MatchVectType&, ExplicitBitVect*)’ at /<>/Code/GraphMol/FragCatalog/FragFPGenerator.cpp:151:30: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, RDKit::ltDouble, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = double; _Tp = int; _Compare = RDKit::ltDouble; _Alloc = std::allocator >]’, inlined from ‘void RDKit::FragFPGenerator::computeFP(const RDKit::ROMol&, const RDKit::FragCatalog&, const RDKit::MatchVectType&, ExplicitBitVect*)’ at /<>/Code/GraphMol/FragCatalog/FragFPGenerator.cpp:167:21: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, RDKit::ltDouble, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1 ../../../lib/libRDKitFilterCatalog.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 42%] Built target FilterCatalog make -f Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolChemicalFeatures/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 42%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/rdMolChemicalFeatures.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolChemicalFeatures_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/rdMolChemicalFeatures.cpp.o -MF CMakeFiles/rdMolChemicalFeatures.dir/rdMolChemicalFeatures.cpp.o.d -o CMakeFiles/rdMolChemicalFeatures.dir/rdMolChemicalFeatures.cpp.o -c /<>/Code/GraphMol/MolChemicalFeatures/Wrap/rdMolChemicalFeatures.cpp [ 42%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/TorsionConstraint.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/MMFF/TorsionConstraint.cpp.o -MF CMakeFiles/ForceField.dir/MMFF/TorsionConstraint.cpp.o.d -o CMakeFiles/ForceField.dir/MMFF/TorsionConstraint.cpp.o -c /<>/Code/ForceField/MMFF/TorsionConstraint.cpp [ 43%] Linking CXX shared library ../../../lib/libRDKitFragCatalog.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/FragCatalog.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitFragCatalog.so.1 -o ../../../lib/libRDKitFragCatalog.so.1.2023.09.3 CMakeFiles/FragCatalog.dir/FragCatalogUtils.cpp.o CMakeFiles/FragCatalog.dir/FragCatGenerator.cpp.o CMakeFiles/FragCatalog.dir/FragCatalogEntry.cpp.o CMakeFiles/FragCatalog.dir/FragCatParams.cpp.o CMakeFiles/FragCatalog.dir/FragFPGenerator.cpp.o ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFragCatalog.so.1.2023.09.3 ../../../lib/libRDKitFragCatalog.so.1 ../../../lib/libRDKitFragCatalog.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 43%] Built target FragCatalog [ 43%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeature.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolChemicalFeatures_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeature.cpp.o -MF CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeature.cpp.o.d -o CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeature.cpp.o -c /<>/Code/GraphMol/MolChemicalFeatures/Wrap/MolChemicalFeature.cpp In file included from /usr/include/c++/13/map:62, from /<>/Code/DataStructs/SparseIntVect.h:15, from /<>/Code/GraphMol/Fingerprints/FingerprintGenerator.cpp:11: /usr/include/c++/13/bits/stl_tree.h: In function ‘std::pair std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_get_insert_hint_unique_pos(const_iterator, const key_type&) [with _Key = long long unsigned int; _Val = std::pair > >; _KeyOfValue = std::_Select1st > > >; _Compare = std::less; _Alloc = std::allocator > > >]’: /usr/include/c++/13/bits/stl_tree.h:2210:5: note: parameter passing for argument of type ‘std::_Rb_tree > >, std::_Select1st > > >, std::less, std::allocator > > > >::const_iterator’ changed in GCC 7.1 2210 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_tree.h: In function ‘std::pair std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_get_insert_hint_unique_pos(const_iterator, const key_type&) [with _Key = long long unsigned int; _Val = std::pair > >; _KeyOfValue = std::_Select1st > > >; _Compare = std::less; _Alloc = std::allocator > > >]’: /usr/include/c++/13/bits/stl_tree.h:2210:5: note: parameter passing for argument of type ‘std::_Rb_tree > >, std::_Select1st > > >, std::less, std::allocator > > > >::const_iterator’ changed in GCC 7.1 [ 43%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/PositionConstraint.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/MMFF/PositionConstraint.cpp.o -MF CMakeFiles/ForceField.dir/MMFF/PositionConstraint.cpp.o.d -o CMakeFiles/ForceField.dir/MMFF/PositionConstraint.cpp.o -c /<>/Code/ForceField/MMFF/PositionConstraint.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/DataStructs/SparseIntVect.h:17: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const long long unsigned int&}; _Tp = long long unsigned int; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘void RDKit::{anonymous}::duplicateAdditionalOutputBit(RDKit::AdditionalOutput&, RDKit::AdditionalOutput&, OutputType, OutputType) [with OutputType = long long unsigned int]’ at /<>/Code/GraphMol/Fingerprints/FingerprintGenerator.cpp:273:42: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {long long unsigned int}; _Tp = long long unsigned int; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {long long unsigned int}; _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = long long unsigned int; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::{anonymous}::duplicateAdditionalOutputBit(RDKit::AdditionalOutput&, RDKit::AdditionalOutput&, OutputType, OutputType) [with OutputType = unsigned int]’ at /<>/Code/GraphMol/Fingerprints/FingerprintGenerator.cpp:273:42: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 43%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/Params.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/MMFF/Params.cpp.o -MF CMakeFiles/ForceField.dir/MMFF/Params.cpp.o.d -o CMakeFiles/ForceField.dir/MMFF/Params.cpp.o -c /<>/Code/ForceField/MMFF/Params.cpp [ 43%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolChemicalFeatures_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o -MF CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o.d -o CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o -c /<>/Code/GraphMol/MolChemicalFeatures/Wrap/MolChemicalFeatureFactory.cpp [ 43%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/AtomPairGenerator.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/AtomPairGenerator.cpp.o -MF CMakeFiles/Fingerprints.dir/AtomPairGenerator.cpp.o.d -o CMakeFiles/Fingerprints.dir/AtomPairGenerator.cpp.o -c /<>/Code/GraphMol/Fingerprints/AtomPairGenerator.cpp [ 43%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/ChemicalFeatureUtils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolChemicalFeatures_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/ChemicalFeatureUtils.cpp.o -MF CMakeFiles/rdMolChemicalFeatures.dir/ChemicalFeatureUtils.cpp.o.d -o CMakeFiles/rdMolChemicalFeatures.dir/ChemicalFeatureUtils.cpp.o -c /<>/Code/GraphMol/MolChemicalFeatures/Wrap/ChemicalFeatureUtils.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/ForceField/MMFF/Params.h:17, from /<>/Code/ForceField/MMFF/Params.cpp:17: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const ForceFields::MMFF::MMFFPBCI&}; _Tp = ForceFields::MMFF::MMFFPBCI; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const ForceFields::MMFF::MMFFChg&}; _Tp = ForceFields::MMFF::MMFFChg; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const ForceFields::MMFF::MMFFBond&}; _Tp = ForceFields::MMFF::MMFFBond; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const ForceFields::MMFF::MMFFHerschbachLaurie&}; _Tp = ForceFields::MMFF::MMFFHerschbachLaurie; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const ForceFields::MMFF::MMFFCovRadPauEle&}; _Tp = ForceFields::MMFF::MMFFCovRadPauEle; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const ForceFields::MMFF::MMFFAngle&}; _Tp = ForceFields::MMFF::MMFFAngle; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const ForceFields::MMFF::MMFFStbn&}; _Tp = ForceFields::MMFF::MMFFStbn; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const ForceFields::MMFF::MMFFOop&}; _Tp = ForceFields::MMFF::MMFFOop; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const ForceFields::MMFF::MMFFTor&}; _Tp = ForceFields::MMFF::MMFFTor; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const ForceFields::MMFF::MMFFVdW&}; _Tp = ForceFields::MMFF::MMFFVdW; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = ForceFields::MMFF::MMFFVdW; _Alloc = std::allocator]’, inlined from ‘ForceFields::MMFF::MMFFVdWCollection::MMFFVdWCollection(std::string)’ at /<>/Code/ForceField/MMFF/Params.cpp:8295:27: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = ForceFields::MMFF::MMFFOop; _Alloc = std::allocator]’, inlined from ‘ForceFields::MMFF::MMFFOopCollection::MMFFOopCollection(bool, std::string)’ at /<>/Code/ForceField/MMFF/Params.cpp:4984:25: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = ForceFields::MMFF::MMFFChg; _Alloc = std::allocator]’, inlined from ‘ForceFields::MMFF::MMFFChgCollection::MMFFChgCollection(std::string)’ at /<>/Code/ForceField/MMFF/Params.cpp:772:25: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = ForceFields::MMFF::MMFFBond; _Alloc = std::allocator]’, inlined from ‘ForceFields::MMFF::MMFFBondCollection::MMFFBondCollection(std::string)’ at /<>/Code/ForceField/MMFF/Params.cpp:1334:25: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = ForceFields::MMFF::MMFFBond; _Alloc = std::allocator]’, inlined from ‘ForceFields::MMFF::MMFFBndkCollection::MMFFBndkCollection(std::string)’ at /<>/Code/ForceField/MMFF/Params.cpp:1885:25: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = ForceFields::MMFF::MMFFHerschbachLaurie; _Alloc = std::allocator]’, inlined from ‘ForceFields::MMFF::MMFFHerschbachLaurieCollection::MMFFHerschbachLaurieCollection(std::string)’ at /<>/Code/ForceField/MMFF/Params.cpp:1999:25: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = ForceFields::MMFF::MMFFStbn; _Alloc = std::allocator]’, inlined from ‘ForceFields::MMFF::MMFFStbnCollection::MMFFStbnCollection(std::string)’ at /<>/Code/ForceField/MMFF/Params.cpp:4565:25: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = ForceFields::MMFF::MMFFAngle; _Alloc = std::allocator]’, inlined from ‘ForceFields::MMFF::MMFFAngleCollection::MMFFAngleCollection(std::string)’ at /<>/Code/ForceField/MMFF/Params.cpp:2149:25: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from /usr/include/c++/13/set:62, from /<>/Code/Query/SetQuery.h:13, from /<>/Code/Query/QueryObjects.h:29, from /<>/Code/GraphMol/Atom.h:24, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/Fingerprints/AtomPairGenerator.cpp:11: /usr/include/c++/13/bits/stl_tree.h: In function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = long long unsigned int; _Val = std::pair > >; _KeyOfValue = std::_Select1st > > >; _Compare = std::less; _Alloc = std::allocator > > >]’: /usr/include/c++/13/bits/stl_tree.h:2458:7: note: parameter passing for argument of type ‘std::_Rb_tree > >, std::_Select1st > > >, std::less, std::allocator > > > >::const_iterator’ changed in GCC 7.1 2458 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = ForceFields::MMFF::MMFFCovRadPauEle; _Alloc = std::allocator]’, inlined from ‘ForceFields::MMFF::MMFFCovRadPauEleCollection::MMFFCovRadPauEleCollection(std::string)’ at /<>/Code/ForceField/MMFF/Params.cpp:2066:25: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = ForceFields::MMFF::MMFFTor; _Alloc = std::allocator]’, inlined from ‘ForceFields::MMFF::MMFFTorCollection::MMFFTorCollection(bool, std::string)’ at /<>/Code/ForceField/MMFF/Params.cpp:5308:25: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = ForceFields::MMFF::MMFFPBCI; _Alloc = std::allocator]’, inlined from ‘ForceFields::MMFF::MMFFPBCICollection::MMFFPBCICollection(std::string)’ at /<>/Code/ForceField/MMFF/Params.cpp:616:25: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {long long unsigned int}; _Tp = long long unsigned int; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/map:63, from /<>/Code/RDGeneral/Dict.h:19, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/GraphMol/Atom.h:25: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = long long unsigned int; _Tp = std::vector >; _Compare = std::less; _Alloc = std::allocator > > >]’, inlined from ‘void RDKit::AtomPair::AtomPairAtomEnv::updateAdditionalOutput(RDKit::AdditionalOutput*, size_t) const [with OutputType = long long unsigned int]’ at /<>/Code/GraphMol/Fingerprints/AtomPairGenerator.cpp:82:56: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree > >, std::_Select1st > > >, std::less, std::allocator > > > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {long long unsigned int}; _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = long long unsigned int; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::AtomPair::AtomPairAtomEnv::updateAdditionalOutput(RDKit::AdditionalOutput*, size_t) const [with OutputType = long long unsigned int]’ at /<>/Code/GraphMol/Fingerprints/AtomPairGenerator.cpp:86:62: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {long long unsigned int}; _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = long long unsigned int; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::AtomPair::AtomPairAtomEnv::updateAdditionalOutput(RDKit::AdditionalOutput*, size_t) const [with OutputType = long long unsigned int]’ at /<>/Code/GraphMol/Fingerprints/AtomPairGenerator.cpp:87:63: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = long long unsigned int; _Tp = std::vector >; _Compare = std::less; _Alloc = std::allocator > > >]’, inlined from ‘void RDKit::AtomPair::AtomPairAtomEnv::updateAdditionalOutput(RDKit::AdditionalOutput*, size_t) const [with OutputType = unsigned int]’ at /<>/Code/GraphMol/Fingerprints/AtomPairGenerator.cpp:82:56: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree > >, std::_Select1st > > >, std::less, std::allocator > > > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {long long unsigned int}; _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = long long unsigned int; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::AtomPair::AtomPairAtomEnv::updateAdditionalOutput(RDKit::AdditionalOutput*, size_t) const [with OutputType = unsigned int]’ at /<>/Code/GraphMol/Fingerprints/AtomPairGenerator.cpp:86:62: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {long long unsigned int}; _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = long long unsigned int; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::AtomPair::AtomPairAtomEnv::updateAdditionalOutput(RDKit::AdditionalOutput*, size_t) const [with OutputType = unsigned int]’ at /<>/Code/GraphMol/Fingerprints/AtomPairGenerator.cpp:87:63: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 43%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MorganGenerator.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MorganGenerator.cpp.o -MF CMakeFiles/Fingerprints.dir/MorganGenerator.cpp.o.d -o CMakeFiles/Fingerprints.dir/MorganGenerator.cpp.o -c /<>/Code/GraphMol/Fingerprints/MorganGenerator.cpp [ 43%] Linking CXX shared library ../../lib/libRDKitForceField.so cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/cmake -E cmake_link_script CMakeFiles/ForceField.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitForceField.so.1 -o ../../lib/libRDKitForceField.so.1.2023.09.3 CMakeFiles/ForceField.dir/ForceField.cpp.o CMakeFiles/ForceField.dir/UFF/AngleBend.cpp.o CMakeFiles/ForceField.dir/UFF/BondStretch.cpp.o CMakeFiles/ForceField.dir/UFF/Nonbonded.cpp.o CMakeFiles/ForceField.dir/UFF/Inversion.cpp.o CMakeFiles/ForceField.dir/UFF/TorsionAngle.cpp.o CMakeFiles/ForceField.dir/UFF/DistanceConstraint.cpp.o CMakeFiles/ForceField.dir/UFF/AngleConstraint.cpp.o CMakeFiles/ForceField.dir/UFF/TorsionConstraint.cpp.o CMakeFiles/ForceField.dir/UFF/PositionConstraint.cpp.o CMakeFiles/ForceField.dir/UFF/Params.cpp.o CMakeFiles/ForceField.dir/MMFF/AngleBend.cpp.o CMakeFiles/ForceField.dir/MMFF/BondStretch.cpp.o CMakeFiles/ForceField.dir/MMFF/StretchBend.cpp.o CMakeFiles/ForceField.dir/MMFF/OopBend.cpp.o CMakeFiles/ForceField.dir/MMFF/TorsionAngle.cpp.o CMakeFiles/ForceField.dir/MMFF/Nonbonded.cpp.o CMakeFiles/ForceField.dir/MMFF/DistanceConstraint.cpp.o CMakeFiles/ForceField.dir/MMFF/AngleConstraint.cpp.o CMakeFiles/ForceField.dir/MMFF/TorsionConstraint.cpp.o CMakeFiles/ForceField.dir/MMFF/PositionConstraint.cpp.o CMakeFiles/ForceField.dir/MMFF/Params.cpp.o ../../lib/libRDKitOptimizer.so.1.2023.09.3 ../../lib/libRDKitTrajectory.so.1.2023.09.3 ../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitForceField.so.1.2023.09.3 ../../lib/libRDKitForceField.so.1 ../../lib/libRDKitForceField.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 43%] Built target ForceField make -f Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ReducedGraphs /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ReducedGraphs /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 43%] Building CXX object Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/test1.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ReducedGraphs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/test1.cpp.o -MF CMakeFiles/testReducedGraphs.dir/test1.cpp.o.d -o CMakeFiles/testReducedGraphs.dir/test1.cpp.o -c /<>/Code/GraphMol/ReducedGraphs/test1.cpp /<>/Code/GraphMol/MolChemicalFeatures/Wrap/ChemicalFeatureUtils.cpp: In function ‘boost::python::api::object RDKit::GetAtomMatch(boost::python::api::object, int)’: /<>/Code/GraphMol/MolChemicalFeatures/Wrap/ChemicalFeatureUtils.cpp:45:19: warning: redundant move in return statement [-Wredundant-move] 45 | return std::move(res); | ~~~~~~~~~^~~~~ /<>/Code/GraphMol/MolChemicalFeatures/Wrap/ChemicalFeatureUtils.cpp:45:19: note: remove ‘std::move’ call make -f Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ReducedGraphs/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ReducedGraphs/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 43%] Building CXX object Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/rdReducedGraphs.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ReducedGraphs/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdReducedGraphs_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/rdReducedGraphs.cpp.o -MF CMakeFiles/rdReducedGraphs.dir/rdReducedGraphs.cpp.o.d -o CMakeFiles/rdReducedGraphs.dir/rdReducedGraphs.cpp.o -c /<>/Code/GraphMol/ReducedGraphs/Wrap/rdReducedGraphs.cpp [ 43%] Linking CXX shared module ../../../../rdkit/Chem/rdMolChemicalFeatures.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolChemicalFeatures.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolChemicalFeatures.so CMakeFiles/rdMolChemicalFeatures.dir/rdMolChemicalFeatures.cpp.o CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeature.cpp.o CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o CMakeFiles/rdMolChemicalFeatures.dir/ChemicalFeatureUtils.cpp.o ../../../../lib/libRDKitMolChemicalFeatures.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 43%] Built target rdMolChemicalFeatures make -f Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/build.make Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Abbreviations/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Abbreviations/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/build.make Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 43%] Building CXX object Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/rdAbbreviations.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Abbreviations/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdAbbreviations_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/rdAbbreviations.cpp.o -MF CMakeFiles/rdAbbreviations.dir/rdAbbreviations.cpp.o.d -o CMakeFiles/rdAbbreviations.dir/rdAbbreviations.cpp.o -c /<>/Code/GraphMol/Abbreviations/Wrap/rdAbbreviations.cpp In file included from /usr/include/c++/13/set:62, from /<>/Code/Query/SetQuery.h:13, from /<>/Code/Query/QueryObjects.h:29, from /<>/Code/GraphMol/Atom.h:24, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/Fingerprints/MorganGenerator.cpp:11: /usr/include/c++/13/bits/stl_tree.h: In function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = long long unsigned int; _Val = std::pair > >; _KeyOfValue = std::_Select1st > > >; _Compare = std::less; _Alloc = std::allocator > > >]’: /usr/include/c++/13/bits/stl_tree.h:2458:7: note: parameter passing for argument of type ‘std::_Rb_tree > >, std::_Select1st > > >, std::less, std::allocator > > > >::const_iterator’ changed in GCC 7.1 2458 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 43%] Linking CXX executable testReducedGraphs cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ReducedGraphs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testReducedGraphs.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testReducedGraphs.dir/test1.cpp.o -o testReducedGraphs ../../../lib/libRDKitReducedGraphs.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 43%] Built target testReducedGraphs make -f Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Depictor /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 43%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/RDDepictor.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDepictor_EXPORTS -DIN_COORDGEN -DRDKIT_DEPICTOR_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/RDDepictor.cpp.o -MF CMakeFiles/Depictor.dir/RDDepictor.cpp.o.d -o CMakeFiles/Depictor.dir/RDDepictor.cpp.o -c /<>/Code/GraphMol/Depictor/RDDepictor.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {long long unsigned int}; _Tp = long long unsigned int; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/map:63, from /<>/Code/RDGeneral/Dict.h:19, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/GraphMol/Atom.h:25: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = long long unsigned int; _Tp = std::vector >; _Compare = std::less; _Alloc = std::allocator > > >]’, inlined from ‘void RDKit::MorganFingerprint::MorganAtomEnv::updateAdditionalOutput(RDKit::AdditionalOutput*, size_t) const [with OutputType = long long unsigned int]’ at /<>/Code/GraphMol/Fingerprints/MorganGenerator.cpp:127:56: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree > >, std::_Select1st > > >, std::less, std::allocator > > > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {long long unsigned int}; _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = long long unsigned int; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::MorganFingerprint::MorganAtomEnv::updateAdditionalOutput(RDKit::AdditionalOutput*, size_t) const [with OutputType = long long unsigned int]’ at /<>/Code/GraphMol/Fingerprints/MorganGenerator.cpp:133:56: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = long long unsigned int; _Tp = std::vector >; _Compare = std::less; _Alloc = std::allocator > > >]’, inlined from ‘void RDKit::MorganFingerprint::MorganAtomEnv::updateAdditionalOutput(RDKit::AdditionalOutput*, size_t) const [with OutputType = unsigned int]’ at /<>/Code/GraphMol/Fingerprints/MorganGenerator.cpp:127:56: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree > >, std::_Select1st > > >, std::less, std::allocator > > > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {long long unsigned int}; _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = long long unsigned int; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::MorganFingerprint::MorganAtomEnv::updateAdditionalOutput(RDKit::AdditionalOutput*, size_t) const [with OutputType = unsigned int]’ at /<>/Code/GraphMol/Fingerprints/MorganGenerator.cpp:133:56: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 43%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/RDKitFPGenerator.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/RDKitFPGenerator.cpp.o -MF CMakeFiles/Fingerprints.dir/RDKitFPGenerator.cpp.o.d -o CMakeFiles/Fingerprints.dir/RDKitFPGenerator.cpp.o -c /<>/Code/GraphMol/Fingerprints/RDKitFPGenerator.cpp [ 44%] Linking CXX shared module ../../../../rdkit/Chem/rdReducedGraphs.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ReducedGraphs/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdReducedGraphs.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdReducedGraphs.so CMakeFiles/rdReducedGraphs.dir/rdReducedGraphs.cpp.o ../../../../lib/libRDKitReducedGraphs.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 44%] Built target rdReducedGraphs [ 44%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/EmbeddedFrag.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDepictor_EXPORTS -DIN_COORDGEN -DRDKIT_DEPICTOR_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/EmbeddedFrag.cpp.o -MF CMakeFiles/Depictor.dir/EmbeddedFrag.cpp.o.d -o CMakeFiles/Depictor.dir/EmbeddedFrag.cpp.o -c /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp In file included from /usr/include/c++/13/bits/stl_tree.h:63, from /usr/include/c++/13/map:62, from /<>/Code/DataStructs/SparseIntVect.h:15, from /<>/Code/GraphMol/Fingerprints/FingerprintGenerator.h:15, from /<>/Code/GraphMol/Fingerprints/RDKitFPGenerator.h:15, from /<>/Code/GraphMol/Fingerprints/RDKitFPGenerator.cpp:11: /usr/include/c++/13/bits/stl_algobase.h: In function ‘_RandomAccessIterator std::__find_if(_RandomAccessIterator, _RandomAccessIterator, _Predicate, random_access_iterator_tag) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Predicate = __gnu_cxx::__ops::_Iter_equals_val]’: /usr/include/c++/13/bits/stl_algobase.h:2064:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2064 | __find_if(_RandomAccessIterator __first, _RandomAccessIterator __last, | ^~~~~~~~~ /usr/include/c++/13/bits/stl_algobase.h:2064:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_tree.h: In function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = long long unsigned int; _Val = std::pair > >; _KeyOfValue = std::_Select1st > > >; _Compare = std::less; _Alloc = std::allocator > > >]’: /usr/include/c++/13/bits/stl_tree.h:2458:7: note: parameter passing for argument of type ‘std::_Rb_tree > >, std::_Select1st > > >, std::less, std::allocator > > > >::const_iterator’ changed in GCC 7.1 2458 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/GraphMol/Substruct/SubstructMatch.h:15, from /<>/Code/GraphMol/Depictor/RDDepictor.h:15, from /<>/Code/GraphMol/Depictor/RDDepictor.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘unsigned int RDDepict::copyCoordinate(RDKit::ROMol&, std::__cxx11::list&, bool)’ at /<>/Code/GraphMol/Depictor/RDDepictor.cpp:509:23: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘unsigned int RDKit::CoordGen::addCoords(T&, const CoordGenParams*) [with T = RDKit::ROMol]’ at /<>/External/CoordGen/CoordGen.h:178:21: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/DataStructs/SparseIntVect.h:17: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {long long unsigned int}; _Tp = long long unsigned int; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/map:63: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = long long unsigned int; _Tp = std::vector >; _Compare = std::less; _Alloc = std::allocator > > >]’, inlined from ‘void RDKit::RDKitFP::RDKitFPAtomEnv::updateAdditionalOutput(RDKit::AdditionalOutput*, size_t) const [with OutputType = long long unsigned int]’ at /<>/Code/GraphMol/Fingerprints/RDKitFPGenerator.cpp:95:51: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree > >, std::_Select1st > > >, std::less, std::allocator > > > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In function ‘_Iterator std::__find_if(_Iterator, _Iterator, _Predicate) [with _Iterator = __gnu_cxx::__normal_iterator >; _Predicate = __gnu_cxx::__ops::_Iter_equals_val]’, inlined from ‘_IIter std::find(_IIter, _IIter, const _Tp&) [with _IIter = __gnu_cxx::__normal_iterator >; _Tp = unsigned int]’ at /usr/include/c++/13/bits/stl_algo.h:3897:28, inlined from ‘void RDKit::RDKitFP::RDKitFPAtomEnv::updateAdditionalOutput(RDKit::AdditionalOutput*, size_t) const [with OutputType = long long unsigned int]’ at /<>/Code/GraphMol/Fingerprints/RDKitFPGenerator.cpp:102:24: /usr/include/c++/13/bits/stl_algobase.h:2117:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2117 | return __find_if(__first, __last, __pred, | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 2118 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {long long unsigned int}; _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = long long unsigned int; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::RDKitFP::RDKitFPAtomEnv::updateAdditionalOutput(RDKit::AdditionalOutput*, size_t) const [with OutputType = long long unsigned int]’ at /<>/Code/GraphMol/Fingerprints/RDKitFPGenerator.cpp:103:28: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/map:62, from /<>/Code/RDGeneral/Dict.h:19, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:10: /usr/include/c++/13/bits/stl_tree.h: In function ‘std::pair std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_get_insert_hint_unique_pos(const_iterator, const key_type&) [with _Key = unsigned int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/stl_tree.h:2210:5: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 2210 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = long long unsigned int; _Tp = std::vector >; _Compare = std::less; _Alloc = std::allocator > > >]’, inlined from ‘void RDKit::RDKitFP::RDKitFPAtomEnv::updateAdditionalOutput(RDKit::AdditionalOutput*, size_t) const [with OutputType = unsigned int]’ at /<>/Code/GraphMol/Fingerprints/RDKitFPGenerator.cpp:95:51: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree > >, std::_Select1st > > >, std::less, std::allocator > > > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In function ‘_Iterator std::__find_if(_Iterator, _Iterator, _Predicate) [with _Iterator = __gnu_cxx::__normal_iterator >; _Predicate = __gnu_cxx::__ops::_Iter_equals_val]’, inlined from ‘_IIter std::find(_IIter, _IIter, const _Tp&) [with _IIter = __gnu_cxx::__normal_iterator >; _Tp = unsigned int]’ at /usr/include/c++/13/bits/stl_algo.h:3897:28, inlined from ‘void RDKit::RDKitFP::RDKitFPAtomEnv::updateAdditionalOutput(RDKit::AdditionalOutput*, size_t) const [with OutputType = unsigned int]’ at /<>/Code/GraphMol/Fingerprints/RDKitFPGenerator.cpp:102:24: /usr/include/c++/13/bits/stl_algobase.h:2117:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2117 | return __find_if(__first, __last, __pred, | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 2118 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {long long unsigned int}; _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = long long unsigned int; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::RDKitFP::RDKitFPAtomEnv::updateAdditionalOutput(RDKit::AdditionalOutput*, size_t) const [with OutputType = unsigned int]’ at /<>/Code/GraphMol/Fingerprints/RDKitFPGenerator.cpp:103:28: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_tree.h: In function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = unsigned int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/stl_tree.h:2458:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 2458 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_tree.h: In function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = unsigned int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/stl_tree.h:2458:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 In file included from /usr/include/c++/13/list:65, from /<>/Code/RDGeneral/types.h:37, from /<>/Code/GraphMol/Depictor/RDDepictor.h:16: /usr/include/c++/13/bits/stl_list.h: In member function ‘void std::__cxx11::list<_Tp, _Alloc>::_M_insert(iterator, _Args&& ...) [with _Args = {const RDDepict::EmbeddedFrag&}; _Tp = RDDepict::EmbeddedFrag; _Alloc = std::allocator]’: /usr/include/c++/13/bits/stl_list.h:2003:8: note: parameter passing for argument of type ‘std::__cxx11::list::iterator’ changed in GCC 7.1 2003 | _M_insert(iterator __position, _Args&&... __args) | ^~~~~~~~~ [ 44%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/FingerprintUtil.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/FingerprintUtil.cpp.o -MF CMakeFiles/Fingerprints.dir/FingerprintUtil.cpp.o.d -o CMakeFiles/Fingerprints.dir/FingerprintUtil.cpp.o -c /<>/Code/GraphMol/Fingerprints/FingerprintUtil.cpp In member function ‘void std::__cxx11::list<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDDepict::EmbeddedFrag; _Alloc = std::allocator]’, inlined from ‘void RDDepict::DepictorLocal::embedCisTransSystems(const RDKit::ROMol&, std::__cxx11::list&)’ at /<>/Code/GraphMol/Depictor/RDDepictor.cpp:318:23: /usr/include/c++/13/bits/stl_list.h:1306:24: note: parameter passing for argument of type ‘std::_List_iterator’ changed in GCC 7.1 1306 | { this->_M_insert(end(), __x); } | ~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::__cxx11::list<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDDepict::EmbeddedFrag; _Alloc = std::allocator]’, inlined from ‘void RDDepict::DepictorLocal::embedFusedSystems(const RDKit::ROMol&, const RDKit::VECT_INT_VECT&, std::__cxx11::list&, const RDGeom::INT_POINT2D_MAP*, bool)’ at /<>/Code/GraphMol/Depictor/RDDepictor.cpp:286:21: /usr/include/c++/13/bits/stl_list.h:1306:24: note: parameter passing for argument of type ‘std::_List_iterator’ changed in GCC 7.1 1306 | { this->_M_insert(end(), __x); } | ~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 44%] Linking CXX shared module ../../../../rdkit/Chem/rdAbbreviations.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Abbreviations/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdAbbreviations.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdAbbreviations.so CMakeFiles/rdAbbreviations.dir/rdAbbreviations.cpp.o ../../../../lib/libRDKitAbbreviations.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 44%] Built target rdAbbreviations make -f External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/build.make External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/External/CoordGen/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/External/CoordGen/Wrap /<>/obj-arm-linux-gnueabihf/External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/build.make External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 44%] Building CXX object External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/rdCoordGen.cpp.o cd /<>/obj-arm-linux-gnueabihf/External/CoordGen/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DIN_COORDGEN -DIN_MAEPARSER -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdCoordGen_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/rdCoordGen.cpp.o -MF CMakeFiles/rdCoordGen.dir/rdCoordGen.cpp.o.d -o CMakeFiles/rdCoordGen.dir/rdCoordGen.cpp.o -c /<>/External/CoordGen/Wrap/rdCoordGen.cpp In member function ‘void std::__cxx11::list<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDDepict::EmbeddedFrag; _Alloc = std::allocator]’, inlined from ‘void RDDepict::computeInitialCoords(RDKit::ROMol&, const RDGeom::INT_POINT2D_MAP*, std::__cxx11::list&, bool)’ at /<>/Code/GraphMol/Depictor/RDDepictor.cpp:439:21: /usr/include/c++/13/bits/stl_list.h:1306:24: note: parameter passing for argument of type ‘std::_List_iterator’ changed in GCC 7.1 1306 | { this->_M_insert(end(), __x); } | ~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::__cxx11::list<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDDepict::EmbeddedFrag; _Alloc = std::allocator]’, inlined from ‘void RDDepict::computeInitialCoords(RDKit::ROMol&, const RDGeom::INT_POINT2D_MAP*, std::__cxx11::list&, bool)’ at /<>/Code/GraphMol/Depictor/RDDepictor.cpp:487:23: /usr/include/c++/13/bits/stl_list.h:1306:24: note: parameter passing for argument of type ‘std::_List_iterator’ changed in GCC 7.1 1306 | { this->_M_insert(end(), __x); } | ~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘unsigned int RDDepict::compute2DCoords(RDKit::ROMol&, const Compute2DCoordParameters&)’ at /<>/Code/GraphMol/Depictor/RDDepictor.cpp:651:22: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/map:63: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::reflectIfNecessaryDensity(RDDepict::EmbeddedFrag&, unsigned int, unsigned int)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:687:35: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::reflectIfNecessaryDensity(RDDepict::EmbeddedFrag&, unsigned int, unsigned int)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:688:35: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::reflectIfNecessaryThirdPt(RDDepict::EmbeddedFrag&, unsigned int, unsigned int, unsigned int)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:664:34: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::reflectIfNecessaryThirdPt(RDDepict::EmbeddedFrag&, unsigned int, unsigned int, unsigned int)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:665:34: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::reflectIfNecessaryThirdPt(RDDepict::EmbeddedFrag&, unsigned int, unsigned int, unsigned int)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:672:33: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘RDGeom::Transform2D RDDepict::EmbeddedFrag::computeOneAtomTrans(unsigned int, const RDDepict::EmbeddedFrag&)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:562:30: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘RDGeom::Transform2D RDDepict::EmbeddedFrag::computeOneAtomTrans(unsigned int, const RDDepict::EmbeddedFrag&)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:575:30: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘RDGeom::Transform2D RDDepict::EmbeddedFrag::computeOneAtomTrans(unsigned int, const RDDepict::EmbeddedFrag&)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:576:30: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘RDGeom::Transform2D RDDepict::EmbeddedFrag::computeOneAtomTrans(unsigned int, const RDDepict::EmbeddedFrag&)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:577:27: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘RDGeom::Transform2D RDDepict::EmbeddedFrag::computeOneAtomTrans(unsigned int, const RDDepict::EmbeddedFrag&)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:578:27: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘RDGeom::Transform2D RDDepict::EmbeddedFrag::computeOneAtomTrans(unsigned int, const RDDepict::EmbeddedFrag&)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:580:30: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::initFromRingCoords(const RDKit::INT_VECT&, const RDGeom::INT_POINT2D_MAP&)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:732:20: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::initFromRingCoords(const RDKit::INT_VECT&, const RDGeom::INT_POINT2D_MAP&)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:734:16: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::initFromRingCoords(const RDKit::INT_VECT&, const RDGeom::INT_POINT2D_MAP&)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:738:16: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::permuteBonds(unsigned int, unsigned int, unsigned int)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:1411:16: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::permuteBonds(unsigned int, unsigned int, unsigned int)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:1415:16: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::flipAboutBond(unsigned int, bool)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:1691:29: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘void RDDepict::straightenDepiction(RDKit::ROMol&, int, bool)’ at /<>/Code/GraphMol/Depictor/RDDepictor.cpp:1210:35: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/13/bits/stl_map.h: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::mergeRing(const RDDepict::EmbeddedFrag&, unsigned int, const RDKit::INT_VECT&)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:747:19: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::mergeRing(const RDDepict::EmbeddedFrag&, unsigned int, const RDKit::INT_VECT&)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:755:23: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::mergeRing(const RDDepict::EmbeddedFrag&, unsigned int, const RDKit::INT_VECT&)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:756:27: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::mergeRing(const RDDepict::EmbeddedFrag&, unsigned int, const RDKit::INT_VECT&)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:757:25: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::mergeRing(const RDDepict::EmbeddedFrag&, unsigned int, const RDKit::INT_VECT&)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:758:34: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::mergeRing(const RDDepict::EmbeddedFrag&, unsigned int, const RDKit::INT_VECT&)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:760:34: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::mergeRing(const RDDepict::EmbeddedFrag&, unsigned int, const RDKit::INT_VECT&)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:762:34: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::addAtomToAtomWithAng(unsigned int, unsigned int)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:791:39: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::updateNewNeighs(unsigned int)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:255:15: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::updateNewNeighs(unsigned int)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:266:15: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::updateNewNeighs(unsigned int)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:266:43: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::updateNewNeighs(unsigned int)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:272:20: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::updateNewNeighs(unsigned int)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:281:19: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_map.h: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::computeNbrsAndAng(unsigned int, const RDKit::INT_VECT&)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:117:38: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::computeNbrsAndAng(unsigned int, const RDKit::INT_VECT&)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:117:59: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::computeNbrsAndAng(unsigned int, const RDKit::INT_VECT&)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:118:40: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::setupAttachmentPoints()’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:318:37: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::setupAttachmentPoints()’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:328:19: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::setupAttachmentPoints()’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:329:19: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::setupAttachmentPoints()’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:332:19: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::setupAttachmentPoints()’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:334:37: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::setupAttachmentPoints()’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:334:57: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::setupAttachmentPoints()’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:333:19: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::setupAttachmentPoints()’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:338:19: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::setupAttachmentPoints()’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:339:19: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::setupAttachmentPoints()’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:341:36: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::setupAttachmentPoints()’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:341:55: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::setupAttachmentPoints()’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:341:74: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::setupAttachmentPoints()’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:340:19: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::reflectIfNecessaryCisTrans(RDDepict::EmbeddedFrag&, unsigned int, unsigned int, unsigned int)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:630:36: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::reflectIfNecessaryCisTrans(RDDepict::EmbeddedFrag&, unsigned int, unsigned int, unsigned int)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:636:41: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::reflectIfNecessaryCisTrans(RDDepict::EmbeddedFrag&, unsigned int, unsigned int, unsigned int)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:648:27: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::reflectIfNecessaryCisTrans(RDDepict::EmbeddedFrag&, unsigned int, unsigned int, unsigned int)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:649:33: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::reflectIfNecessaryCisTrans(RDDepict::EmbeddedFrag&, unsigned int, unsigned int, unsigned int)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:650:39: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::reflectIfNecessaryCisTrans(RDDepict::EmbeddedFrag&, unsigned int, unsigned int, unsigned int)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:654:29: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘RDDepict::EmbeddedFrag::EmbeddedFrag(unsigned int, const RDKit::ROMol*)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:55:15: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ [ 44%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/DepictUtils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDepictor_EXPORTS -DIN_COORDGEN -DRDKIT_DEPICTOR_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/DepictUtils.cpp.o -MF CMakeFiles/Depictor.dir/DepictUtils.cpp.o.d -o CMakeFiles/Depictor.dir/DepictUtils.cpp.o -c /<>/Code/GraphMol/Depictor/DepictUtils.cpp In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘RDDepict::EmbeddedFrag::EmbeddedFrag(const RDKit::ROMol*, const RDGeom::INT_POINT2D_MAP&)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:96:17: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::mergeWithCommon(RDDepict::EmbeddedFrag&, RDKit::INT_VECT&)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:1089:21: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::mergeWithCommon(RDDepict::EmbeddedFrag&, RDKit::INT_VECT&)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:1090:21: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::mergeWithCommon(RDDepict::EmbeddedFrag&, RDKit::INT_VECT&)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:1093:21: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::mergeWithCommon(RDDepict::EmbeddedFrag&, RDKit::INT_VECT&)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:1096:21: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::expandEfrag(RDKit::INT_LIST&, std::__cxx11::list&)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:1150:29: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::expandEfrag(RDKit::INT_LIST&, std::__cxx11::list&)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:1189:17: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘std::vector > RDDepict::EmbeddedFrag::findCollisions(const double*, bool)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:1574:32: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘std::vector > RDDepict::EmbeddedFrag::findCollisions(const double*, bool)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:1574:53: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘std::vector > RDDepict::EmbeddedFrag::findCollisions(const double*, bool)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:1575:34: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘std::vector > RDDepict::EmbeddedFrag::findCollisions(const double*, bool)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:1575:55: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘std::vector > RDDepict::EmbeddedFrag::findCollisions(const double*, bool)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:1586:38: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘std::vector > RDDepict::EmbeddedFrag::findCollisions(const double*, bool)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:1586:59: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::removeCollisionsShortenBonds()’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:1985:44: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::removeCollisionsShortenBonds()’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:1986:43: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDDepict::EmbeddedFrag::removeCollisionsShortenBonds()’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:1994:23: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/RDGeneral/types.h:27: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_tree.h: In member function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {int&, RDDepict::EmbeddedAtom&}; _Key = unsigned int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/stl_tree.h:2458:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 2458 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setPODVal(const std::string&, T) [with T = unsigned int]’ at /<>/Code/RDGeneral/Dict.h:285:20, inlined from ‘void RDKit::Dict::setVal(const std::string&, unsigned int)’ at /<>/Code/RDGeneral/Dict.h:297:14, inlined from ‘void RDKit::RDProps::setProp(const std::string&, T, bool) const [with T = unsigned int]’ at /<>/Code/RDGeneral/RDProps.h:86:19, inlined from ‘bool RDDepict::EmbeddedFrag::matchToTemplate(const RDKit::INT_VECT&, unsigned int)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:366:16: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {int&, RDDepict::EmbeddedAtom&}; _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘std::pair, std::_Select1st >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind >::other>::iterator, bool> std::map<_Key, _Tp, _Compare, _Alloc>::emplace(_Args&& ...) [with _Args = {int&, RDDepict::EmbeddedAtom&}; _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’ at /usr/include/c++/13/bits/stl_map.h:601:22, inlined from ‘bool RDDepict::EmbeddedFrag::matchToTemplate(const RDKit::INT_VECT&, unsigned int)’ at /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:415:21: /usr/include/c++/13/bits/stl_map.h:640:45: note: parameter passing for argument of type ‘std::map::const_iterator’ {aka ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’} changed in GCC 7.1 640 | return _M_t._M_emplace_hint_unique(__pos, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ 641 | std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 44%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/Templates.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDepictor_EXPORTS -DIN_COORDGEN -DRDKIT_DEPICTOR_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/Templates.cpp.o -MF CMakeFiles/Depictor.dir/Templates.cpp.o.d -o CMakeFiles/Depictor.dir/Templates.cpp.o -c /<>/Code/GraphMol/Depictor/Templates.cpp [ 44%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/TopologicalTorsionGenerator.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/TopologicalTorsionGenerator.cpp.o -MF CMakeFiles/Fingerprints.dir/TopologicalTorsionGenerator.cpp.o.d -o CMakeFiles/Fingerprints.dir/TopologicalTorsionGenerator.cpp.o -c /<>/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/c++/13/functional:64, from /usr/include/boost/config/no_tr1/functional.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:15, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/External/CoordGen/Wrap/rdCoordGen.cpp:12: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘unsigned int RDKit::CoordGen::addCoords(T&, const CoordGenParams*) [with T = RDKit::ROMol]’ at /<>/External/CoordGen/CoordGen.h:174:15: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘unsigned int RDKit::CoordGen::addCoords(T&, const CoordGenParams*) [with T = RDKit::ROMol]’ at /<>/External/CoordGen/CoordGen.h:178:21: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/RDGeneral/types.h:27, from /<>/Code/GraphMol/Depictor/DepictUtils.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const RDGeom::Point2D&}; _Tp = RDGeom::Point2D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘RDDepict::INT_PAIR_VECT RDDepict::findBondsPairsToPermuteDeg4(const RDGeom::Point2D&, const RDKit::INT_VECT&, const VECT_C_POINT&)’ at /<>/Code/GraphMol/Depictor/DepictUtils.cpp:388:21: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ make -f Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ForceFieldHelpers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 44%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/UFF/AtomTyper.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/UFF/AtomTyper.cpp.o -MF CMakeFiles/ForceFieldHelpers.dir/UFF/AtomTyper.cpp.o.d -o CMakeFiles/ForceFieldHelpers.dir/UFF/AtomTyper.cpp.o -c /<>/Code/GraphMol/ForceFieldHelpers/UFF/AtomTyper.cpp [ 44%] Linking CXX shared module ../../../rdkit/Chem/rdCoordGen.so cd /<>/obj-arm-linux-gnueabihf/External/CoordGen/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdCoordGen.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/Chem/rdCoordGen.so CMakeFiles/rdCoordGen.dir/rdCoordGen.cpp.o /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 -ldl /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 44%] Built target rdCoordGen make -f Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/build.make Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FilterCatalog/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/build.make Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 44%] Building CXX object Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/rdfiltercatalog.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfiltercatalog_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/rdfiltercatalog.cpp.o -MF CMakeFiles/rdfiltercatalog.dir/rdfiltercatalog.cpp.o.d -o CMakeFiles/rdfiltercatalog.dir/rdfiltercatalog.cpp.o -c /<>/Code/GraphMol/FilterCatalog/Wrap/rdfiltercatalog.cpp [ 45%] Linking CXX shared library ../../../lib/libRDKitDepictor.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor && /usr/bin/cmake -E cmake_link_script CMakeFiles/Depictor.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitDepictor.so.1 -o ../../../lib/libRDKitDepictor.so.1.2023.09.3 CMakeFiles/Depictor.dir/RDDepictor.cpp.o CMakeFiles/Depictor.dir/EmbeddedFrag.cpp.o CMakeFiles/Depictor.dir/DepictUtils.cpp.o CMakeFiles/Depictor.dir/Templates.cpp.o /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitDepictor.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1 ../../../lib/libRDKitDepictor.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 45%] Built target Depictor make -f Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ChemTransforms /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemTransforms /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 45%] Building CXX object Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/ChemTransforms.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemTransforms && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DChemTransforms_EXPORTS -DRDKIT_CHEMTRANSFORMS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/ChemTransforms.cpp.o -MF CMakeFiles/ChemTransforms.dir/ChemTransforms.cpp.o.d -o CMakeFiles/ChemTransforms.dir/ChemTransforms.cpp.o -c /<>/Code/GraphMol/ChemTransforms/ChemTransforms.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/DataStructs/SparseIntVect.h:17, from /<>/Code/GraphMol/Fingerprints/FingerprintGenerator.h:15, from /<>/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.h:15, from /<>/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {long long unsigned int}; _Tp = long long unsigned int; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {long long unsigned int}; _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = long long unsigned int; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::TopologicalTorsion::TopologicalTorsionAtomEnv::updateAdditionalOutput(RDKit::AdditionalOutput*, size_t) const [with OutputType = long long unsigned int]’ at /<>/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.cpp:56:56: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 46%] Linking CXX shared library ../../../lib/libRDKitFingerprints.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_link_script CMakeFiles/Fingerprints.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitFingerprints.so.1 -o ../../../lib/libRDKitFingerprints.so.1.2023.09.3 CMakeFiles/Fingerprints.dir/Fingerprints.cpp.o CMakeFiles/Fingerprints.dir/PatternFingerprints.cpp.o CMakeFiles/Fingerprints.dir/MorganFingerprints.cpp.o CMakeFiles/Fingerprints.dir/AtomPairs.cpp.o CMakeFiles/Fingerprints.dir/MACCS.cpp.o CMakeFiles/Fingerprints.dir/MHFP.cpp.o CMakeFiles/Fingerprints.dir/FingerprintGenerator.cpp.o CMakeFiles/Fingerprints.dir/AtomPairGenerator.cpp.o CMakeFiles/Fingerprints.dir/MorganGenerator.cpp.o CMakeFiles/Fingerprints.dir/RDKitFPGenerator.cpp.o CMakeFiles/Fingerprints.dir/FingerprintUtil.cpp.o CMakeFiles/Fingerprints.dir/TopologicalTorsionGenerator.cpp.o ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1 ../../../lib/libRDKitFingerprints.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 46%] Built target Fingerprints make -f Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build.make Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Depictor/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build.make Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 46%] Building CXX object Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/rdDepictor.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DIN_COORDGEN -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdDepictor_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/rdDepictor.cpp.o -MF CMakeFiles/rdDepictor.dir/rdDepictor.cpp.o.d -o CMakeFiles/rdDepictor.dir/rdDepictor.cpp.o -c /<>/Code/GraphMol/Depictor/Wrap/rdDepictor.cpp [ 46%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/UFF/Builder.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/UFF/Builder.cpp.o -MF CMakeFiles/ForceFieldHelpers.dir/UFF/Builder.cpp.o.d -o CMakeFiles/ForceFieldHelpers.dir/UFF/Builder.cpp.o -c /<>/Code/GraphMol/ForceFieldHelpers/UFF/Builder.cpp [ 46%] Building CXX object Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/FilterCatalog.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfiltercatalog_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/FilterCatalog.cpp.o -MF CMakeFiles/rdfiltercatalog.dir/FilterCatalog.cpp.o.d -o CMakeFiles/rdfiltercatalog.dir/FilterCatalog.cpp.o -c /<>/Code/GraphMol/FilterCatalog/Wrap/FilterCatalog.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/RDGeneral/types.h:27, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/ChemTransforms/ChemTransforms.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 46%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/MMFF/AtomTyper.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/MMFF/AtomTyper.cpp.o -MF CMakeFiles/ForceFieldHelpers.dir/MMFF/AtomTyper.cpp.o.d -o CMakeFiles/ForceFieldHelpers.dir/MMFF/AtomTyper.cpp.o -c /<>/Code/GraphMol/ForceFieldHelpers/MMFF/AtomTyper.cpp /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘void RDKit::details::updateSubMolConfs(const RDKit::ROMol&, RDKit::RWMol&, boost::dynamic_bitset<>&)’ at /<>/Code/GraphMol/ChemTransforms/ChemTransforms.cpp:43:52: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void RDKit::details::updateSubMolConfs(const RDKit::ROMol&, RDKit::RWMol&, boost::dynamic_bitset<>&)’ at /<>/Code/GraphMol/ChemTransforms/ChemTransforms.cpp:49:28: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘RDKit::ROMol* RDKit::replaceCore(const ROMol&, const ROMol&, const MatchVectType&, bool, bool, bool)’ at /<>/Code/GraphMol/ChemTransforms/ChemTransforms.cpp:751:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘RDKit::ROMol* RDKit::combineMols(const ROMol&, const ROMol&, RDGeom::Point3D)’ at /<>/Code/GraphMol/ChemTransforms/ChemTransforms.cpp:871:28: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 46%] Building CXX object Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/MolFragmenter.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemTransforms && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DChemTransforms_EXPORTS -DRDKIT_CHEMTRANSFORMS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/MolFragmenter.cpp.o -MF CMakeFiles/ChemTransforms.dir/MolFragmenter.cpp.o.d -o CMakeFiles/ChemTransforms.dir/MolFragmenter.cpp.o -c /<>/Code/GraphMol/ChemTransforms/MolFragmenter.cpp [ 46%] Linking CXX shared module ../../../../rdkit/Chem/rdDepictor.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdDepictor.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdDepictor.so CMakeFiles/rdDepictor.dir/rdDepictor.cpp.o ../../../../lib/libRDKitDepictor.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 46%] Built target rdDepictor make -f Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/build.make Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Fingerprints/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/build.make Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 46%] Building CXX object Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/FingerprintGeneratorWrapper.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdFingerprintGenerator_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/FingerprintGeneratorWrapper.cpp.o -MF CMakeFiles/rdFingerprintGenerator.dir/FingerprintGeneratorWrapper.cpp.o.d -o CMakeFiles/rdFingerprintGenerator.dir/FingerprintGeneratorWrapper.cpp.o -c /<>/Code/GraphMol/Fingerprints/Wrap/FingerprintGeneratorWrapper.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/ForceFieldHelpers/MMFF/AtomTyper.cpp:12: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/Code/GraphMol/Fingerprints/Wrap/FingerprintGeneratorWrapper.cpp: In function ‘boost::python::api::object RDKit::FingerprintWrapper::getBitPathsHelper(const RDKit::AdditionalOutput&)’: /<>/Code/GraphMol/Fingerprints/Wrap/FingerprintGeneratorWrapper.cpp:452:19: warning: redundant move in return statement [-Wredundant-move] 452 | return std::move(res); | ~~~~~~~~~^~~~~ /<>/Code/GraphMol/Fingerprints/Wrap/FingerprintGeneratorWrapper.cpp:452:19: note: remove ‘std::move’ call /<>/Code/GraphMol/Fingerprints/Wrap/FingerprintGeneratorWrapper.cpp: In function ‘boost::python::api::object RDKit::FingerprintWrapper::getBitInfoMapHelper(const RDKit::AdditionalOutput&)’: /<>/Code/GraphMol/Fingerprints/Wrap/FingerprintGeneratorWrapper.cpp:467:19: warning: redundant move in return statement [-Wredundant-move] 467 | return std::move(res); | ~~~~~~~~~^~~~~ /<>/Code/GraphMol/Fingerprints/Wrap/FingerprintGeneratorWrapper.cpp:467:19: note: remove ‘std::move’ call [ 47%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/MMFF/Builder.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/MMFF/Builder.cpp.o -MF CMakeFiles/ForceFieldHelpers.dir/MMFF/Builder.cpp.o.d -o CMakeFiles/ForceFieldHelpers.dir/MMFF/Builder.cpp.o -c /<>/Code/GraphMol/ForceFieldHelpers/MMFF/Builder.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/boost/graph/adjacency_list.hpp:16, from /<>/Code/GraphMol/ROMol.h:29, from /<>/Code/GraphMol/ChemTransforms/MolFragmenter.h:15, from /<>/Code/GraphMol/ChemTransforms/MolFragmenter.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘RDKit::ROMol* RDKit::MolFragmenter::fragmentOnBonds(const RDKit::ROMol&, const std::vector&, bool, const std::vector >*, const std::vector*, std::vector*)’ at /<>/Code/GraphMol/ChemTransforms/MolFragmenter.cpp:536:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘RDKit::ROMol* RDKit::MolFragmenter::fragmentOnBonds(const RDKit::ROMol&, const std::vector&, bool, const std::vector >*, const std::vector*, std::vector*)’ at /<>/Code/GraphMol/ChemTransforms/MolFragmenter.cpp:537:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘std::unique_ptr RDKit::molzip(std::vector >&, const MolzipParams&)’ at /<>/Code/GraphMol/ChemTransforms/MolFragmenter.cpp:1107:60: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘std::unique_ptr RDKit::molzip(std::vector >&, const MolzipParams&)’ at /<>/Code/GraphMol/ChemTransforms/MolFragmenter.cpp:1124:28: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/Code/GraphMol/ForceFieldHelpers/MMFF/Builder.cpp: In function ‘void RDKit::MMFF::Tools::addStretchBend(const RDKit::ROMol&, RDKit::MMFF::MMFFMolProperties*, ForceFields::ForceField*)’: /<>/Code/GraphMol/ForceFieldHelpers/MMFF/Builder.cpp:419:68: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 419 | MMFF::Utils::calcStbnForceConstants(&mmffStbnParams); | ^ [ 47%] Linking CXX shared library ../../../lib/libRDKitChemTransforms.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemTransforms && /usr/bin/cmake -E cmake_link_script CMakeFiles/ChemTransforms.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitChemTransforms.so.1 -o ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 CMakeFiles/ChemTransforms.dir/ChemTransforms.cpp.o CMakeFiles/ChemTransforms.dir/MolFragmenter.cpp.o ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemTransforms && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1 ../../../lib/libRDKitChemTransforms.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' In file included from /usr/include/c++/13/vector:72, from /usr/include/c++/13/functional:64, from /usr/include/boost/config/no_tr1/functional.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:15, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/GraphMol/FilterCatalog/Wrap/FilterCatalog.cpp:31: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ [ 47%] Built target ChemTransforms make -f Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/build.make Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Fingerprints/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/build.make Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 47%] Building CXX object Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/MHFPWrapper.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMHFPFingerprint_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/MHFPWrapper.cpp.o -MF CMakeFiles/rdMHFPFingerprint.dir/MHFPWrapper.cpp.o.d -o CMakeFiles/rdMHFPFingerprint.dir/MHFPWrapper.cpp.o -c /<>/Code/GraphMol/Fingerprints/Wrap/MHFPWrapper.cpp In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::__cxx11::basic_string]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 47%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionAngleM6.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionAngleM6.cpp.o -MF CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionAngleM6.cpp.o.d -o CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionAngleM6.cpp.o -c /<>/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionAngleM6.cpp [ 47%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionPreferences.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionPreferences.cpp.o -MF CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionPreferences.cpp.o.d -o CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionPreferences.cpp.o -c /<>/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionPreferences.cpp [ 47%] Linking CXX shared module ../../../../rdkit/Chem/rdFingerprintGenerator.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdFingerprintGenerator.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdFingerprintGenerator.so CMakeFiles/rdFingerprintGenerator.dir/FingerprintGeneratorWrapper.cpp.o ../../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 47%] Built target rdFingerprintGenerator make -f Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 47%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/CDXMLParser.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/CDXMLParser.cpp.o -MF CMakeFiles/FileParsers.dir/CDXMLParser.cpp.o.d -o CMakeFiles/FileParsers.dir/CDXMLParser.cpp.o -c /<>/Code/GraphMol/FileParsers/CDXMLParser.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionPreferences.h:13, from /<>/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionPreferences.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘ForceFields::CrystalFF::ExpTorsionAngleCollection::ExpTorsionAngleCollection(const std::string&)’ at /<>/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionPreferences.cpp:121:26: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 47%] Linking CXX shared library ../../../lib/libRDKitForceFieldHelpers.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/ForceFieldHelpers.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitForceFieldHelpers.so.1 -o ../../../lib/libRDKitForceFieldHelpers.so.1.2023.09.3 CMakeFiles/ForceFieldHelpers.dir/UFF/AtomTyper.cpp.o CMakeFiles/ForceFieldHelpers.dir/UFF/Builder.cpp.o CMakeFiles/ForceFieldHelpers.dir/MMFF/AtomTyper.cpp.o CMakeFiles/ForceFieldHelpers.dir/MMFF/Builder.cpp.o CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionAngleM6.cpp.o CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionPreferences.cpp.o ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitForceField.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitOptimizer.so.1.2023.09.3 ../../../lib/libRDKitTrajectory.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl In file included from /usr/include/boost/python/override.hpp:13, from /usr/include/boost/python/wrapper.hpp:8, from /usr/include/boost/python/object/value_holder.hpp:15, from /usr/include/boost/python/object/class_metadata.hpp:14, from /usr/include/boost/python/class.hpp:23, from /usr/include/boost/python.hpp:18, from /<>/Code/GraphMol/Fingerprints/Wrap/MHFPWrapper.cpp:11: In member function ‘boost::python::converter::extract_rvalue::result_type boost::python::converter::extract_rvalue::operator()() const [with T = unsigned int]’, inlined from ‘ValueT boost::python::stl_input_iterator::dereference() const [with ValueT = unsigned int]’ at /usr/include/boost/python/stl_iterator.hpp:48:60, inlined from ‘static typename Facade::reference boost::iterators::iterator_core_access::dereference(const Facade&) [with Facade = boost::python::stl_input_iterator]’ at /usr/include/boost/iterator/iterator_facade.hpp:631:31, inlined from ‘boost::iterators::detail::iterator_facade_base::reference boost::iterators::detail::iterator_facade_base::operator*() const [with Derived = boost::python::stl_input_iterator; Value = unsigned int; CategoryOrTraversal = std::input_iterator_tag; Reference = unsigned int; Difference = int]’ at /usr/include/boost/iterator/iterator_facade.hpp:737:53, inlined from ‘void std::vector<_Tp, _Alloc>::_M_range_initialize(_InputIterator, _InputIterator, std::input_iterator_tag) [with _InputIterator = boost::python::stl_input_iterator; _Tp = unsigned int; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1670:21, inlined from ‘std::vector<_Tp, _Alloc>::vector(_InputIterator, _InputIterator, const allocator_type&) [with _InputIterator = boost::python::stl_input_iterator; = void; _Tp = unsigned int; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:708:23, inlined from ‘std::vector RDKit::MHFPWrapper::ListToVector(const boost::python::api::object&) [with T = unsigned int]’ at /<>/Code/GraphMol/Fingerprints/Wrap/MHFPWrapper.cpp:28:56: /usr/include/boost/python/extract.hpp:185:11: warning: ‘*(unsigned int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 185 | ); | ^ In file included from /usr/include/boost/python.hpp:66: /usr/include/boost/python/stl_iterator.hpp: In function ‘std::vector RDKit::MHFPWrapper::ListToVector(const boost::python::api::object&) [with T = unsigned int]’: /usr/include/boost/python/stl_iterator.hpp:48:16: note: ‘’ declared here 48 | return extract(this->impl_.current().get())(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitForceFieldHelpers.so.1.2023.09.3 ../../../lib/libRDKitForceFieldHelpers.so.1 ../../../lib/libRDKitForceFieldHelpers.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 47%] Built target ForceFieldHelpers make -f Code/DistGeom/CMakeFiles/DistGeometry.dir/build.make Code/DistGeom/CMakeFiles/DistGeometry.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/DistGeom /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/DistGeom /<>/obj-arm-linux-gnueabihf/Code/DistGeom/CMakeFiles/DistGeometry.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/DistGeom/CMakeFiles/DistGeometry.dir/build.make Code/DistGeom/CMakeFiles/DistGeometry.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 47%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/DistGeomUtils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DistGeom && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDistGeometry_EXPORTS -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/DistGeom/CMakeFiles/DistGeometry.dir/DistGeomUtils.cpp.o -MF CMakeFiles/DistGeometry.dir/DistGeomUtils.cpp.o.d -o CMakeFiles/DistGeometry.dir/DistGeomUtils.cpp.o -c /<>/Code/DistGeom/DistGeomUtils.cpp [ 47%] Linking CXX shared module ../../../../rdkit/Chem/rdfiltercatalog.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdfiltercatalog.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdfiltercatalog.so CMakeFiles/rdfiltercatalog.dir/rdfiltercatalog.cpp.o CMakeFiles/rdfiltercatalog.dir/FilterCatalog.cpp.o ../../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../../lib/libRDKitCatalogs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 47%] Built target rdfiltercatalog make -f Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build.make Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ForceField/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ForceField/Wrap /<>/obj-arm-linux-gnueabihf/Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build.make Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 47%] Building CXX object Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/ForceField.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdForceField_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/ForceField.cpp.o -MF CMakeFiles/rdForceField.dir/ForceField.cpp.o.d -o CMakeFiles/rdForceField.dir/ForceField.cpp.o -c /<>/Code/ForceField/Wrap/ForceField.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/RDGeneral/types.h:27, from /<>/Code/GraphMol/FileParsers/CDXMLParser.h:14, from /<>/Code/GraphMol/FileParsers/CDXMLParser.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 47%] Linking CXX shared module ../../../../rdkit/Chem/rdMHFPFingerprint.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMHFPFingerprint.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMHFPFingerprint.so CMakeFiles/rdMHFPFingerprint.dir/MHFPWrapper.cpp.o ../../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 47%] Built target rdMHFPFingerprint make -f Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ForceFieldHelpers/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 48%] Building CXX object Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/rdForceFields.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdForceFieldHelpers_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/rdForceFields.cpp.o -MF CMakeFiles/rdForceFieldHelpers.dir/rdForceFields.cpp.o.d -o CMakeFiles/rdForceFieldHelpers.dir/rdForceFields.cpp.o -c /<>/Code/GraphMol/ForceFieldHelpers/Wrap/rdForceFields.cpp /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘std::back_insert_iterator<_Container>& std::back_insert_iterator<_Container>::operator=(const typename _Container::value_type&) [with _Container = std::vector]’ at /usr/include/c++/13/bits/stl_iterator.h:739:22, inlined from ‘static _OI std::__copy_move<_IsMove, _IsSimple, _Category>::__copy_m(_II, _II, _OI) [with _II = std::istream_iterator, int>; _OI = std::back_insert_iterator >; bool _IsMove = false; bool _IsSimple = false; _Category = std::input_iterator_tag]’ at /usr/include/c++/13/bits/stl_algobase.h:356:16, inlined from ‘_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = istream_iterator, int>; _OI = back_insert_iterator >]’ at /usr/include/c++/13/bits/stl_algobase.h:506:30, inlined from ‘_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = istream_iterator, int>; _OI = back_insert_iterator >]’ at /usr/include/c++/13/bits/stl_algobase.h:533:42, inlined from ‘_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = istream_iterator, int>; _OI = back_insert_iterator >]’ at /usr/include/c++/13/bits/stl_algobase.h:540:31, inlined from ‘_OI std::copy(_II, _II, _OI) [with _II = istream_iterator, int>; _OI = back_insert_iterator >]’ at /usr/include/c++/13/bits/stl_algobase.h:633:7, inlined from ‘std::vector RDKit::{anonymous}::to_vec(const std::string&) [with T = double]’ at /<>/Code/GraphMol/FileParsers/CDXMLParser.cpp:116:12, inlined from ‘bool RDKit::{anonymous}::parse_fragment(RDKit::RWMol&, boost::property_tree::ptree&, std::map&, int&, int)’ at /<>/Code/GraphMol/FileParsers/CDXMLParser.cpp:255:41: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘std::__detail::__unique_ptr_t<_Tp> std::make_unique(_Args&& ...) [with _Tp = RDKit::Conformer; _Args = {unsigned int}]’ at /usr/include/c++/13/bits/unique_ptr.h:1070:30, inlined from ‘std::vector > RDKit::CDXMLDataStreamToMols(std::istream&, bool, bool)’ at /<>/Code/GraphMol/FileParsers/CDXMLParser.cpp:575:73: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘std::vector > RDKit::CDXMLDataStreamToMols(std::istream&, bool, bool)’ at /<>/Code/GraphMol/FileParsers/CDXMLParser.cpp:594:33: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 48%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/TriangleSmooth.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DistGeom && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDistGeometry_EXPORTS -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/DistGeom/CMakeFiles/DistGeometry.dir/TriangleSmooth.cpp.o -MF CMakeFiles/DistGeometry.dir/TriangleSmooth.cpp.o.d -o CMakeFiles/DistGeometry.dir/TriangleSmooth.cpp.o -c /<>/Code/DistGeom/TriangleSmooth.cpp [ 48%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/Mol2FileParser.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/Mol2FileParser.cpp.o -MF CMakeFiles/FileParsers.dir/Mol2FileParser.cpp.o.d -o CMakeFiles/FileParsers.dir/Mol2FileParser.cpp.o -c /<>/Code/GraphMol/FileParsers/Mol2FileParser.cpp /<>/Code/GraphMol/ForceFieldHelpers/Wrap/rdForceFields.cpp: In function ‘boost::python::api::object RDKit::UFFConfsHelper(ROMol&, int, int, double, bool)’: /<>/Code/GraphMol/ForceFieldHelpers/Wrap/rdForceFields.cpp:49:19: warning: redundant move in return statement [-Wredundant-move] 49 | return std::move(pyres); | ~~~~~~~~~^~~~~~~ /<>/Code/GraphMol/ForceFieldHelpers/Wrap/rdForceFields.cpp:49:19: note: remove ‘std::move’ call /<>/Code/GraphMol/ForceFieldHelpers/Wrap/rdForceFields.cpp: In function ‘boost::python::api::object RDKit::MMFFConfsHelper(ROMol&, int, int, std::string, double, bool)’: /<>/Code/GraphMol/ForceFieldHelpers/Wrap/rdForceFields.cpp:66:19: warning: redundant move in return statement [-Wredundant-move] 66 | return std::move(pyres); | ~~~~~~~~~^~~~~~~ /<>/Code/GraphMol/ForceFieldHelpers/Wrap/rdForceFields.cpp:66:19: note: remove ‘std::move’ call /<>/Code/GraphMol/ForceFieldHelpers/Wrap/rdForceFields.cpp: In function ‘boost::python::api::object RDKit::FFConfsHelper(ROMol&, ForceFields::PyForceField&, int, int)’: /<>/Code/GraphMol/ForceFieldHelpers/Wrap/rdForceFields.cpp:86:19: warning: redundant move in return statement [-Wredundant-move] 86 | return std::move(pyres); | ~~~~~~~~~^~~~~~~ /<>/Code/GraphMol/ForceFieldHelpers/Wrap/rdForceFields.cpp:86:19: note: remove ‘std::move’ call [ 48%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/DistViolationContrib.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DistGeom && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDistGeometry_EXPORTS -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/DistGeom/CMakeFiles/DistGeometry.dir/DistViolationContrib.cpp.o -MF CMakeFiles/DistGeometry.dir/DistViolationContrib.cpp.o.d -o CMakeFiles/DistGeometry.dir/DistViolationContrib.cpp.o -c /<>/Code/DistGeom/DistViolationContrib.cpp [ 49%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/ChiralViolationContrib.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DistGeom && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDistGeometry_EXPORTS -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/DistGeom/CMakeFiles/DistGeometry.dir/ChiralViolationContrib.cpp.o -MF CMakeFiles/DistGeometry.dir/ChiralViolationContrib.cpp.o.d -o CMakeFiles/DistGeometry.dir/ChiralViolationContrib.cpp.o -c /<>/Code/DistGeom/ChiralViolationContrib.cpp [ 49%] Linking CXX shared module ../../../../rdkit/Chem/rdForceFieldHelpers.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdForceFieldHelpers.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdForceFieldHelpers.so CMakeFiles/rdForceFieldHelpers.dir/rdForceFields.cpp.o ../../../../lib/libRDKitForceFieldHelpers.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../../lib/libRDKitForceField.so.1.2023.09.3 ../../../../lib/libRDKitOptimizer.so.1.2023.09.3 ../../../../lib/libRDKitTrajectory.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl [ 49%] Linking CXX shared library ../../lib/libRDKitDistGeometry.so cd /<>/obj-arm-linux-gnueabihf/Code/DistGeom && /usr/bin/cmake -E cmake_link_script CMakeFiles/DistGeometry.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitDistGeometry.so.1 -o ../../lib/libRDKitDistGeometry.so.1.2023.09.3 CMakeFiles/DistGeometry.dir/DistGeomUtils.cpp.o CMakeFiles/DistGeometry.dir/TriangleSmooth.cpp.o CMakeFiles/DistGeometry.dir/DistViolationContrib.cpp.o CMakeFiles/DistGeometry.dir/ChiralViolationContrib.cpp.o ../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../lib/libRDKitForceFieldHelpers.so.1.2023.09.3 ../../lib/libRDKitForceField.so.1.2023.09.3 ../../lib/libRDKitOptimizer.so.1.2023.09.3 ../../lib/libRDKitTrajectory.so.1.2023.09.3 ../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 49%] Built target rdForceFieldHelpers make -f Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolAlign /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 49%] Building CXX object Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/O3AAlignMolecules.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DO3AAlign_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLALIGN_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/O3AAlignMolecules.cpp.o -MF CMakeFiles/O3AAlign.dir/O3AAlignMolecules.cpp.o.d -o CMakeFiles/O3AAlign.dir/O3AAlignMolecules.cpp.o -c /<>/Code/GraphMol/MolAlign/O3AAlignMolecules.cpp cd /<>/obj-arm-linux-gnueabihf/Code/DistGeom && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitDistGeometry.so.1.2023.09.3 ../../lib/libRDKitDistGeometry.so.1 ../../lib/libRDKitDistGeometry.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/RDGeneral/types.h:27, from /<>/Code/GraphMol/FileParsers/FileParsers.h:14, from /<>/Code/GraphMol/FileParsers/Mol2FileParser.cpp:37: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const RDGeom::Point3D&}; _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ [ 49%] Built target DistGeometry [ 49%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolFileParser.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolFileParser.cpp.o -MF CMakeFiles/FileParsers.dir/MolFileParser.cpp.o.d -o CMakeFiles/FileParsers.dir/MolFileParser.cpp.o -c /<>/Code/GraphMol/FileParsers/MolFileParser.cpp /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::__cxx11::basic_string]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 49%] Linking CXX shared module ../../../rdkit/ForceField/rdForceField.so cd /<>/obj-arm-linux-gnueabihf/Code/ForceField/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdForceField.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/ForceField/rdForceField.so CMakeFiles/rdForceField.dir/ForceField.cpp.o ../../../lib/libRDKitForceFieldHelpers.so.1.2023.09.3 ../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitForceField.so.1.2023.09.3 ../../../lib/libRDKitOptimizer.so.1.2023.09.3 ../../../lib/libRDKitTrajectory.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 49%] Built target rdForceField make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/DistGeomHelpers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 49%] Building CXX object Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/BoundsMatrixBuilder.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDistGeomHelpers_EXPORTS -DRDKIT_DISTGEOMHELPERS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/BoundsMatrixBuilder.cpp.o -MF CMakeFiles/DistGeomHelpers.dir/BoundsMatrixBuilder.cpp.o.d -o CMakeFiles/DistGeomHelpers.dir/BoundsMatrixBuilder.cpp.o -c /<>/Code/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.cpp In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::{anonymous}::ParseMol2AtomBlock(std::istream*, RDKit::RWMol*, unsigned int, RDKit::INT_VECT&)’ at /<>/Code/GraphMol/FileParsers/Mol2FileParser.cpp:731:25: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘void RDKit::{anonymous}::ParseMol2AtomBlock(std::istream*, RDKit::RWMol*, unsigned int, RDKit::INT_VECT&)’ at /<>/Code/GraphMol/FileParsers/Mol2FileParser.cpp:751:42: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::{anonymous}::ParseMol2AtomBlock(std::istream*, RDKit::RWMol*, unsigned int, RDKit::INT_VECT&)’ at /<>/Code/GraphMol/FileParsers/Mol2FileParser.cpp:754:21: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 49%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolSGroupParsing.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolSGroupParsing.cpp.o -MF CMakeFiles/FileParsers.dir/MolSGroupParsing.cpp.o.d -o CMakeFiles/FileParsers.dir/MolSGroupParsing.cpp.o -c /<>/Code/GraphMol/FileParsers/MolSGroupParsing.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/RDGeneral/types.h:27, from /<>/Code/GraphMol/FileParsers/FileParsers.h:14, from /<>/Code/GraphMol/FileParsers/MolSGroupParsing.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 49%] Building CXX object Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/Embedder.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDistGeomHelpers_EXPORTS -DRDKIT_DISTGEOMHELPERS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/Embedder.cpp.o -MF CMakeFiles/DistGeomHelpers.dir/Embedder.cpp.o.d -o CMakeFiles/DistGeomHelpers.dir/Embedder.cpp.o -c /<>/Code/GraphMol/DistGeomHelpers/Embedder.cpp [ 49%] Linking CXX shared library ../../../lib/libRDKitO3AAlign.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_link_script CMakeFiles/O3AAlign.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitO3AAlign.so.1 -o ../../../lib/libRDKitO3AAlign.so.1.2023.09.3 CMakeFiles/O3AAlign.dir/O3AAlignMolecules.cpp.o ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitForceFieldHelpers.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitForceField.so.1.2023.09.3 ../../../lib/libRDKitOptimizer.so.1.2023.09.3 ../../../lib/libRDKitTrajectory.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitO3AAlign.so.1.2023.09.3 ../../../lib/libRDKitO3AAlign.so.1 ../../../lib/libRDKitO3AAlign.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 49%] Built target O3AAlign make -f Code/DistGeom/CMakeFiles/testDistGeom.dir/build.make Code/DistGeom/CMakeFiles/testDistGeom.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/DistGeom /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/DistGeom /<>/obj-arm-linux-gnueabihf/Code/DistGeom/CMakeFiles/testDistGeom.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/DistGeom/CMakeFiles/testDistGeom.dir/build.make Code/DistGeom/CMakeFiles/testDistGeom.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 49%] Building CXX object Code/DistGeom/CMakeFiles/testDistGeom.dir/testDistGeom.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DistGeom && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/DistGeom/CMakeFiles/testDistGeom.dir/testDistGeom.cpp.o -MF CMakeFiles/testDistGeom.dir/testDistGeom.cpp.o.d -o CMakeFiles/testDistGeom.dir/testDistGeom.cpp.o -c /<>/Code/DistGeom/testDistGeom.cpp /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘std::vector RDKit::SGroupParsing::ParseV3000Array(std::stringstream&, int, bool) [with T = double]’ at /<>/Code/GraphMol/FileParsers/MolSGroupParsing.cpp:957:21: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 49%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolSGroupWriting.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolSGroupWriting.cpp.o -MF CMakeFiles/FileParsers.dir/MolSGroupWriting.cpp.o.d -o CMakeFiles/FileParsers.dir/MolSGroupWriting.cpp.o -c /<>/Code/GraphMol/FileParsers/MolSGroupWriting.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/c++/13/functional:64, from /usr/include/boost/numeric/conversion/converter_policies.hpp:13, from /usr/include/boost/numeric/conversion/converter.hpp:14, from /usr/include/boost/numeric/conversion/cast.hpp:33, from /usr/include/boost/lexical_cast/detail/converter_numeric.hpp:37, from /usr/include/boost/lexical_cast/try_lexical_convert.hpp:43, from /usr/include/boost/lexical_cast.hpp:50, from /<>/Code/GraphMol/FileParsers/MolFileParser.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 50%] Linking CXX executable testDistGeom cd /<>/obj-arm-linux-gnueabihf/Code/DistGeom && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDistGeom.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testDistGeom.dir/testDistGeom.cpp.o -o testDistGeom ../../lib/libRDKitDistGeometry.so.1.2023.09.3 ../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../lib/libRDKitForceFieldHelpers.so.1.2023.09.3 ../../lib/libRDKitForceField.so.1.2023.09.3 ../../lib/libRDKitOptimizer.so.1.2023.09.3 ../../lib/libRDKitTrajectory.so.1.2023.09.3 ../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 50%] Built target testDistGeom make -f Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build.make Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/DistGeom/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/DistGeom/Wrap /<>/obj-arm-linux-gnueabihf/Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build.make Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 51%] Building CXX object Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/DistGeom.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DistGeom/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDistGeom_EXPORTS -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/DistGeom.cpp.o -MF CMakeFiles/DistGeom.dir/DistGeom.cpp.o.d -o CMakeFiles/DistGeom.dir/DistGeom.cpp.o -c /<>/Code/DistGeom/Wrap/DistGeom.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/Geometry/point.h:16, from /<>/Code/GraphMol/DistGeomHelpers/Embedder.h:17, from /<>/Code/GraphMol/DistGeomHelpers/Embedder.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::DGeomHelpers::detail::embedHelper_(int, int, EmbedArgs*, RDKit::DGeomHelpers::EmbedParameters*)’ at /<>/Code/GraphMol/DistGeomHelpers/Embedder.cpp:1270:27: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘void RDKit::DGeomHelpers::EmbedMultipleConfs(RDKit::ROMol&, RDKit::INT_VECT&, unsigned int, EmbedParameters&)’ at /<>/Code/GraphMol/DistGeomHelpers/Embedder.cpp:1358:55: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 51%] Building CXX object Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/EmbedderUtils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDistGeomHelpers_EXPORTS -DRDKIT_DISTGEOMHELPERS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/EmbedderUtils.cpp.o -MF CMakeFiles/DistGeomHelpers.dir/EmbedderUtils.cpp.o.d -o CMakeFiles/DistGeomHelpers.dir/EmbedderUtils.cpp.o -c /<>/Code/GraphMol/DistGeomHelpers/EmbedderUtils.cpp [ 51%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolFileStereochem.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolFileStereochem.cpp.o -MF CMakeFiles/FileParsers.dir/MolFileStereochem.cpp.o.d -o CMakeFiles/FileParsers.dir/MolFileStereochem.cpp.o -c /<>/Code/GraphMol/FileParsers/MolFileStereochem.cpp [ 51%] Linking CXX shared module ../../../rdkit/DistanceGeometry/DistGeom.so cd /<>/obj-arm-linux-gnueabihf/Code/DistGeom/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/DistGeom.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/DistanceGeometry/DistGeom.so CMakeFiles/DistGeom.dir/DistGeom.cpp.o ../../../lib/libRDKitDistGeometry.so.1.2023.09.3 ../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitForceFieldHelpers.so.1.2023.09.3 ../../../lib/libRDKitForceField.so.1.2023.09.3 ../../../lib/libRDKitOptimizer.so.1.2023.09.3 ../../../lib/libRDKitTrajectory.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 51%] Built target DistGeom [ 51%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolFileWriter.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolFileWriter.cpp.o -MF CMakeFiles/FileParsers.dir/MolFileWriter.cpp.o.d -o CMakeFiles/FileParsers.dir/MolFileWriter.cpp.o -c /<>/Code/GraphMol/FileParsers/MolFileWriter.cpp [ 52%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/ForwardSDMolSupplier.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/ForwardSDMolSupplier.cpp.o -MF CMakeFiles/FileParsers.dir/ForwardSDMolSupplier.cpp.o.d -o CMakeFiles/FileParsers.dir/ForwardSDMolSupplier.cpp.o -c /<>/Code/GraphMol/FileParsers/ForwardSDMolSupplier.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/GraphMol/FileParsers/MolFileStereochem.cpp:12: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::vector >]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 52%] Linking CXX shared library ../../../lib/libRDKitDistGeomHelpers.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/DistGeomHelpers.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitDistGeomHelpers.so.1 -o ../../../lib/libRDKitDistGeomHelpers.so.1.2023.09.3 CMakeFiles/DistGeomHelpers.dir/BoundsMatrixBuilder.cpp.o CMakeFiles/DistGeomHelpers.dir/Embedder.cpp.o CMakeFiles/DistGeomHelpers.dir/EmbedderUtils.cpp.o ../../../lib/libRDKitDistGeometry.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitForceFieldHelpers.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitForceField.so.1.2023.09.3 ../../../lib/libRDKitOptimizer.so.1.2023.09.3 ../../../lib/libRDKitTrajectory.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitDistGeomHelpers.so.1.2023.09.3 ../../../lib/libRDKitDistGeomHelpers.so.1 ../../../lib/libRDKitDistGeomHelpers.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 52%] Built target DistGeomHelpers [ 52%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SDMolSupplier.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SDMolSupplier.cpp.o -MF CMakeFiles/FileParsers.dir/SDMolSupplier.cpp.o.d -o CMakeFiles/FileParsers.dir/SDMolSupplier.cpp.o -c /<>/Code/GraphMol/FileParsers/SDMolSupplier.cpp [ 52%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SDWriter.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SDWriter.cpp.o -MF CMakeFiles/FileParsers.dir/SDWriter.cpp.o.d -o CMakeFiles/FileParsers.dir/SDWriter.cpp.o -c /<>/Code/GraphMol/FileParsers/SDWriter.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/RDGeneral/types.h:27, from /<>/Code/GraphMol/FileParsers/FileParsers.h:14, from /<>/Code/GraphMol/FileParsers/MolFileWriter.cpp:13: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /usr/include/boost/iterator/iterator_concepts.hpp:26, from /usr/include/boost/range/concepts.hpp:20, from /usr/include/boost/range/size_type.hpp:20, from /usr/include/boost/range/size.hpp:21, from /usr/include/boost/range/functions.hpp:20, from /usr/include/boost/range/iterator_range_core.hpp:38, from /usr/include/boost/range/iterator_range.hpp:13, from /usr/include/boost/iostreams/traits.hpp:38, from /usr/include/boost/iostreams/detail/call_traits.hpp:15, from /usr/include/boost/iostreams/detail/adapter/device_adapter.hpp:22, from /usr/include/boost/iostreams/tee.hpp:18, from /<>/Code/RDGeneral/RDLog.h:17: /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Val_comp_iter >]’: /usr/include/c++/13/bits/stl_algo.h:1792:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1792 | __unguarded_linear_insert(_RandomAccessIterator __last, | ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1812 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 In file included from /usr/include/c++/13/bits/stl_algo.h:61: /usr/include/c++/13/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Distance = int; _Tp = pair; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/13/bits/stl_heap.h:224:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1918 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_algo.h:1932:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1932 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/BadFileException.h:16, from /<>/Code/GraphMol/FileParsers/ForwardSDMolSupplier.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/BadFileException.h:16, from /<>/Code/GraphMol/FileParsers/SDMolSupplier.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const std::fpos<__mbstate_t>&}; _Tp = std::fpos<__mbstate_t>; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = std::fpos<__mbstate_t>; _Alloc = std::allocator >]’, inlined from ‘unsigned int RDKit::SDMolSupplier::length()’ at /<>/Code/GraphMol/FileParsers/SDMolSupplier.cpp:261:29: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = std::fpos<__mbstate_t>; _Alloc = std::allocator >]’, inlined from ‘virtual RDKit::ROMol* RDKit::SDMolSupplier::next()’ at /<>/Code/GraphMol/FileParsers/SDMolSupplier.cpp:168:23: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = std::fpos<__mbstate_t>; _Alloc = std::allocator >]’, inlined from ‘void RDKit::SDMolSupplier::moveTo(unsigned int)’ at /<>/Code/GraphMol/FileParsers/SDMolSupplier.cpp:221:29: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {std::fpos<__mbstate_t>}; _Tp = std::fpos<__mbstate_t>; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::fpos<__mbstate_t>}; _Tp = std::fpos<__mbstate_t>; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator*, vector > >; _Compare = Rankers::]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘unsigned int RDKit::{anonymous}::getAtomParityFlag(const RDKit::Atom*, const RDKit::Conformer*)’ at /<>/Code/GraphMol/FileParsers/MolFileWriter.cpp:515:12, inlined from ‘void RDKit::GetMolFileAtomProperties(const Atom*, const Conformer*, int&, int&, unsigned int&, double&, double&, double&)’ at /<>/Code/GraphMol/FileParsers/MolFileWriter.cpp:578:37: /usr/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1947 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1948 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1949 | __comp); | ~~~~~~~ In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’, inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’ at /usr/include/c++/13/bits/stl_algo.h:1950:31, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator*, vector > >; _Compare = Rankers::]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘unsigned int RDKit::{anonymous}::getAtomParityFlag(const RDKit::Atom*, const RDKit::Conformer*)’ at /<>/Code/GraphMol/FileParsers/MolFileWriter.cpp:515:12, inlined from ‘void RDKit::GetMolFileAtomProperties(const Atom*, const Conformer*, int&, int&, unsigned int&, double&, double&, double&)’ at /<>/Code/GraphMol/FileParsers/MolFileWriter.cpp:578:37: /usr/include/c++/13/bits/stl_algo.h:1859:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1859 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1864:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1864 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ [ 52%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SmilesMolSupplier.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SmilesMolSupplier.cpp.o -MF CMakeFiles/FileParsers.dir/SmilesMolSupplier.cpp.o.d -o CMakeFiles/FileParsers.dir/SmilesMolSupplier.cpp.o -c /<>/Code/GraphMol/FileParsers/SmilesMolSupplier.cpp [ 52%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SmilesWriter.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SmilesWriter.cpp.o -MF CMakeFiles/FileParsers.dir/SmilesWriter.cpp.o.d -o CMakeFiles/FileParsers.dir/SmilesWriter.cpp.o -c /<>/Code/GraphMol/FileParsers/SmilesWriter.cpp [ 52%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TDTMolSupplier.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TDTMolSupplier.cpp.o -MF CMakeFiles/FileParsers.dir/TDTMolSupplier.cpp.o.d -o CMakeFiles/FileParsers.dir/TDTMolSupplier.cpp.o -c /<>/Code/GraphMol/FileParsers/TDTMolSupplier.cpp [ 52%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TDTWriter.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TDTWriter.cpp.o -MF CMakeFiles/FileParsers.dir/TDTWriter.cpp.o.d -o CMakeFiles/FileParsers.dir/TDTWriter.cpp.o -c /<>/Code/GraphMol/FileParsers/TDTWriter.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/BadFileException.h:16, from /<>/Code/GraphMol/FileParsers/SmilesMolSupplier.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {std::fpos<__mbstate_t>&}; _Tp = std::fpos<__mbstate_t>; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {int&}; _Tp = std::fpos<__mbstate_t>; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::__cxx11::basic_string]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::fpos<__mbstate_t>&}; _Tp = std::fpos<__mbstate_t>; _Alloc = std::allocator >]’, inlined from ‘void RDKit::SmilesMolSupplier::moveTo(unsigned int)’ at /<>/Code/GraphMol/FileParsers/SmilesMolSupplier.cpp:398:28: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {int&}; _Tp = std::fpos<__mbstate_t>; _Alloc = std::allocator >]’, inlined from ‘unsigned int RDKit::SmilesMolSupplier::length()’ at /<>/Code/GraphMol/FileParsers/SmilesMolSupplier.cpp:516:28: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 52%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TplFileParser.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TplFileParser.cpp.o -MF CMakeFiles/FileParsers.dir/TplFileParser.cpp.o.d -o CMakeFiles/FileParsers.dir/TplFileParser.cpp.o -c /<>/Code/GraphMol/FileParsers/TplFileParser.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/boost/token_functions.hpp:34, from /usr/include/boost/token_iterator.hpp:24, from /usr/include/boost/tokenizer.hpp:20, from /<>/Code/GraphMol/FileParsers/TDTMolSupplier.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::__cxx11::basic_string]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {std::fpos<__mbstate_t>}; _Tp = std::fpos<__mbstate_t>; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::fpos<__mbstate_t>}; _Tp = std::fpos<__mbstate_t>; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 52%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TplFileWriter.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TplFileWriter.cpp.o -MF CMakeFiles/FileParsers.dir/TplFileWriter.cpp.o.d -o CMakeFiles/FileParsers.dir/TplFileWriter.cpp.o -c /<>/Code/GraphMol/FileParsers/TplFileWriter.cpp /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::TDTParseUtils::ParseNumberList(std::string, std::vector&, std::istream*) [with T = double]’ at /<>/Code/GraphMol/FileParsers/TDTMolSupplier.cpp:52:22: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 53%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PDBParser.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PDBParser.cpp.o -MF CMakeFiles/FileParsers.dir/PDBParser.cpp.o.d -o CMakeFiles/FileParsers.dir/PDBParser.cpp.o -c /<>/Code/GraphMol/FileParsers/PDBParser.cpp [ 53%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PDBWriter.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PDBWriter.cpp.o -MF CMakeFiles/FileParsers.dir/PDBWriter.cpp.o.d -o CMakeFiles/FileParsers.dir/PDBWriter.cpp.o -c /<>/Code/GraphMol/FileParsers/PDBWriter.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/c++/13/functional:64, from /usr/include/boost/numeric/conversion/converter_policies.hpp:13, from /usr/include/boost/numeric/conversion/converter.hpp:14, from /usr/include/boost/numeric/conversion/cast.hpp:33, from /usr/include/boost/lexical_cast/detail/converter_numeric.hpp:37, from /usr/include/boost/lexical_cast/try_lexical_convert.hpp:43, from /usr/include/boost/lexical_cast.hpp:50, from /<>/Code/GraphMol/FileParsers/TplFileParser.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ [ 53%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PDBSupplier.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PDBSupplier.cpp.o -MF CMakeFiles/FileParsers.dir/PDBSupplier.cpp.o.d -o CMakeFiles/FileParsers.dir/PDBSupplier.cpp.o -c /<>/Code/GraphMol/FileParsers/PDBSupplier.cpp In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /usr/include/c++/13/functional:64, from /usr/include/boost/numeric/conversion/converter_policies.hpp:13, from /usr/include/boost/numeric/conversion/converter.hpp:14, from /usr/include/boost/numeric/conversion/cast.hpp:33, from /usr/include/boost/lexical_cast/detail/converter_numeric.hpp:37, from /usr/include/boost/lexical_cast/try_lexical_convert.hpp:43, from /usr/include/boost/lexical_cast.hpp:50, from /<>/Code/GraphMol/FileParsers/PDBParser.cpp:16: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 53%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/CMLWriter.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/CMLWriter.cpp.o -MF CMakeFiles/FileParsers.dir/CMLWriter.cpp.o.d -o CMakeFiles/FileParsers.dir/CMLWriter.cpp.o -c /<>/Code/GraphMol/FileParsers/CMLWriter.cpp [ 53%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/XYZFileWriter.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/XYZFileWriter.cpp.o -MF CMakeFiles/FileParsers.dir/XYZFileWriter.cpp.o.d -o CMakeFiles/FileParsers.dir/XYZFileWriter.cpp.o -c /<>/Code/GraphMol/FileParsers/XYZFileWriter.cpp [ 53%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/XYZFileParser.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/XYZFileParser.cpp.o -MF CMakeFiles/FileParsers.dir/XYZFileParser.cpp.o.d -o CMakeFiles/FileParsers.dir/XYZFileParser.cpp.o -c /<>/Code/GraphMol/FileParsers/XYZFileParser.cpp [ 53%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MaeMolSupplier.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MaeMolSupplier.cpp.o -MF CMakeFiles/FileParsers.dir/MaeMolSupplier.cpp.o.d -o CMakeFiles/FileParsers.dir/MaeMolSupplier.cpp.o -c /<>/Code/GraphMol/FileParsers/MaeMolSupplier.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/c++/13/functional:64, from /usr/include/boost/numeric/conversion/converter_policies.hpp:13, from /usr/include/boost/numeric/conversion/converter.hpp:14, from /usr/include/boost/numeric/conversion/cast.hpp:33, from /usr/include/boost/lexical_cast/detail/converter_numeric.hpp:37, from /usr/include/boost/lexical_cast/try_lexical_convert.hpp:43, from /usr/include/boost/lexical_cast.hpp:50, from /<>/Code/GraphMol/FileParsers/XYZFileParser.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::__cxx11::basic_string]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘RDKit::RWMol* RDKit::XYZDataStreamToMol(std::istream&)’ at /<>/Code/GraphMol/FileParsers/XYZFileParser.cpp:126:45: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘RDKit::RWMol* RDKit::XYZDataStreamToMol(std::istream&)’ at /<>/Code/GraphMol/FileParsers/XYZFileParser.cpp:138:23: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 53%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MaeWriter.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MaeWriter.cpp.o -MF CMakeFiles/FileParsers.dir/MaeWriter.cpp.o.d -o CMakeFiles/FileParsers.dir/MaeWriter.cpp.o -c /<>/Code/GraphMol/FileParsers/MaeWriter.cpp [ 53%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/ProximityBonds.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/ProximityBonds.cpp.o -MF CMakeFiles/FileParsers.dir/ProximityBonds.cpp.o.d -o CMakeFiles/FileParsers.dir/ProximityBonds.cpp.o -c /<>/Code/GraphMol/FileParsers/ProximityBonds.cpp [ 54%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SequenceParsers.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SequenceParsers.cpp.o -MF CMakeFiles/FileParsers.dir/SequenceParsers.cpp.o.d -o CMakeFiles/FileParsers.dir/SequenceParsers.cpp.o -c /<>/Code/GraphMol/FileParsers/SequenceParsers.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/BadFileException.h:16, from /<>/Code/GraphMol/FileParsers/MaeMolSupplier.cpp:15: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘void RDKit::{anonymous}::addAtoms(const schrodinger::mae::IndexedBlock&, RDKit::RWMol&)’ at /<>/Code/GraphMol/FileParsers/MaeMolSupplier.cpp:322:40, inlined from ‘void RDKit::{anonymous}::build_mol(RDKit::RWMol&, schrodinger::mae::Block&, bool, bool)’ at /<>/Code/GraphMol/FileParsers/MaeMolSupplier.cpp:382:11, inlined from ‘virtual RDKit::ROMol* RDKit::MaeMolSupplier::next()’ at /<>/Code/GraphMol/FileParsers/MaeMolSupplier.cpp:525:14: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::{anonymous}::addAtoms(const schrodinger::mae::IndexedBlock&, RDKit::RWMol&)’ at /<>/Code/GraphMol/FileParsers/MaeMolSupplier.cpp:339:21, inlined from ‘void RDKit::{anonymous}::build_mol(RDKit::RWMol&, schrodinger::mae::Block&, bool, bool)’ at /<>/Code/GraphMol/FileParsers/MaeMolSupplier.cpp:382:11, inlined from ‘virtual RDKit::ROMol* RDKit::MaeMolSupplier::next()’ at /<>/Code/GraphMol/FileParsers/MaeMolSupplier.cpp:525:14: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 54%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SequenceWriters.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SequenceWriters.cpp.o -MF CMakeFiles/FileParsers.dir/SequenceWriters.cpp.o.d -o CMakeFiles/FileParsers.dir/SequenceWriters.cpp.o -c /<>/Code/GraphMol/FileParsers/SequenceWriters.cpp [ 54%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SVGParser.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SVGParser.cpp.o -MF CMakeFiles/FileParsers.dir/SVGParser.cpp.o.d -o CMakeFiles/FileParsers.dir/SVGParser.cpp.o -c /<>/Code/GraphMol/FileParsers/SVGParser.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/RDGeneral/types.h:27, from /<>/Code/GraphMol/FileParsers/MolWriters.h:15, from /<>/Code/GraphMol/FileParsers/MaeWriter.cpp:11: /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(iterator) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:181:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 181 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/GraphMol/FileParsers/SequenceParsers.cpp:13: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::__cxx11::basic_string]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::vector >]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void RDKit::Dict::clearVal(const std::string&)’ at /<>/Code/RDGeneral/Dict.h:320:20, inlined from ‘void RDKit::RDProps::clearComputedProps() const’ at /<>/Code/RDGeneral/RDProps.h:153:25, inlined from ‘void RDKit::{anonymous}::copyProperties(const RDKit::RDProps&, const RDKit::STR_VECT&, unsigned int, std::function&, unsigned int, bool)>, std::function&, unsigned int, int)>, std::function&, unsigned int, double)>, std::function&, unsigned int, const std::__cxx11::basic_string&)>)’ at /<>/Code/GraphMol/FileParsers/MaeWriter.cpp:141:28: /usr/include/c++/13/bits/stl_vector.h:1532:24: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1532 | { return _M_erase(begin() + (__position - cbegin())); } | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void RDKit::Dict::clearVal(const std::string&)’ at /<>/Code/RDGeneral/Dict.h:320:20, inlined from ‘void RDKit::RDProps::clearProp(const std::string&) const’ at /<>/Code/RDGeneral/RDProps.h:145:21: /usr/include/c++/13/bits/stl_vector.h:1532:24: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1532 | { return _M_erase(begin() + (__position - cbegin())); } | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 54%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PNGParser.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PNGParser.cpp.o -MF CMakeFiles/FileParsers.dir/PNGParser.cpp.o.d -o CMakeFiles/FileParsers.dir/PNGParser.cpp.o -c /<>/Code/GraphMol/FileParsers/PNGParser.cpp [ 54%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MultithreadedMolSupplier.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MultithreadedMolSupplier.cpp.o -MF CMakeFiles/FileParsers.dir/MultithreadedMolSupplier.cpp.o.d -o CMakeFiles/FileParsers.dir/MultithreadedMolSupplier.cpp.o -c /<>/Code/GraphMol/FileParsers/MultithreadedMolSupplier.cpp [ 54%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MultithreadedSmilesMolSupplier.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MultithreadedSmilesMolSupplier.cpp.o -MF CMakeFiles/FileParsers.dir/MultithreadedSmilesMolSupplier.cpp.o.d -o CMakeFiles/FileParsers.dir/MultithreadedSmilesMolSupplier.cpp.o -c /<>/Code/GraphMol/FileParsers/MultithreadedSmilesMolSupplier.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/RDGeneral/types.h:27, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/FileParsers/SVGParser.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const RDGeom::Point3D&}; _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::{anonymous}::ptreeToMol(RDKit::RWMol*, const boost::property_tree::ptree&)’ at /<>/Code/GraphMol/FileParsers/SVGParser.cpp:46:20, inlined from ‘RDKit::RWMol* RDKit::RDKitSVGToMol(std::istream*, bool, bool)’ at /<>/Code/GraphMol/FileParsers/SVGParser.cpp:88:17: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘void RDKit::{anonymous}::ptreeToMol(RDKit::RWMol*, const boost::property_tree::ptree&)’ at /<>/Code/GraphMol/FileParsers/SVGParser.cpp:68:48, inlined from ‘RDKit::RWMol* RDKit::RDKitSVGToMol(std::istream*, bool, bool)’ at /<>/Code/GraphMol/FileParsers/SVGParser.cpp:88:17: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::{anonymous}::ptreeToMol(RDKit::RWMol*, const boost::property_tree::ptree&)’ at /<>/Code/GraphMol/FileParsers/SVGParser.cpp:70:21, inlined from ‘RDKit::RWMol* RDKit::RDKitSVGToMol(std::istream*, bool, bool)’ at /<>/Code/GraphMol/FileParsers/SVGParser.cpp:88:17: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 54%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MultithreadedSDMolSupplier.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MultithreadedSDMolSupplier.cpp.o -MF CMakeFiles/FileParsers.dir/MultithreadedSDMolSupplier.cpp.o.d -o CMakeFiles/FileParsers.dir/MultithreadedSDMolSupplier.cpp.o -c /<>/Code/GraphMol/FileParsers/MultithreadedSDMolSupplier.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/boost/graph/adjacency_list.hpp:16, from /<>/Code/GraphMol/ROMol.h:29, from /<>/Code/GraphMol/RWMol.h:22, from /<>/Code/GraphMol/SmilesParse/SmilesParse.h:14, from /<>/Code/GraphMol/FileParsers/MultithreadedMolSupplier.h:14, from /<>/Code/GraphMol/FileParsers/MultithreadedSmilesMolSupplier.h:13, from /<>/Code/GraphMol/FileParsers/MultithreadedSmilesMolSupplier.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::__cxx11::basic_string]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /usr/include/boost/graph/adjacency_list.hpp:16, from /<>/Code/GraphMol/ROMol.h:29, from /<>/Code/GraphMol/RWMol.h:22, from /<>/Code/GraphMol/SmilesParse/SmilesParse.h:14, from /<>/Code/GraphMol/FileParsers/MultithreadedMolSupplier.h:14, from /<>/Code/GraphMol/FileParsers/MultithreadedSDMolSupplier.h:13, from /<>/Code/GraphMol/FileParsers/MultithreadedSDMolSupplier.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 54%] Linking CXX shared library ../../../lib/libRDKitFileParsers.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/FileParsers.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitFileParsers.so.1 -o ../../../lib/libRDKitFileParsers.so.1.2023.09.3 CMakeFiles/FileParsers.dir/CDXMLParser.cpp.o CMakeFiles/FileParsers.dir/Mol2FileParser.cpp.o CMakeFiles/FileParsers.dir/MolFileParser.cpp.o CMakeFiles/FileParsers.dir/MolSGroupParsing.cpp.o CMakeFiles/FileParsers.dir/MolSGroupWriting.cpp.o CMakeFiles/FileParsers.dir/MolFileStereochem.cpp.o CMakeFiles/FileParsers.dir/MolFileWriter.cpp.o CMakeFiles/FileParsers.dir/ForwardSDMolSupplier.cpp.o CMakeFiles/FileParsers.dir/SDMolSupplier.cpp.o CMakeFiles/FileParsers.dir/SDWriter.cpp.o CMakeFiles/FileParsers.dir/SmilesMolSupplier.cpp.o CMakeFiles/FileParsers.dir/SmilesWriter.cpp.o CMakeFiles/FileParsers.dir/TDTMolSupplier.cpp.o CMakeFiles/FileParsers.dir/TDTWriter.cpp.o CMakeFiles/FileParsers.dir/TplFileParser.cpp.o CMakeFiles/FileParsers.dir/TplFileWriter.cpp.o CMakeFiles/FileParsers.dir/PDBParser.cpp.o CMakeFiles/FileParsers.dir/PDBWriter.cpp.o CMakeFiles/FileParsers.dir/PDBSupplier.cpp.o CMakeFiles/FileParsers.dir/CMLWriter.cpp.o CMakeFiles/FileParsers.dir/XYZFileWriter.cpp.o CMakeFiles/FileParsers.dir/XYZFileParser.cpp.o CMakeFiles/FileParsers.dir/MaeMolSupplier.cpp.o CMakeFiles/FileParsers.dir/MaeWriter.cpp.o CMakeFiles/FileParsers.dir/ProximityBonds.cpp.o CMakeFiles/FileParsers.dir/SequenceParsers.cpp.o CMakeFiles/FileParsers.dir/SequenceWriters.cpp.o CMakeFiles/FileParsers.dir/SVGParser.cpp.o CMakeFiles/FileParsers.dir/PNGParser.cpp.o CMakeFiles/FileParsers.dir/MultithreadedMolSupplier.cpp.o CMakeFiles/FileParsers.dir/MultithreadedSmilesMolSupplier.cpp.o CMakeFiles/FileParsers.dir/MultithreadedSDMolSupplier.cpp.o ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1 ../../../lib/libRDKitFileParsers.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 54%] Built target FileParsers make -f External/CoordGen/CMakeFiles/testCoordGen.dir/build.make External/CoordGen/CMakeFiles/testCoordGen.dir/depend make -f Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build.make Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/depend make -f Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build.make Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/depend make -f Code/GraphMol/CMakeFiles/graphmolTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolTest1.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/External/CoordGen /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/External/CoordGen /<>/obj-arm-linux-gnueabihf/External/CoordGen/CMakeFiles/testCoordGen.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ForceField/UFF /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ForceField/UFF /<>/obj-arm-linux-gnueabihf/Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ForceField/MMFF /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ForceField/MMFF /<>/obj-arm-linux-gnueabihf/Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmolTest1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f External/CoordGen/CMakeFiles/testCoordGen.dir/build.make External/CoordGen/CMakeFiles/testCoordGen.dir/build make -f Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build.make Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build make -f Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build.make Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmolTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolTest1.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 54%] Building CXX object External/CoordGen/CMakeFiles/testCoordGen.dir/test.cpp.o [ 54%] Building CXX object Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/testUFFForceField.cpp.o cd /<>/obj-arm-linux-gnueabihf/External/CoordGen && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DIN_COORDGEN -DIN_MAEPARSER -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT External/CoordGen/CMakeFiles/testCoordGen.dir/test.cpp.o -MF CMakeFiles/testCoordGen.dir/test.cpp.o.d -o CMakeFiles/testCoordGen.dir/test.cpp.o -c /<>/External/CoordGen/test.cpp cd /<>/obj-arm-linux-gnueabihf/Code/ForceField/UFF && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/testUFFForceField.cpp.o -MF CMakeFiles/testUFFForceField.dir/testUFFForceField.cpp.o.d -o CMakeFiles/testUFFForceField.dir/testUFFForceField.cpp.o -c /<>/Code/ForceField/UFF/testUFFForceField.cpp [ 54%] Building CXX object Code/GraphMol/CMakeFiles/graphmolTest1.dir/test1.cpp.o [ 54%] Building CXX object Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/testMMFFForceField.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CMakeFiles/graphmolTest1.dir/test1.cpp.o -MF CMakeFiles/graphmolTest1.dir/test1.cpp.o.d -o CMakeFiles/graphmolTest1.dir/test1.cpp.o -c /<>/Code/GraphMol/test1.cpp cd /<>/obj-arm-linux-gnueabihf/Code/ForceField/MMFF && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/testMMFFForceField.cpp.o -MF CMakeFiles/testMMFFForceField.dir/testMMFFForceField.cpp.o.d -o CMakeFiles/testMMFFForceField.dir/testMMFFForceField.cpp.o -c /<>/Code/ForceField/MMFF/testMMFFForceField.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/External/CoordGen/test.cpp:13: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/ForceField/UFF/testUFFForceField.cpp:14: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double&, double&}; _Tp = std::pair; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/test1.cpp:12: /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(iterator) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:181:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 181 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::__cxx11::basic_string]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double&, double&}; _Tp = std::pair; _Alloc = std::allocator >]’, inlined from ‘void testUFFButaneScan()’ at /<>/Code/ForceField/UFF/testUFFForceField.cpp:1687:32: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/ForceField/MMFF/testMMFFForceField.cpp:13: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double&, double&}; _Tp = std::pair; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double&, double&}; _Tp = std::pair; _Alloc = std::allocator >]’, inlined from ‘void testMMFFButaneScan()’ at /<>/Code/ForceField/MMFF/testMMFFForceField.cpp:1895:32: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void testMMFFTorsionConstraints()’ at /<>/Code/ForceField/MMFF/testMMFFForceField.cpp:1689:16: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 54%] Linking CXX executable testCoordGen cd /<>/obj-arm-linux-gnueabihf/External/CoordGen && /usr/bin/cmake -E cmake_link_script CMakeFiles/testCoordGen.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testCoordGen.dir/test.cpp.o -o testCoordGen /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../lib/libRDKitAlignment.so.1.2023.09.3 ../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 -ldl /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 54%] Built target testCoordGen make -f Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 54%] Building CXX object Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/molopstest.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/molopstest.cpp.o -MF CMakeFiles/graphmolMolOpsTest.dir/molopstest.cpp.o.d -o CMakeFiles/graphmolMolOpsTest.dir/molopstest.cpp.o -c /<>/Code/GraphMol/molopstest.cpp [ 54%] Linking CXX executable testUFFForceField cd /<>/obj-arm-linux-gnueabihf/Code/ForceField/UFF && /usr/bin/cmake -E cmake_link_script CMakeFiles/testUFFForceField.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testUFFForceField.dir/testUFFForceField.cpp.o -o testUFFForceField ../../../lib/libRDKitForceFieldHelpers.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitForceField.so.1.2023.09.3 ../../../lib/libRDKitOptimizer.so.1.2023.09.3 ../../../lib/libRDKitTrajectory.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 54%] Built target testUFFForceField make -f Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 54%] Building CXX object Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/testChirality.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/testChirality.cpp.o -MF CMakeFiles/graphmoltestChirality.dir/testChirality.cpp.o.d -o CMakeFiles/graphmoltestChirality.dir/testChirality.cpp.o -c /<>/Code/GraphMol/testChirality.cpp /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void RDKit::Dict::clearVal(const std::string&)’ at /<>/Code/RDGeneral/Dict.h:320:20, inlined from ‘void RDKit::RDProps::clearComputedProps() const’ at /<>/Code/RDGeneral/RDProps.h:153:25: /usr/include/c++/13/bits/stl_vector.h:1532:24: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1532 | { return _M_erase(begin() + (__position - cbegin())); } | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void RDKit::Dict::clearVal(const std::string&)’ at /<>/Code/RDGeneral/Dict.h:320:20, inlined from ‘void RDKit::RDProps::clearProp(const std::string&) const’ at /<>/Code/RDGeneral/RDProps.h:145:21: /usr/include/c++/13/bits/stl_vector.h:1532:24: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1532 | { return _M_erase(begin() + (__position - cbegin())); } | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 54%] Linking CXX executable graphmolTest1 cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolTest1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/graphmolTest1.dir/test1.cpp.o -o graphmolTest1 ../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../lib/libRDKitForceFieldHelpers.so.1.2023.09.3 ../../lib/libRDKitForceField.so.1.2023.09.3 ../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../lib/libRDKitAlignment.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../lib/libRDKitOptimizer.so.1.2023.09.3 ../../lib/libRDKitTrajectory.so.1.2023.09.3 ../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 -ldl /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 54%] Built target graphmolTest1 make -f Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 54%] Building CXX object Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/testPickler.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/testPickler.cpp.o -MF CMakeFiles/graphmoltestPickler.dir/testPickler.cpp.o.d -o CMakeFiles/graphmoltestPickler.dir/testPickler.cpp.o -c /<>/Code/GraphMol/testPickler.cpp [ 54%] Linking CXX executable testMMFFForceField cd /<>/obj-arm-linux-gnueabihf/Code/ForceField/MMFF && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMMFFForceField.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testMMFFForceField.dir/testMMFFForceField.cpp.o -o testMMFFForceField ../../../lib/libRDKitDistGeomHelpers.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitDistGeometry.so.1.2023.09.3 ../../../lib/libRDKitForceFieldHelpers.so.1.2023.09.3 ../../../lib/libRDKitForceField.so.1.2023.09.3 ../../../lib/libRDKitOptimizer.so.1.2023.09.3 ../../../lib/libRDKitTrajectory.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libcoordgen.so /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 54%] Built target testMMFFForceField make -f Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 54%] Building CXX object Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/testPicklerGlobalSettings.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/testPicklerGlobalSettings.cpp.o -MF CMakeFiles/graphmoltestPicklerGlobalSetting.dir/testPicklerGlobalSettings.cpp.o.d -o CMakeFiles/graphmoltestPicklerGlobalSetting.dir/testPicklerGlobalSettings.cpp.o -c /<>/Code/GraphMol/testPicklerGlobalSettings.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/RDGeneral/types.h:27, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/testChirality.cpp:14: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setPODVal(const std::string&, T) [with T = int]’ at /<>/Code/RDGeneral/Dict.h:285:20, inlined from ‘void RDKit::Dict::setVal(const std::string&, int)’ at /<>/Code/RDGeneral/Dict.h:294:60, inlined from ‘void RDKit::RDProps::setProp(const std::string&, T, bool) const [with T = int]’ at /<>/Code/RDGeneral/RDProps.h:86:19, inlined from ‘void TestAssignChiralTypesFromMolParity::assignMolParity()’ at /<>/Code/GraphMol/testChirality.cpp:2819:21: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/RDGeneral/types.h:27, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/testPicklerGlobalSettings.cpp:33: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void testGlobalPickleProps()’ at /<>/Code/GraphMol/testPicklerGlobalSettings.cpp:60:14: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void testGlobalPickleProps()’ at /<>/Code/GraphMol/testPicklerGlobalSettings.cpp:61:14: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void testGlobalPickleProps()’ at /<>/Code/GraphMol/testPicklerGlobalSettings.cpp:62:14: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/RDGeneral/types.h:27, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/testPickler.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ [ 54%] Linking CXX executable graphmoltestPicklerGlobalSetting cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmoltestPicklerGlobalSetting.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/graphmoltestPicklerGlobalSetting.dir/testPicklerGlobalSettings.cpp.o -o graphmoltestPicklerGlobalSetting ../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../lib/libRDKitAlignment.so.1.2023.09.3 ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 54%] Built target graphmoltestPicklerGlobalSetting make -f Code/GraphMol/CMakeFiles/hanoiTest.dir/build.make Code/GraphMol/CMakeFiles/hanoiTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/hanoiTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/hanoiTest.dir/build.make Code/GraphMol/CMakeFiles/hanoiTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 54%] Building CXX object Code/GraphMol/CMakeFiles/hanoiTest.dir/hanoitest.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CMakeFiles/hanoiTest.dir/hanoitest.cpp.o -MF CMakeFiles/hanoiTest.dir/hanoitest.cpp.o.d -o CMakeFiles/hanoiTest.dir/hanoitest.cpp.o -c /<>/Code/GraphMol/hanoitest.cpp In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘void testIssue219()’ at /<>/Code/GraphMol/testPickler.cpp:311:31: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘void testGithubIssue2510()’ at /<>/Code/GraphMol/testPickler.cpp:1513:31: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void testGithubIssue2510()’ at /<>/Code/GraphMol/testPickler.cpp:1519:19: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘void testGithub2441()’ at /<>/Code/GraphMol/testPickler.cpp:1438:31: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘void testGithub2441()’ at /<>/Code/GraphMol/testPickler.cpp:1442:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void testPickleProps()’ at /<>/Code/GraphMol/testPickler.cpp:1085:14: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void testPickleProps()’ at /<>/Code/GraphMol/testPickler.cpp:1086:14: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void testPickleProps()’ at /<>/Code/GraphMol/testPickler.cpp:1087:14: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 54%] Linking CXX executable graphmoltestChirality cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmoltestChirality.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/graphmoltestChirality.dir/testChirality.cpp.o -o graphmoltestChirality ../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../lib/libRDKitAlignment.so.1.2023.09.3 ../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 54%] Built target graphmoltestChirality make -f Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build.make Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build.make Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 54%] Building CXX object Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/resMolSupplierTest.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/resMolSupplierTest.cpp.o -MF CMakeFiles/resMolSupplierTest.dir/resMolSupplierTest.cpp.o.d -o CMakeFiles/resMolSupplierTest.dir/resMolSupplierTest.cpp.o -c /<>/Code/GraphMol/resMolSupplierTest.cpp [ 55%] Linking CXX executable hanoiTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/hanoiTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/hanoiTest.dir/hanoitest.cpp.o -o hanoiTest ../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../lib/libRDKitAlignment.so.1.2023.09.3 ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 55%] Built target hanoiTest make -f Code/GraphMol/CMakeFiles/molBundleTest.dir/build.make Code/GraphMol/CMakeFiles/molBundleTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/molBundleTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/molBundleTest.dir/build.make Code/GraphMol/CMakeFiles/molBundleTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 55%] Building CXX object Code/GraphMol/CMakeFiles/molBundleTest.dir/testMolBundle.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CMakeFiles/molBundleTest.dir/testMolBundle.cpp.o -MF CMakeFiles/molBundleTest.dir/testMolBundle.cpp.o.d -o CMakeFiles/molBundleTest.dir/testMolBundle.cpp.o -c /<>/Code/GraphMol/testMolBundle.cpp [ 55%] Linking CXX executable graphmoltestPickler cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmoltestPickler.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/graphmoltestPickler.dir/testPickler.cpp.o -o graphmoltestPickler ../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../lib/libRDKitAlignment.so.1.2023.09.3 ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 55%] Built target graphmoltestPickler make -f Code/GraphMol/CMakeFiles/testSGroup.dir/build.make Code/GraphMol/CMakeFiles/testSGroup.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/testSGroup.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/testSGroup.dir/build.make Code/GraphMol/CMakeFiles/testSGroup.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 55%] Building CXX object Code/GraphMol/CMakeFiles/testSGroup.dir/testSGroup.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CMakeFiles/testSGroup.dir/testSGroup.cpp.o -MF CMakeFiles/testSGroup.dir/testSGroup.cpp.o.d -o CMakeFiles/testSGroup.dir/testSGroup.cpp.o -c /<>/Code/GraphMol/testSGroup.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/c++/13/bits/random.h:34, from /usr/include/c++/13/random:51, from /<>/Code/GraphMol/molopstest.cpp:14: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘void testAddConformers()’ at /<>/Code/GraphMol/molopstest.cpp:2442:33: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void testAddConformers()’ at /<>/Code/GraphMol/molopstest.cpp:2443:21: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void testAddConformers()’ at /<>/Code/GraphMol/molopstest.cpp:2444:21: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘void testGithubIssue678()’ at /<>/Code/GraphMol/molopstest.cpp:6288:33: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘void testIssue212()’ at /<>/Code/GraphMol/molopstest.cpp:1990:31: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void testIssue212()’ at /<>/Code/GraphMol/molopstest.cpp:1992:19: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘void testAddHsCoords()’ at /<>/Code/GraphMol/molopstest.cpp:2024:31: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void testAddHsCoords()’ at /<>/Code/GraphMol/molopstest.cpp:2026:19: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 55%] Linking CXX executable resMolSupplierTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/resMolSupplierTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/resMolSupplierTest.dir/resMolSupplierTest.cpp.o -o resMolSupplierTest ../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../lib/libRDKitAlignment.so.1.2023.09.3 ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 55%] Built target resMolSupplierTest make -f Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 55%] Building CXX object Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/catch_graphmol.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/catch_graphmol.cpp.o -MF CMakeFiles/graphmolTestsCatch.dir/catch_graphmol.cpp.o.d -o CMakeFiles/graphmolTestsCatch.dir/catch_graphmol.cpp.o -c /<>/Code/GraphMol/catch_graphmol.cpp [ 56%] Linking CXX executable molBundleTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/molBundleTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/molBundleTest.dir/testMolBundle.cpp.o -o molBundleTest ../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../lib/libRDKitAlignment.so.1.2023.09.3 ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 56%] Built target molBundleTest make -f Code/GraphMol/CMakeFiles/graphmolOrganometallicsCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolOrganometallicsCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmolOrganometallicsCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmolOrganometallicsCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolOrganometallicsCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 56%] Building CXX object Code/GraphMol/CMakeFiles/graphmolOrganometallicsCatch.dir/catch_organometallics.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CMakeFiles/graphmolOrganometallicsCatch.dir/catch_organometallics.cpp.o -MF CMakeFiles/graphmolOrganometallicsCatch.dir/catch_organometallics.cpp.o.d -o CMakeFiles/graphmolOrganometallicsCatch.dir/catch_organometallics.cpp.o -c /<>/Code/GraphMol/catch_organometallics.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/GraphMol/testSGroup.cpp:13: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setPODVal(const std::string&, T) [with T = int]’ at /<>/Code/RDGeneral/Dict.h:285:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 57%] Linking CXX executable graphmolOrganometallicsCatch cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolOrganometallicsCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/graphmolOrganometallicsCatch.dir/catch_organometallics.cpp.o -o graphmolOrganometallicsCatch ../RDGeneral/librdkitCatch.a ../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/libCatch2.a ../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../lib/libRDKitAlignment.so.1.2023.09.3 ../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 57%] Built target graphmolOrganometallicsCatch make -f Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 57%] Building CXX object Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/catch_sgroups.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/catch_sgroups.cpp.o -MF CMakeFiles/graphmolSGroupCatch.dir/catch_sgroups.cpp.o.d -o CMakeFiles/graphmolSGroupCatch.dir/catch_sgroups.cpp.o -c /<>/Code/GraphMol/catch_sgroups.cpp [ 57%] Linking CXX executable testSGroup cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSGroup.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testSGroup.dir/testSGroup.cpp.o -o testSGroup ../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../lib/libRDKitAlignment.so.1.2023.09.3 ../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 57%] Built target testSGroup make -f Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 58%] Building CXX object Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/catch_adjustquery.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/catch_adjustquery.cpp.o -MF CMakeFiles/graphmolAdjustQueryCatch.dir/catch_adjustquery.cpp.o.d -o CMakeFiles/graphmolAdjustQueryCatch.dir/catch_adjustquery.cpp.o -c /<>/Code/GraphMol/catch_adjustquery.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/catch2/interfaces/catch_interfaces_config.hpp:17, from /usr/include/catch2/benchmark/catch_benchmark.hpp:20, from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, from /usr/include/catch2/catch_all.hpp:25, from /<>/Code/GraphMol/catch_sgroups.cpp:12: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 58%] Linking CXX executable graphmolSGroupCatch cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolSGroupCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/graphmolSGroupCatch.dir/catch_sgroups.cpp.o -o graphmolSGroupCatch ../RDGeneral/librdkitCatch.a ../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/libCatch2.a ../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../lib/libRDKitAlignment.so.1.2023.09.3 ../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 58%] Built target graphmolSGroupCatch make -f Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 58%] Building CXX object Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/catch_chirality.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/catch_chirality.cpp.o -MF CMakeFiles/chiralityTestsCatch.dir/catch_chirality.cpp.o.d -o CMakeFiles/chiralityTestsCatch.dir/catch_chirality.cpp.o -c /<>/Code/GraphMol/catch_chirality.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/catch2/interfaces/catch_interfaces_config.hpp:17, from /usr/include/catch2/benchmark/catch_benchmark.hpp:20, from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, from /usr/include/catch2/catch_all.hpp:25, from /<>/Code/GraphMol/catch_graphmol.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘void CATCH2_INTERNAL_TEST_35()’ at /<>/Code/GraphMol/catch_graphmol.cpp:263:34: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void CATCH2_INTERNAL_TEST_35()’ at /<>/Code/GraphMol/catch_graphmol.cpp:265:23: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /usr/include/catch2/interfaces/catch_interfaces_config.hpp:17, from /usr/include/catch2/benchmark/catch_benchmark.hpp:20, from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, from /usr/include/catch2/catch_all.hpp:25, from /<>/Code/GraphMol/catch_adjustquery.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setPODVal(const std::string&, T) [with T = int]’ at /<>/Code/RDGeneral/Dict.h:285:20, inlined from ‘void RDKit::Dict::setVal(const std::string&, int)’ at /<>/Code/RDGeneral/Dict.h:294:60, inlined from ‘void RDKit::RDProps::setProp(const std::string&, T, bool) const [with T = int]’ at /<>/Code/RDGeneral/RDProps.h:86:19, inlined from ‘void CATCH2_INTERNAL_TEST_0()’ at /<>/Code/GraphMol/catch_adjustquery.cpp:294:47: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 58%] Linking CXX executable graphmolMolOpsTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolMolOpsTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/graphmolMolOpsTest.dir/molopstest.cpp.o -o graphmolMolOpsTest ../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../lib/libRDKitAlignment.so.1.2023.09.3 ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 58%] Built target graphmolMolOpsTest make -f Code/GraphMol/CMakeFiles/canonTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/canonTestsCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/canonTestsCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/canonTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/canonTestsCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 58%] Building CXX object Code/GraphMol/CMakeFiles/canonTestsCatch.dir/catch_canon.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CMakeFiles/canonTestsCatch.dir/catch_canon.cpp.o -MF CMakeFiles/canonTestsCatch.dir/catch_canon.cpp.o.d -o CMakeFiles/canonTestsCatch.dir/catch_canon.cpp.o -c /<>/Code/GraphMol/catch_canon.cpp [ 58%] Linking CXX executable graphmolAdjustQueryCatch cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolAdjustQueryCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/graphmolAdjustQueryCatch.dir/catch_adjustquery.cpp.o -o graphmolAdjustQueryCatch ../RDGeneral/librdkitCatch.a ../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/libCatch2.a ../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../lib/libRDKitAlignment.so.1.2023.09.3 ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 58%] Built target graphmolAdjustQueryCatch make -f Code/GraphMol/CMakeFiles/pickleTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/pickleTestsCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/pickleTestsCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/pickleTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/pickleTestsCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 58%] Building CXX object Code/GraphMol/CMakeFiles/pickleTestsCatch.dir/catch_pickles.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CMakeFiles/pickleTestsCatch.dir/catch_pickles.cpp.o -MF CMakeFiles/pickleTestsCatch.dir/catch_pickles.cpp.o.d -o CMakeFiles/pickleTestsCatch.dir/catch_pickles.cpp.o -c /<>/Code/GraphMol/catch_pickles.cpp [ 58%] Linking CXX executable graphmolTestsCatch cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolTestsCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/graphmolTestsCatch.dir/catch_graphmol.cpp.o -o graphmolTestsCatch ../RDGeneral/librdkitCatch.a ../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/libCatch2.a ../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../lib/libRDKitAlignment.so.1.2023.09.3 ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so In file included from /usr/include/c++/13/vector:72, from /usr/include/catch2/interfaces/catch_interfaces_config.hpp:17, from /usr/include/catch2/benchmark/catch_benchmark.hpp:20, from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, from /usr/include/catch2/catch_all.hpp:25, from /<>/Code/GraphMol/catch_pickles.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 58%] Built target graphmolTestsCatch make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 58%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/test.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/test.cpp.o -MF CMakeFiles/smiTest1.dir/test.cpp.o.d -o CMakeFiles/smiTest1.dir/test.cpp.o -c /<>/Code/GraphMol/SmilesParse/test.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/catch2/interfaces/catch_interfaces_config.hpp:17, from /usr/include/catch2/benchmark/catch_benchmark.hpp:20, from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, from /usr/include/catch2/catch_all.hpp:25, from /<>/Code/GraphMol/catch_canon.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::vector >]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 58%] Linking CXX executable canonTestsCatch cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/canonTestsCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/canonTestsCatch.dir/catch_canon.cpp.o -o canonTestsCatch ../RDGeneral/librdkitCatch.a ../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/libCatch2.a ../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../lib/libRDKitAlignment.so.1.2023.09.3 ../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so [ 58%] Linking CXX executable pickleTestsCatch cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/pickleTestsCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/pickleTestsCatch.dir/catch_pickles.cpp.o -o pickleTestsCatch ../RDGeneral/librdkitCatch.a ../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/libCatch2.a ../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../lib/libRDKitAlignment.so.1.2023.09.3 ../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 58%] Built target canonTestsCatch make -f Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 58%] Built target pickleTestsCatch make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/DependInfo.cmake "--color=" [ 58%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/cxsmiles_test.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/cxsmiles_test.cpp.o -MF CMakeFiles/cxsmilesTest.dir/cxsmiles_test.cpp.o.d -o CMakeFiles/cxsmilesTest.dir/cxsmiles_test.cpp.o -c /<>/Code/GraphMol/SmilesParse/cxsmiles_test.cpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 58%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/catch_tests.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/catch_tests.cpp.o -MF CMakeFiles/smiTestCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/smiTestCatch.dir/catch_tests.cpp.o -c /<>/Code/GraphMol/SmilesParse/catch_tests.cpp [ 58%] Linking CXX executable cxsmilesTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/cxsmilesTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/cxsmilesTest.dir/cxsmiles_test.cpp.o -o cxsmilesTest ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 58%] Built target cxsmilesTest make -f Code/GraphMol/SmilesParse/CMakeFiles/nontetrahedralCatch.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/nontetrahedralCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse/CMakeFiles/nontetrahedralCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SmilesParse/CMakeFiles/nontetrahedralCatch.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/nontetrahedralCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 58%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/nontetrahedralCatch.dir/nontetrahedral_tests.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/SmilesParse/CMakeFiles/nontetrahedralCatch.dir/nontetrahedral_tests.cpp.o -MF CMakeFiles/nontetrahedralCatch.dir/nontetrahedral_tests.cpp.o.d -o CMakeFiles/nontetrahedralCatch.dir/nontetrahedral_tests.cpp.o -c /<>/Code/GraphMol/SmilesParse/nontetrahedral_tests.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/catch2/interfaces/catch_interfaces_config.hpp:17, from /usr/include/catch2/benchmark/catch_benchmark.hpp:20, from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, from /usr/include/catch2/catch_all.hpp:25, from /<>/Code/GraphMol/SmilesParse/catch_tests.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/SmilesParse/test.cpp:13: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::__cxx11::basic_string]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /usr/include/catch2/interfaces/catch_interfaces_config.hpp:17, from /usr/include/catch2/benchmark/catch_benchmark.hpp:20, from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, from /usr/include/catch2/catch_all.hpp:25, from /<>/Code/GraphMol/SmilesParse/nontetrahedral_tests.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 59%] Linking CXX executable nontetrahedralCatch cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/nontetrahedralCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/nontetrahedralCatch.dir/nontetrahedral_tests.cpp.o -o nontetrahedralCatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 59%] Built target nontetrahedralCatch make -f Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Depictor /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 59%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/testDepictor.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DIN_COORDGEN -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/testDepictor.cpp.o -MF CMakeFiles/testDepictor.dir/testDepictor.cpp.o.d -o CMakeFiles/testDepictor.dir/testDepictor.cpp.o -c /<>/Code/GraphMol/Depictor/testDepictor.cpp [ 60%] Linking CXX executable chiralityTestsCatch cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/chiralityTestsCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/chiralityTestsCatch.dir/catch_chirality.cpp.o -o chiralityTestsCatch ../RDGeneral/librdkitCatch.a ../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/libCatch2.a ../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../lib/libRDKitAlignment.so.1.2023.09.3 ../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 60%] Built target chiralityTestsCatch make -f Code/GraphMol/Depictor/CMakeFiles/depictorCatch.dir/build.make Code/GraphMol/Depictor/CMakeFiles/depictorCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Depictor /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor/CMakeFiles/depictorCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Depictor/CMakeFiles/depictorCatch.dir/build.make Code/GraphMol/Depictor/CMakeFiles/depictorCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 60%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/depictorCatch.dir/catch_tests.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DIN_COORDGEN -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/Depictor/CMakeFiles/depictorCatch.dir/catch_tests.cpp.o -MF CMakeFiles/depictorCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/depictorCatch.dir/catch_tests.cpp.o -c /<>/Code/GraphMol/Depictor/catch_tests.cpp [ 60%] Linking CXX executable smiTest1 cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/smiTest1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/smiTest1.dir/test.cpp.o -o smiTest1 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 60%] Built target smiTest1 make -f Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 60%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Crippen.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Crippen.cpp.o -MF CMakeFiles/Descriptors.dir/Crippen.cpp.o.d -o CMakeFiles/Descriptors.dir/Crippen.cpp.o -c /<>/Code/GraphMol/Descriptors/Crippen.cpp In file included from /usr/include/c++/13/set:62, from /<>/Code/Query/SetQuery.h:13, from /<>/Code/Query/QueryObjects.h:29, from /<>/Code/GraphMol/Atom.h:24, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/Depictor/testDepictor.cpp:13: /usr/include/c++/13/bits/stl_tree.h: In function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/stl_tree.h:2458:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 2458 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/map:63, from /<>/Code/RDGeneral/Dict.h:19, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/GraphMol/Atom.h:25: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void test4()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:257:11: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void test4()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:258:11: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void test4()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:259:11: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void test4()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:260:11: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void test4()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:261:11: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void test4()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:262:11: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void test4()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:263:11: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void test4()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:298:11: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void test4()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:299:11: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void test4()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:300:11: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void test4()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:311:11: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void test4()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:312:11: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void test4()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:313:11: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void test4()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:314:11: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void test4()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:315:11: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void test4()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:316:11: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void test4()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:317:11: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void test4()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:318:11: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void test4()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:319:11: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void test4()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:320:11: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void test4()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:321:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void test4()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:322:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testIssue2091304()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:459:11: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testIssue2303566()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:469:11: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testIssue2303566()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:470:11: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testIssue2303566()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:471:11: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testIssue2303566()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:472:11: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testIssue2303566()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:473:11: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testIssue2303566()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:474:11: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testIssue3122141()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:646:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testIssue3135833()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:663:14: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testIssue3135833()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:664:14: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testIssue3135833()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:665:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testIssue3135833()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:666:14: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testIssue3135833()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:667:14: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testIssue3135833()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:668:14: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testIssue3135833()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:669:14: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testIssue3135833()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:670:14: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testIssue3135833()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:671:14: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testIssue3135833()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:672:14: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testIssue3135833()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:673:14: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point2D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testIssue3135833()’ at /<>/Code/GraphMol/Depictor/testDepictor.cpp:674:14: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ [ 60%] Linking CXX executable smiTestCatch cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/smiTestCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/smiTestCatch.dir/catch_tests.cpp.o -o smiTestCatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 60%] Built target smiTestCatch make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 60%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/test1.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/test1.cpp.o -MF CMakeFiles/fileParsersTest1.dir/test1.cpp.o.d -o CMakeFiles/fileParsersTest1.dir/test1.cpp.o -c /<>/Code/GraphMol/FileParsers/test1.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/Descriptors/Crippen.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const RDKit::Descriptors::CrippenParams&}; _Tp = RDKit::Descriptors::CrippenParams; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDKit::Descriptors::CrippenParams; _Alloc = std::allocator]’, inlined from ‘RDKit::Descriptors::CrippenParamCollection::CrippenParamCollection(const std::string&)’ at /<>/Code/GraphMol/Descriptors/Crippen.cpp:186:25: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 60%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/BCUT.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/BCUT.cpp.o -MF CMakeFiles/Descriptors.dir/BCUT.cpp.o.d -o CMakeFiles/Descriptors.dir/BCUT.cpp.o -c /<>/Code/GraphMol/Descriptors/BCUT.cpp [ 60%] Linking CXX executable testDepictor cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDepictor.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testDepictor.dir/testDepictor.cpp.o -o testDepictor ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 60%] Built target testDepictor make -f Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 60%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/testMolSupplier.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/testMolSupplier.cpp.o -MF CMakeFiles/testMolSupplier.dir/testMolSupplier.cpp.o.d -o CMakeFiles/testMolSupplier.dir/testMolSupplier.cpp.o -c /<>/Code/GraphMol/FileParsers/testMolSupplier.cpp /<>/Code/GraphMol/Descriptors/BCUT.cpp: In function ‘std::pair RDKit::Descriptors::{anonymous}::BCUT2D(std::unique_ptr >&, const std::vector&)’: /<>/Code/GraphMol/Descriptors/BCUT.cpp:70:71: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 70 | const std::vector &atom_props) { | ^ In file included from /usr/include/c++/13/vector:72, from /<>/Code/GraphMol/Descriptors/BCUT.h:14, from /<>/Code/GraphMol/Descriptors/BCUT.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/FileParsers/testMolSupplier.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const std::fpos<__mbstate_t>&}; _Tp = std::fpos<__mbstate_t>; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = std::fpos<__mbstate_t>; _Alloc = std::allocator >]’, inlined from ‘void testSetStreamIndices()’ at /<>/Code/GraphMol/FileParsers/testMolSupplier.cpp:1780:26: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::vector]’ at /<>/Code/RDGeneral/Dict.h:270:20, inlined from ‘void RDKit::RDProps::setProp(const std::string&, T, bool) const [with T = std::vector]’ at /<>/Code/RDGeneral/RDProps.h:86:19, inlined from ‘void testGitHub23()’ at /<>/Code/GraphMol/FileParsers/testMolSupplier.cpp:2490:15: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘std::pair RDKit::Descriptors::BCUT2D(const RDKit::ROMol&, const std::string&)’ at /<>/Code/GraphMol/Descriptors/BCUT.cpp:104:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘std::vector RDKit::Descriptors::BCUT2D(const RDKit::ROMol&)’ at /<>/Code/GraphMol/Descriptors/BCUT.cpp:123:21: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘std::vector RDKit::Descriptors::BCUT2D(const RDKit::ROMol&)’ at /<>/Code/GraphMol/Descriptors/BCUT.cpp:124:22: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 60%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MolDescriptors.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MolDescriptors.cpp.o -MF CMakeFiles/Descriptors.dir/MolDescriptors.cpp.o.d -o CMakeFiles/Descriptors.dir/MolDescriptors.cpp.o -c /<>/Code/GraphMol/Descriptors/MolDescriptors.cpp [ 60%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MolSurf.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 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/usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 60%] Built target depictorCatch make -f Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 60%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/testGeneralFileReader.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/testGeneralFileReader.cpp.o -MF CMakeFiles/testGeneralFileReader.dir/testGeneralFileReader.cpp.o.d -o CMakeFiles/testGeneralFileReader.dir/testGeneralFileReader.cpp.o -c /<>/Code/GraphMol/FileParsers/testGeneralFileReader.cpp [ 61%] Linking CXX executable testMolSupplier cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolSupplier.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testMolSupplier.dir/testMolSupplier.cpp.o -o testMolSupplier ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitRDStreams.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 61%] Built target testMolSupplier make -f Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 62%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/testMultithreadedMolSupplier.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/testMultithreadedMolSupplier.cpp.o -MF CMakeFiles/testMultithreadedMolSupplier.dir/testMultithreadedMolSupplier.cpp.o.d -o CMakeFiles/testMultithreadedMolSupplier.dir/testMultithreadedMolSupplier.cpp.o -c /<>/Code/GraphMol/FileParsers/testMultithreadedMolSupplier.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/GraphMol/FileParsers/test1.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void testIssue2963522()’ at /<>/Code/GraphMol/FileParsers/test1.cpp:2667:21: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void testIssue2963522()’ at /<>/Code/GraphMol/FileParsers/test1.cpp:2668:21: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void testIssue2963522()’ at /<>/Code/GraphMol/FileParsers/test1.cpp:2669:21: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void testIssue2963522()’ at /<>/Code/GraphMol/FileParsers/test1.cpp:2670:21: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void testIssue2963522()’ at /<>/Code/GraphMol/FileParsers/test1.cpp:2691:21: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void testIssue2963522()’ at /<>/Code/GraphMol/FileParsers/test1.cpp:2692:21: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void testIssue2963522()’ at /<>/Code/GraphMol/FileParsers/test1.cpp:2693:21: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void testIssue2963522()’ at /<>/Code/GraphMol/FileParsers/test1.cpp:2694:21: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/Descriptors/MolSurf.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 62%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Lipinski.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Lipinski.cpp.o -MF CMakeFiles/Descriptors.dir/Lipinski.cpp.o.d -o CMakeFiles/Descriptors.dir/Lipinski.cpp.o -c /<>/Code/GraphMol/Descriptors/Lipinski.cpp [ 62%] Linking CXX executable testGeneralFileReader cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testGeneralFileReader.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testGeneralFileReader.dir/testGeneralFileReader.cpp.o -o testGeneralFileReader ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitRDStreams.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 62%] Built target testGeneralFileReader make -f Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 62%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/testMolWriter.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/testMolWriter.cpp.o -MF CMakeFiles/testMolWriter.dir/testMolWriter.cpp.o.d -o CMakeFiles/testMolWriter.dir/testMolWriter.cpp.o -c /<>/Code/GraphMol/FileParsers/testMolWriter.cpp [ 62%] Linking CXX executable testMultithreadedMolSupplier cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMultithreadedMolSupplier.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testMultithreadedMolSupplier.dir/testMultithreadedMolSupplier.cpp.o -o testMultithreadedMolSupplier ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitRDStreams.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 -ldl /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 62%] Built target testMultithreadedMolSupplier make -f Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 62%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/testTpls.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/testTpls.cpp.o -MF CMakeFiles/testTplParser.dir/testTpls.cpp.o.d -o CMakeFiles/testTplParser.dir/testTpls.cpp.o -c /<>/Code/GraphMol/FileParsers/testTpls.cpp [ 62%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/ConnectivityDescriptors.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/ConnectivityDescriptors.cpp.o -MF CMakeFiles/Descriptors.dir/ConnectivityDescriptors.cpp.o.d -o CMakeFiles/Descriptors.dir/ConnectivityDescriptors.cpp.o -c /<>/Code/GraphMol/Descriptors/ConnectivityDescriptors.cpp [ 62%] Linking CXX executable testTplParser cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testTplParser.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testTplParser.dir/testTpls.cpp.o -o testTplParser ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 62%] Built target testTplParser make -f Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 63%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/testMol2ToMol.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/testMol2ToMol.cpp.o -MF CMakeFiles/testMol2ToMol.dir/testMol2ToMol.cpp.o.d -o CMakeFiles/testMol2ToMol.dir/testMol2ToMol.cpp.o -c /<>/Code/GraphMol/FileParsers/testMol2ToMol.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/FileParsers/testMolWriter.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/Descriptors/ConnectivityDescriptors.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 64%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MQN.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MQN.cpp.o -MF CMakeFiles/Descriptors.dir/MQN.cpp.o.d -o CMakeFiles/Descriptors.dir/MQN.cpp.o -c /<>/Code/GraphMol/Descriptors/MQN.cpp In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘void testIssue265()’ at /<>/Code/GraphMol/FileParsers/testMolWriter.cpp:673:49: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void testIssue265()’ at /<>/Code/GraphMol/FileParsers/testMolWriter.cpp:677:21: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void testIssue265()’ at /<>/Code/GraphMol/FileParsers/testMolWriter.cpp:678:21: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void testIssue265()’ at /<>/Code/GraphMol/FileParsers/testMolWriter.cpp:679:21: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 65%] Linking CXX executable fileParsersTest1 cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/fileParsersTest1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/fileParsersTest1.dir/test1.cpp.o -o fileParsersTest1 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Built target fileParsersTest1 make -f Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/testSequence.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/testSequence.cpp.o -MF CMakeFiles/testSequence.dir/testSequence.cpp.o.d -o CMakeFiles/testSequence.dir/testSequence.cpp.o -c /<>/Code/GraphMol/FileParsers/testSequence.cpp [ 65%] Linking CXX executable testMol2ToMol cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMol2ToMol.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testMol2ToMol.dir/testMol2ToMol.cpp.o -o testMol2ToMol ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Built target testMol2ToMol make -f Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/testExtendedStereoParsing.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/testExtendedStereoParsing.cpp.o -MF CMakeFiles/testExtendedStereoParsing.dir/testExtendedStereoParsing.cpp.o.d -o CMakeFiles/testExtendedStereoParsing.dir/testExtendedStereoParsing.cpp.o -c /<>/Code/GraphMol/FileParsers/testExtendedStereoParsing.cpp [ 65%] Linking CXX executable testMolWriter cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolWriter.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testMolWriter.dir/testMolWriter.cpp.o -o testMolWriter ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Built target testMolWriter make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/file_parsers_catch.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/file_parsers_catch.cpp.o -MF CMakeFiles/fileParsersCatchTest.dir/file_parsers_catch.cpp.o.d -o CMakeFiles/fileParsersCatchTest.dir/file_parsers_catch.cpp.o -c /<>/Code/GraphMol/FileParsers/file_parsers_catch.cpp [ 65%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Property.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Property.cpp.o -MF CMakeFiles/Descriptors.dir/Property.cpp.o.d -o CMakeFiles/Descriptors.dir/Property.cpp.o -c /<>/Code/GraphMol/Descriptors/Property.cpp [ 65%] Linking CXX executable testSequence cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSequence.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testSequence.dir/testSequence.cpp.o -o testSequence ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Built target testSequence make -f Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/testPropertyLists.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/testPropertyLists.cpp.o -MF CMakeFiles/testPropertyLists.dir/testPropertyLists.cpp.o.d -o CMakeFiles/testPropertyLists.dir/testPropertyLists.cpp.o -c /<>/Code/GraphMol/FileParsers/testPropertyLists.cpp [ 65%] Linking CXX executable testExtendedStereoParsing cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testExtendedStereoParsing.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testExtendedStereoParsing.dir/testExtendedStereoParsing.cpp.o -o testExtendedStereoParsing ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Built target testExtendedStereoParsing make -f Code/GraphMol/FileParsers/CMakeFiles/XYZFileParserCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/XYZFileParserCatchTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/XYZFileParserCatchTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/XYZFileParserCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/XYZFileParserCatchTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/XYZFileParserCatchTest.dir/XYZFileParserCatchTest.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/XYZFileParserCatchTest.dir/XYZFileParserCatchTest.cpp.o -MF CMakeFiles/XYZFileParserCatchTest.dir/XYZFileParserCatchTest.cpp.o.d -o CMakeFiles/XYZFileParserCatchTest.dir/XYZFileParserCatchTest.cpp.o -c /<>/Code/GraphMol/FileParsers/XYZFileParserCatchTest.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/Descriptors/Property.h:36, from /<>/Code/GraphMol/Descriptors/Property.cpp:32: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘std::vector RDKit::Descriptors::Properties::computeProperties(const RDKit::ROMol&, bool) const’ at /<>/Code/GraphMol/Descriptors/Property.cpp:170:18: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 65%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/AUTOCORR2D.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/AUTOCORR2D.cpp.o -MF CMakeFiles/Descriptors.dir/AUTOCORR2D.cpp.o.d -o CMakeFiles/Descriptors.dir/AUTOCORR2D.cpp.o -c /<>/Code/GraphMol/Descriptors/AUTOCORR2D.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/catch2/interfaces/catch_interfaces_config.hpp:17, from /usr/include/catch2/benchmark/catch_benchmark.hpp:20, from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, from /usr/include/catch2/catch_all.hpp:25, from /<>/Code/GraphMol/FileParsers/testPropertyLists.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 65%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Data3Ddescriptors.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Data3Ddescriptors.cpp.o -MF CMakeFiles/Descriptors.dir/Data3Ddescriptors.cpp.o.d -o CMakeFiles/Descriptors.dir/Data3Ddescriptors.cpp.o -c /<>/Code/GraphMol/Descriptors/Data3Ddescriptors.cpp [ 65%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MolData3Ddescriptors.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MolData3Ddescriptors.cpp.o -MF CMakeFiles/Descriptors.dir/MolData3Ddescriptors.cpp.o.d -o CMakeFiles/Descriptors.dir/MolData3Ddescriptors.cpp.o -c /<>/Code/GraphMol/Descriptors/MolData3Ddescriptors.cpp [ 65%] Linking CXX executable XYZFileParserCatchTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/XYZFileParserCatchTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/XYZFileParserCatchTest.dir/XYZFileParserCatchTest.cpp.o -o XYZFileParserCatchTest ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Built target XYZFileParserCatchTest make -f Code/GraphMol/FileParsers/CMakeFiles/cdxmlParserCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/cdxmlParserCatchTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/cdxmlParserCatchTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/cdxmlParserCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/cdxmlParserCatchTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/cdxmlParserCatchTest.dir/cdxml_parser_catch.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/cdxmlParserCatchTest.dir/cdxml_parser_catch.cpp.o -MF CMakeFiles/cdxmlParserCatchTest.dir/cdxml_parser_catch.cpp.o.d -o CMakeFiles/cdxmlParserCatchTest.dir/cdxml_parser_catch.cpp.o -c /<>/Code/GraphMol/FileParsers/cdxml_parser_catch.cpp [ 65%] Linking CXX executable testPropertyLists cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testPropertyLists.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection 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../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Built target testPropertyLists make -f Code/GraphMol/FileParsers/CMakeFiles/molfileStereoCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/molfileStereoCatchTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/molfileStereoCatchTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/molfileStereoCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/molfileStereoCatchTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/molfileStereoCatchTest.dir/molfile_stereo_catch.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/molfileStereoCatchTest.dir/molfile_stereo_catch.cpp.o -MF CMakeFiles/molfileStereoCatchTest.dir/molfile_stereo_catch.cpp.o.d -o CMakeFiles/molfileStereoCatchTest.dir/molfile_stereo_catch.cpp.o -c /<>/Code/GraphMol/FileParsers/molfile_stereo_catch.cpp [ 65%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/USRDescriptor.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/USRDescriptor.cpp.o -MF CMakeFiles/Descriptors.dir/USRDescriptor.cpp.o.d -o CMakeFiles/Descriptors.dir/USRDescriptor.cpp.o -c /<>/Code/GraphMol/Descriptors/USRDescriptor.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/catch2/interfaces/catch_interfaces_config.hpp:17, from /usr/include/catch2/benchmark/catch_benchmark.hpp:20, from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, from /usr/include/catch2/catch_all.hpp:25, from /<>/Code/GraphMol/FileParsers/file_parsers_catch.cpp:18: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘void CATCH2_INTERNAL_TEST_65()’ at /<>/Code/GraphMol/FileParsers/file_parsers_catch.cpp:1573:33: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void CATCH2_INTERNAL_TEST_65()’ at /<>/Code/GraphMol/FileParsers/file_parsers_catch.cpp:1575:21: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void CATCH2_INTERNAL_TEST_65()’ at /<>/Code/GraphMol/FileParsers/file_parsers_catch.cpp:1576:21: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void CATCH2_INTERNAL_TEST_65()’ at /<>/Code/GraphMol/FileParsers/file_parsers_catch.cpp:1577:21: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void CATCH2_INTERNAL_TEST_65()’ at /<>/Code/GraphMol/FileParsers/file_parsers_catch.cpp:1578:21: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void CATCH2_INTERNAL_TEST_65()’ at /<>/Code/GraphMol/FileParsers/file_parsers_catch.cpp:1579:21: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘void CATCH2_INTERNAL_TEST_59()’ at /<>/Code/GraphMol/FileParsers/file_parsers_catch.cpp:1374:35: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 65%] Linking CXX executable cdxmlParserCatchTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/cdxmlParserCatchTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/cdxmlParserCatchTest.dir/cdxml_parser_catch.cpp.o -o cdxmlParserCatchTest ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Built target cdxmlParserCatchTest make -f Code/GraphMol/FileParsers/CMakeFiles/connectTheDotsTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/connectTheDotsTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/connectTheDotsTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/connectTheDotsTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/connectTheDotsTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/connectTheDotsTest.dir/connectTheDots_catch.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/connectTheDotsTest.dir/connectTheDots_catch.cpp.o -MF CMakeFiles/connectTheDotsTest.dir/connectTheDots_catch.cpp.o.d -o CMakeFiles/connectTheDotsTest.dir/connectTheDots_catch.cpp.o -c /<>/Code/GraphMol/FileParsers/connectTheDots_catch.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/catch2/interfaces/catch_interfaces_config.hpp:17, from /usr/include/catch2/benchmark/catch_benchmark.hpp:20, from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, from /usr/include/catch2/catch_all.hpp:25, from /<>/Code/GraphMol/FileParsers/molfile_stereo_catch.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 65%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/AtomFeat.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/AtomFeat.cpp.o -MF CMakeFiles/Descriptors.dir/AtomFeat.cpp.o.d -o CMakeFiles/Descriptors.dir/AtomFeat.cpp.o -c /<>/Code/GraphMol/Descriptors/AtomFeat.cpp [ 65%] Linking CXX executable molfileStereoCatchTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/molfileStereoCatchTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/molfileStereoCatchTest.dir/molfile_stereo_catch.cpp.o -o molfileStereoCatchTest ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitCIPLabeler.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Built target molfileStereoCatchTest make -f Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Substruct /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/test1.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/test1.cpp.o -MF CMakeFiles/testSubstructMatch.dir/test1.cpp.o.d -o CMakeFiles/testSubstructMatch.dir/test1.cpp.o -c /<>/Code/GraphMol/Substruct/test1.cpp [ 65%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/OxidationNumbers.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/OxidationNumbers.cpp.o -MF CMakeFiles/Descriptors.dir/OxidationNumbers.cpp.o.d -o CMakeFiles/Descriptors.dir/OxidationNumbers.cpp.o -c /<>/Code/GraphMol/Descriptors/OxidationNumbers.cpp [ 65%] Linking CXX executable connectTheDotsTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/connectTheDotsTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/connectTheDotsTest.dir/connectTheDots_catch.cpp.o -o connectTheDotsTest ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Built target connectTheDotsTest make -f Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Substruct /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/catch_tests.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/catch_tests.cpp.o -MF CMakeFiles/substructTestCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/substructTestCatch.dir/catch_tests.cpp.o -c /<>/Code/GraphMol/Substruct/catch_tests.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/Descriptors/OxidationNumbers.cpp:18: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setPODVal(const std::string&, T) [with T = int]’ at /<>/Code/RDGeneral/Dict.h:285:20, inlined from ‘void RDKit::Dict::setVal(const std::string&, int)’ at /<>/Code/RDGeneral/Dict.h:294:60, inlined from ‘void RDKit::RDProps::setProp(const std::string&, T, bool) const [with T = int]’ at /<>/Code/RDGeneral/RDProps.h:86:19, inlined from ‘void RDKit::Descriptors::calcOxidationNumbers(const RDKit::ROMol&)’ at /<>/Code/GraphMol/Descriptors/OxidationNumbers.cpp:97:23: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 65%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/EEM.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/EEM.cpp.o -MF CMakeFiles/Descriptors.dir/EEM.cpp.o.d -o CMakeFiles/Descriptors.dir/EEM.cpp.o -c /<>/Code/GraphMol/Descriptors/EEM.cpp [ 65%] Linking CXX executable fileParsersCatchTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/fileParsersCatchTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/fileParsersCatchTest.dir/file_parsers_catch.cpp.o -o fileParsersCatchTest ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Built target fileParsersCatchTest make -f Code/GraphMol/GenericGroups/CMakeFiles/testGenericGroups.dir/build.make Code/GraphMol/GenericGroups/CMakeFiles/testGenericGroups.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/GenericGroups /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/GenericGroups /<>/obj-arm-linux-gnueabihf/Code/GraphMol/GenericGroups/CMakeFiles/testGenericGroups.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/GenericGroups/CMakeFiles/testGenericGroups.dir/build.make Code/GraphMol/GenericGroups/CMakeFiles/testGenericGroups.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Building CXX object Code/GraphMol/GenericGroups/CMakeFiles/testGenericGroups.dir/generic_tests.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/GenericGroups && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/GenericGroups/CMakeFiles/testGenericGroups.dir/generic_tests.cpp.o -MF CMakeFiles/testGenericGroups.dir/generic_tests.cpp.o.d -o CMakeFiles/testGenericGroups.dir/generic_tests.cpp.o -c /<>/Code/GraphMol/GenericGroups/generic_tests.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/catch2/interfaces/catch_interfaces_config.hpp:17, from /usr/include/catch2/benchmark/catch_benchmark.hpp:20, from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, from /usr/include/catch2/catch_all.hpp:25, from /<>/Code/GraphMol/Substruct/catch_tests.cpp:13: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/Substruct/test1.cpp:17: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setPODVal(const std::string&, T) [with T = int]’ at /<>/Code/RDGeneral/Dict.h:285:20, inlined from ‘void RDKit::Dict::setVal(const std::string&, int)’ at /<>/Code/RDGeneral/Dict.h:294:60, inlined from ‘void RDKit::RDProps::setProp(const std::string&, T, bool) const [with T = int]’ at /<>/Code/RDGeneral/RDProps.h:86:19, inlined from ‘void test5QueryRoot()’ at /<>/Code/GraphMol/Substruct/test1.cpp:380:14: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 65%] Linking CXX executable substructTestCatch cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct && /usr/bin/cmake -E cmake_link_script CMakeFiles/substructTestCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/substructTestCatch.dir/catch_tests.cpp.o -o substructTestCatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Built target substructTestCatch make -f Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ChemTransforms /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemTransforms /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Building CXX object Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/testChemTransforms.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemTransforms && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/testChemTransforms.cpp.o -MF CMakeFiles/testChemTransforms.dir/testChemTransforms.cpp.o.d -o CMakeFiles/testChemTransforms.dir/testChemTransforms.cpp.o -c /<>/Code/GraphMol/ChemTransforms/testChemTransforms.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/Descriptors/EEM.cpp:31: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 65%] Linking CXX executable testSubstructMatch cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSubstructMatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testSubstructMatch.dir/test1.cpp.o -o testSubstructMatch ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Built target testSubstructMatch make -f Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ChemTransforms /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemTransforms /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Building CXX object Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/catch_tests.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemTransforms && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/catch_tests.cpp.o -MF CMakeFiles/chemTransformsTestCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/chemTransformsTestCatch.dir/catch_tests.cpp.o -c /<>/Code/GraphMol/ChemTransforms/catch_tests.cpp [ 66%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/PBF.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/PBF.cpp.o -MF CMakeFiles/Descriptors.dir/PBF.cpp.o.d -o CMakeFiles/Descriptors.dir/PBF.cpp.o -c /<>/Code/GraphMol/Descriptors/PBF.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/catch2/interfaces/catch_interfaces_config.hpp:17, from /usr/include/catch2/benchmark/catch_benchmark.hpp:20, from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, from /usr/include/catch2/catch_all.hpp:25, from /<>/Code/GraphMol/GenericGroups/generic_tests.cpp:13: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::__cxx11::basic_string]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 66%] Linking CXX executable testGenericGroups cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/GenericGroups && /usr/bin/cmake -E cmake_link_script CMakeFiles/testGenericGroups.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testGenericGroups.dir/generic_tests.cpp.o -o testGenericGroups ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 66%] Built target testGenericGroups make -f Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FilterCatalog /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 66%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/filtercatalogtest.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/filtercatalogtest.cpp.o -MF CMakeFiles/filterCatalogTest.dir/filtercatalogtest.cpp.o.d -o CMakeFiles/filterCatalogTest.dir/filtercatalogtest.cpp.o -c /<>/Code/GraphMol/FilterCatalog/filtercatalogtest.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/Descriptors/PBF.cpp:51: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const RDGeom::Point3D&}; _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘double RDKit::Descriptors::PBF(const RDKit::ROMol&, int)’ at /<>/Code/GraphMol/Descriptors/PBF.cpp:129:21: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 66%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/PMI.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/PMI.cpp.o -MF CMakeFiles/Descriptors.dir/PMI.cpp.o.d -o CMakeFiles/Descriptors.dir/PMI.cpp.o -c /<>/Code/GraphMol/Descriptors/PMI.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/catch2/interfaces/catch_interfaces_config.hpp:17, from /usr/include/catch2/benchmark/catch_benchmark.hpp:20, from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, from /usr/include/catch2/catch_all.hpp:25, from /<>/Code/GraphMol/ChemTransforms/catch_tests.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/Descriptors/PMI.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/GraphMol/ChemTransforms/testChemTransforms.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::__cxx11::basic_string]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 66%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/AUTOCORR3D.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/AUTOCORR3D.cpp.o -MF CMakeFiles/Descriptors.dir/AUTOCORR3D.cpp.o.d -o CMakeFiles/Descriptors.dir/AUTOCORR3D.cpp.o -c /<>/Code/GraphMol/Descriptors/AUTOCORR3D.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/GraphMol/FilterCatalog/filtercatalogtest.cpp:32: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::__cxx11::basic_string]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 66%] Linking CXX executable filterCatalogTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/filterCatalogTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/filterCatalogTest.dir/filtercatalogtest.cpp.o -o filterCatalogTest ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 66%] Built target filterCatalogTest make -f Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FragCatalog /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 66%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/test1.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/test1.cpp.o -MF CMakeFiles/testFragCatalog.dir/test1.cpp.o.d -o CMakeFiles/testFragCatalog.dir/test1.cpp.o -c /<>/Code/GraphMol/FragCatalog/test1.cpp [ 66%] Linking CXX executable testChemTransforms cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemTransforms && /usr/bin/cmake -E cmake_link_script CMakeFiles/testChemTransforms.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testChemTransforms.dir/testChemTransforms.cpp.o -o testChemTransforms ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 66%] Built target testChemTransforms make -f Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/build.make Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FragCatalog/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/build.make Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 66%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/rdfragcatalog.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfragcatalog_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/rdfragcatalog.cpp.o -MF CMakeFiles/rdfragcatalog.dir/rdfragcatalog.cpp.o.d -o CMakeFiles/rdfragcatalog.dir/rdfragcatalog.cpp.o -c /<>/Code/GraphMol/FragCatalog/Wrap/rdfragcatalog.cpp [ 66%] Linking CXX executable chemTransformsTestCatch cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemTransforms && /usr/bin/cmake -E cmake_link_script CMakeFiles/chemTransformsTestCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 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/usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 66%] Built target chemTransformsTestCatch make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Fingerprints /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints 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-I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/test1.cpp.o -MF CMakeFiles/testFingerprints.dir/test1.cpp.o.d -o CMakeFiles/testFingerprints.dir/test1.cpp.o -c /<>/Code/GraphMol/Fingerprints/test1.cpp [ 66%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/RDF.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/RDF.cpp.o -MF CMakeFiles/Descriptors.dir/RDF.cpp.o.d -o CMakeFiles/Descriptors.dir/RDF.cpp.o -c /<>/Code/GraphMol/Descriptors/RDF.cpp [ 67%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragCatalog.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfragcatalog_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragCatalog.cpp.o -MF CMakeFiles/rdfragcatalog.dir/FragCatalog.cpp.o.d -o CMakeFiles/rdfragcatalog.dir/FragCatalog.cpp.o -c /<>/Code/GraphMol/FragCatalog/Wrap/FragCatalog.cpp [ 67%] Linking CXX executable testFragCatalog cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFragCatalog.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testFragCatalog.dir/test1.cpp.o -o testFragCatalog ../../../lib/libRDKitFragCatalog.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 67%] Built target testFragCatalog make -f Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Fingerprints /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 67%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/testMHFPFingerprint.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/testMHFPFingerprint.cpp.o -MF CMakeFiles/testMHFPFingerprint.dir/testMHFPFingerprint.cpp.o.d -o CMakeFiles/testMHFPFingerprint.dir/testMHFPFingerprint.cpp.o -c /<>/Code/GraphMol/Fingerprints/testMHFPFingerprint.cpp [ 67%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MORSE.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MORSE.cpp.o -MF CMakeFiles/Descriptors.dir/MORSE.cpp.o.d -o CMakeFiles/Descriptors.dir/MORSE.cpp.o -c /<>/Code/GraphMol/Descriptors/MORSE.cpp [ 67%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/GETAWAY.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/GETAWAY.cpp.o -MF CMakeFiles/Descriptors.dir/GETAWAY.cpp.o.d -o CMakeFiles/Descriptors.dir/GETAWAY.cpp.o -c /<>/Code/GraphMol/Descriptors/GETAWAY.cpp [ 67%] Linking CXX executable testMHFPFingerprint cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMHFPFingerprint.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testMHFPFingerprint.dir/testMHFPFingerprint.cpp.o -o testMHFPFingerprint ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 67%] Built target testMHFPFingerprint make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Fingerprints /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 67%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/testFingerprintGenerators.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/testFingerprintGenerators.cpp.o -MF CMakeFiles/testFingerprintGenerators.dir/testFingerprintGenerators.cpp.o.d -o CMakeFiles/testFingerprintGenerators.dir/testFingerprintGenerators.cpp.o -c /<>/Code/GraphMol/Fingerprints/testFingerprintGenerators.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/c++/13/functional:64, from /usr/include/boost/config/no_tr1/functional.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:15, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/GraphMol/FragCatalog/Wrap/FragCatalog.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘RDKit::DOUBLE_VECT RDKit::GetBitDiscrims(const FragCatalog*, unsigned int)’ at /<>/Code/GraphMol/FragCatalog/Wrap/FragCatalog.cpp:106:16: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘RDKit::DOUBLE_VECT RDKit::GetBitDiscrims(const FragCatalog*, unsigned int)’ at /<>/Code/GraphMol/FragCatalog/Wrap/FragCatalog.cpp:107:16: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘RDKit::DOUBLE_VECT RDKit::GetBitDiscrims(const FragCatalog*, unsigned int)’ at /<>/Code/GraphMol/FragCatalog/Wrap/FragCatalog.cpp:108:16: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 67%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragCatParams.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfragcatalog_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragCatParams.cpp.o -MF CMakeFiles/rdfragcatalog.dir/FragCatParams.cpp.o.d -o CMakeFiles/rdfragcatalog.dir/FragCatParams.cpp.o -c /<>/Code/GraphMol/FragCatalog/Wrap/FragCatParams.cpp /<>/Code/GraphMol/Descriptors/GETAWAY.cpp: In function ‘Eigen::MatrixXd RDKit::Descriptors::{anonymous}::GetPinv(const Eigen::MatrixXd&)’: /<>/Code/GraphMol/Descriptors/GETAWAY.cpp:280:30: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘Eigen::Index’ {aka ‘int’} [-Wsign-compare] 280 | for (unsigned int i = 0; i < A.cols(); ++i) { | ~~^~~~~~~~~~ In file included from /usr/include/c++/13/set:62, from /<>/Code/Query/SetQuery.h:13, from /<>/Code/Query/QueryObjects.h:29, from /<>/Code/GraphMol/Atom.h:24, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/Fingerprints/testFingerprintGenerators.cpp:12: /usr/include/c++/13/bits/stl_tree.h: In function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = long long unsigned int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/stl_tree.h:2458:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 2458 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/Fingerprints/test1.cpp:12: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::vector >]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 67%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragCatGenerator.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfragcatalog_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragCatGenerator.cpp.o -MF CMakeFiles/rdfragcatalog.dir/FragCatGenerator.cpp.o.d -o CMakeFiles/rdfragcatalog.dir/FragCatGenerator.cpp.o -c /<>/Code/GraphMol/FragCatalog/Wrap/FragCatGenerator.cpp In file included from /usr/include/c++/13/map:63, from /<>/Code/RDGeneral/Dict.h:19, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/GraphMol/Atom.h:25: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = long long unsigned int; _Tp = int; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::SparseIntVect::setVal(IndexType, int) [with IndexType = long long unsigned int]’ at /<>/Code/DataStructs/SparseIntVect.h:95:13, inlined from ‘void testRDKitFP()’ at /<>/Code/GraphMol/Fingerprints/testFingerprintGenerators.cpp:1460:20: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = long long unsigned int; _Tp = int; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::SparseIntVect::setVal(IndexType, int) [with IndexType = long long unsigned int]’ at /<>/Code/DataStructs/SparseIntVect.h:95:13, inlined from ‘void testTopologicalTorsionFPOld()’ at /<>/Code/GraphMol/Fingerprints/testFingerprintGenerators.cpp:1592:20: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algo.h:61, from /usr/include/c++/13/algorithm:61, from /usr/include/boost/iterator/iterator_concepts.hpp:26, from /usr/include/boost/range/concepts.hpp:20, from /usr/include/boost/range/size_type.hpp:20, from /usr/include/boost/range/size.hpp:21, from /usr/include/boost/range/functions.hpp:20, from /usr/include/boost/range/iterator_range_core.hpp:38, from /usr/include/boost/range/iterator_range.hpp:13, from /usr/include/boost/iostreams/traits.hpp:38, from /usr/include/boost/iostreams/detail/call_traits.hpp:15, from /usr/include/boost/iostreams/detail/adapter/device_adapter.hpp:22, from /usr/include/boost/iostreams/tee.hpp:18, from /<>/Code/RDGeneral/RDLog.h:17, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/Descriptors/GETAWAY.cpp:35: /usr/include/c++/13/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = double; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/13/bits/stl_heap.h:224:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1812 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1918 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_algo.h:1932:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1932 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = greater]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘std::vector RDKit::Descriptors::{anonymous}::clusterArray2(std::vector, unsigned int)’ at /<>/Code/GraphMol/Descriptors/GETAWAY.cpp:221:12: /usr/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1947 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1948 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1949 | __comp); | ~~~~~~~ In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’, inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’ at /usr/include/c++/13/bits/stl_algo.h:1950:31, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = greater]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘std::vector RDKit::Descriptors::{anonymous}::clusterArray2(std::vector, unsigned int)’ at /<>/Code/GraphMol/Descriptors/GETAWAY.cpp:221:12: /usr/include/c++/13/bits/stl_algo.h:1859:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1859 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1864:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1864 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘std::vector RDKit::Descriptors::{anonymous}::clusterArray2(std::vector, unsigned int)’ at /<>/Code/GraphMol/Descriptors/GETAWAY.cpp:231:22: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘std::vector RDKit::Descriptors::{anonymous}::clusterArray2(std::vector, unsigned int)’ at /<>/Code/GraphMol/Descriptors/GETAWAY.cpp:238:24: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘std::vector RDKit::Descriptors::{anonymous}::clusterArray2(std::vector, unsigned int)’ at /<>/Code/GraphMol/Descriptors/GETAWAY.cpp:247:24: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 68%] Linking CXX executable testFingerprints cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFingerprints.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testFingerprints.dir/test1.cpp.o -o testFingerprints ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 68%] Built target testFingerprints make -f Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Fingerprints /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 68%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/catch_tests.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/catch_tests.cpp.o -MF CMakeFiles/fpTestCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/fpTestCatch.dir/catch_tests.cpp.o -c /<>/Code/GraphMol/Fingerprints/catch_tests.cpp [ 68%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragFPGenerator.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfragcatalog_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragFPGenerator.cpp.o -MF CMakeFiles/rdfragcatalog.dir/FragFPGenerator.cpp.o.d -o CMakeFiles/rdfragcatalog.dir/FragFPGenerator.cpp.o -c /<>/Code/GraphMol/FragCatalog/Wrap/FragFPGenerator.cpp [ 68%] Linking CXX executable testFingerprintGenerators cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFingerprintGenerators.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testFingerprintGenerators.dir/testFingerprintGenerators.cpp.o -o testFingerprintGenerators ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 68%] Built target testFingerprintGenerators make -f Code/GraphMol/Fingerprints/CMakeFiles/fpGenTestCatch.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/fpGenTestCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Fingerprints /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints/CMakeFiles/fpGenTestCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Fingerprints/CMakeFiles/fpGenTestCatch.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/fpGenTestCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 68%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/fpGenTestCatch.dir/fpgen_catch_tests.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/Fingerprints/CMakeFiles/fpGenTestCatch.dir/fpgen_catch_tests.cpp.o -MF CMakeFiles/fpGenTestCatch.dir/fpgen_catch_tests.cpp.o.d -o CMakeFiles/fpGenTestCatch.dir/fpgen_catch_tests.cpp.o -c /<>/Code/GraphMol/Fingerprints/fpgen_catch_tests.cpp In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Descriptors::{anonymous}::getGETAWAYDescCustom(Eigen::MatrixXd, Eigen::MatrixXd, Eigen::MatrixXd, int, std::vector, const RDKit::ROMol&, std::vector&, unsigned int, const std::string&)’ at /<>/Code/GraphMol/Descriptors/GETAWAY.cpp:385:25: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Descriptors::{anonymous}::getGETAWAYDesc(Eigen::MatrixXd, Eigen::MatrixXd, Eigen::MatrixXd, int, std::vector, const RDKit::ROMol&, std::vector&, unsigned int)’ at /<>/Code/GraphMol/Descriptors/GETAWAY.cpp:608:25: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/map:62, from /usr/include/catch2/internal/catch_reporter_spec_parser.hpp:15, from /usr/include/catch2/catch_config.hpp:17, from /usr/include/catch2/catch_all.hpp:29, from /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:11: /usr/include/c++/13/bits/stl_tree.h: In function ‘std::pair std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_get_insert_hint_unique_pos(const_iterator, const key_type&) [with _Key = long long unsigned int; _Val = std::pair > >; _KeyOfValue = std::_Select1st > > >; _Compare = std::less; _Alloc = std::allocator > > >]’: /usr/include/c++/13/bits/stl_tree.h:2210:5: note: parameter passing for argument of type ‘std::_Rb_tree > >, std::_Select1st > > >, std::less, std::allocator > > > >::const_iterator’ changed in GCC 7.1 2210 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66, from /usr/include/catch2/interfaces/catch_interfaces_config.hpp:17, from /usr/include/catch2/benchmark/catch_benchmark.hpp:20, from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, from /usr/include/catch2/catch_all.hpp:25: /usr/include/c++/13/bits/stl_vector.h: In function ‘std::vector<_Tp, _Alloc>::vector(std::initializer_list<_Tp>, const allocator_type&) [with _Tp = long long unsigned int; _Alloc = std::allocator]’: /usr/include/c++/13/bits/stl_vector.h:675:7: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 675 | vector(initializer_list __l, | ^~~~~~ [ 68%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/WHIM.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/WHIM.cpp.o -MF CMakeFiles/Descriptors.dir/WHIM.cpp.o.d -o CMakeFiles/Descriptors.dir/WHIM.cpp.o -c /<>/Code/GraphMol/Descriptors/WHIM.cpp [ 68%] Linking CXX shared module ../../../../rdkit/Chem/rdfragcatalog.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdfragcatalog.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdfragcatalog.so CMakeFiles/rdfragcatalog.dir/rdfragcatalog.cpp.o CMakeFiles/rdfragcatalog.dir/FragCatalog.cpp.o CMakeFiles/rdfragcatalog.dir/FragCatParams.cpp.o CMakeFiles/rdfragcatalog.dir/FragCatGenerator.cpp.o CMakeFiles/rdfragcatalog.dir/FragFPGenerator.cpp.o ../../../../lib/libRDKitFragCatalog.so.1.2023.09.3 ../../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 68%] Built target rdfragcatalog make -f Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolTransforms /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolTransforms /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 68%] Building CXX object Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/test1.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolTransforms && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/test1.cpp.o -MF CMakeFiles/testMolTransforms.dir/test1.cpp.o.d -o CMakeFiles/testMolTransforms.dir/test1.cpp.o -c /<>/Code/GraphMol/MolTransforms/test1.cpp /<>/Code/GraphMol/Fingerprints/catch_tests.cpp: In function ‘void CATCH2_INTERNAL_TEST_29()’: /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:537:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 537 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:537:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 537 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:537:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 537 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:537:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 537 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:537:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 537 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:537:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 537 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:537:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 537 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:537:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 537 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:537:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 537 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:537:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 537 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:537:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 537 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:537:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 537 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:537:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 537 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:537:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 537 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:537:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 537 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:537:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 537 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:537:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 537 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:537:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 537 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:537:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 537 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:537:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 537 | } | ^ In file included from /usr/include/c++/13/vector:66, from /usr/include/catch2/interfaces/catch_interfaces_config.hpp:17, from /usr/include/catch2/benchmark/catch_benchmark.hpp:20, from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, from /usr/include/catch2/catch_all.hpp:25, from /<>/Code/GraphMol/Fingerprints/fpgen_catch_tests.cpp:11: /usr/include/c++/13/bits/stl_vector.h: In function ‘std::vector<_Tp, _Alloc>::vector(std::initializer_list<_Tp>, const allocator_type&) [with _Tp = long long unsigned int; _Alloc = std::allocator]’: /usr/include/c++/13/bits/stl_vector.h:675:7: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 675 | vector(initializer_list __l, | ^~~~~~ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp: In function ‘void CATCH2_INTERNAL_TEST_35()’: /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:666:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 666 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:666:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 666 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:666:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 666 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:666:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 666 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:666:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 666 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:666:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 666 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:666:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 666 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:666:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 666 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:666:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 666 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:666:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 666 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:666:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 666 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:666:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 666 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp: In function ‘void CATCH2_INTERNAL_TEST_17()’: /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:262:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 262 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:262:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 262 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:262:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 262 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:262:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 262 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:262:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 262 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:262:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 262 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:262:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 262 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:262:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 262 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:262:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 262 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:262:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 262 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:262:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 262 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:262:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 262 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:262:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 262 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:262:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 262 | } | ^ /<>/Code/GraphMol/Fingerprints/fpgen_catch_tests.cpp: In function ‘void CATCH2_INTERNAL_TEST_3()’: /<>/Code/GraphMol/Fingerprints/fpgen_catch_tests.cpp:205:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 205 | } | ^ /<>/Code/GraphMol/Fingerprints/fpgen_catch_tests.cpp:205:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 205 | } | ^ /<>/Code/GraphMol/Fingerprints/fpgen_catch_tests.cpp:205:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 205 | } | ^ /<>/Code/GraphMol/Fingerprints/fpgen_catch_tests.cpp:205:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 205 | } | ^ /<>/Code/GraphMol/Fingerprints/fpgen_catch_tests.cpp:205:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 205 | } | ^ /<>/Code/GraphMol/Fingerprints/fpgen_catch_tests.cpp:205:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 205 | } | ^ /<>/Code/GraphMol/Fingerprints/fpgen_catch_tests.cpp:205:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 205 | } | ^ /<>/Code/GraphMol/Fingerprints/fpgen_catch_tests.cpp:205:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 205 | } | ^ /<>/Code/GraphMol/Fingerprints/fpgen_catch_tests.cpp:205:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 205 | } | ^ /<>/Code/GraphMol/Fingerprints/fpgen_catch_tests.cpp:205:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 205 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp: In function ‘void CATCH2_INTERNAL_TEST_23()’: /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:402:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 402 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:402:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 402 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:402:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 402 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:402:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 402 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:402:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 402 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:402:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 402 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:402:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 402 | } | ^ /<>/Code/GraphMol/Fingerprints/catch_tests.cpp:402:1: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 402 | } | ^ In file included from /usr/include/catch2/catch_approx.hpp:11, from /usr/include/catch2/catch_all.hpp:26: /usr/include/catch2/catch_tostring.hpp: In function ‘std::string Catch::Detail::rangeToString(InputIterator, Sentinel) [with InputIterator = __gnu_cxx::__normal_iterator >; Sentinel = __gnu_cxx::__normal_iterator >]’: /usr/include/catch2/catch_tostring.hpp:343:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 343 | std::string rangeToString(InputIterator first, Sentinel last) { | ^~~~~~~~~~~~~ /usr/include/catch2/catch_tostring.hpp:343:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In function ‘std::string Catch::rangeToString(const Range&) [with Range = std::vector]’, inlined from ‘static std::string Catch::StringMaker::value && (! Catch::Detail::IsStreamInsertable::value)), void>::type>::convert(const R&) [with R = std::vector]’ at /usr/include/catch2/catch_tostring.hpp:522:41, inlined from ‘std::string Catch::Detail::stringify(const T&) [with T = std::vector]’ at /usr/include/catch2/catch_tostring.hpp:150:97, inlined from ‘std::string Catch::Detail::rangeToString(InputIterator, Sentinel) [with InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; Sentinel = __gnu_cxx::__normal_iterator*, std::vector > >]’ at /usr/include/catch2/catch_tostring.hpp:347:21: /usr/include/catch2/catch_tostring.hpp:499:77: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 499 | return ::Catch::Detail::rangeToString( begin( range ), end( range ) ); | ^ In function ‘std::string Catch::rangeToString(const Range&) [with Range = std::vector]’, inlined from ‘static std::string Catch::StringMaker::value && (! Catch::Detail::IsStreamInsertable::value)), void>::type>::convert(const R&) [with R = std::vector]’ at /usr/include/catch2/catch_tostring.hpp:522:41, inlined from ‘std::string Catch::Detail::stringify(const T&) [with T = std::vector]’ at /usr/include/catch2/catch_tostring.hpp:150:97, inlined from ‘std::string Catch::Detail::rangeToString(InputIterator, Sentinel) [with InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; Sentinel = __gnu_cxx::__normal_iterator*, std::vector > >]’ at /usr/include/catch2/catch_tostring.hpp:349:33: /usr/include/catch2/catch_tostring.hpp:499:77: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 499 | return ::Catch::Detail::rangeToString( begin( range ), end( range ) ); | ^ In file included from /usr/include/catch2/catch_approx.hpp:11, from /usr/include/catch2/catch_all.hpp:26: /usr/include/catch2/catch_tostring.hpp: In function ‘std::string Catch::Detail::rangeToString(InputIterator, Sentinel) [with InputIterator = std::_Rb_tree_const_iterator > > >; Sentinel = std::_Rb_tree_const_iterator > > >]’: /usr/include/catch2/catch_tostring.hpp:343:21: note: parameter passing for argument of type ‘std::_Rb_tree_const_iterator > > >’ changed in GCC 7.1 343 | std::string rangeToString(InputIterator first, Sentinel last) { | ^~~~~~~~~~~~~ /usr/include/catch2/catch_tostring.hpp:343:21: note: parameter passing for argument of type ‘std::_Rb_tree_const_iterator > > >’ changed in GCC 7.1 [ 68%] Linking CXX executable fpGenTestCatch In function ‘std::string Catch::rangeToString(const Range&) [with Range = std::map > >]’, inlined from ‘static std::string Catch::StringMaker::value && (! Catch::Detail::IsStreamInsertable::value)), void>::type>::convert(const R&) [with R = std::map > >]’ at /usr/include/catch2/catch_tostring.hpp:522:41, inlined from ‘std::string Catch::Detail::stringify(const T&) [with T = std::map > >]’ at /usr/include/catch2/catch_tostring.hpp:150:97, inlined from ‘void Catch::BinaryExpr::streamReconstructedExpression(std::ostream&) const [with LhsT = std::map > >&; RhsT = std::map > >&]’ at /usr/include/catch2/internal/catch_decomposer.hpp:80:21: /usr/include/catch2/catch_tostring.hpp:499:77: note: parameter passing for argument of type ‘std::_Rb_tree_const_iterator > > >’ changed in GCC 7.1 499 | return ::Catch::Detail::rangeToString( begin( range ), end( range ) ); | ^ In function ‘std::string Catch::rangeToString(const Range&) [with Range = std::map > >]’, inlined from ‘static std::string Catch::StringMaker::value && (! Catch::Detail::IsStreamInsertable::value)), void>::type>::convert(const R&) [with R = std::map > >]’ at /usr/include/catch2/catch_tostring.hpp:522:41, inlined from ‘std::string Catch::Detail::stringify(const T&) [with T = std::map > >]’ at /usr/include/catch2/catch_tostring.hpp:150:97, inlined from ‘void Catch::BinaryExpr::streamReconstructedExpression(std::ostream&) const [with LhsT = std::map > >&; RhsT = std::map > >&]’ at /usr/include/catch2/internal/catch_decomposer.hpp:80:21: /usr/include/catch2/catch_tostring.hpp:499:77: note: parameter passing for argument of type ‘std::_Rb_tree_const_iterator > > >’ changed in GCC 7.1 499 | return ::Catch::Detail::rangeToString( begin( range ), end( range ) ); | ^ cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_link_script CMakeFiles/fpGenTestCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/fpGenTestCatch.dir/fpgen_catch_tests.cpp.o -o fpGenTestCatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/libCatch2.a ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so /usr/include/catch2/catch_tostring.hpp: In function ‘std::string Catch::Detail::rangeToString(InputIterator, Sentinel) [with InputIterator = std::_Rb_tree_const_iterator > > >; Sentinel = std::_Rb_tree_const_iterator > > >]’: /usr/include/catch2/catch_tostring.hpp:343:21: note: parameter passing for argument of type ‘std::_Rb_tree_const_iterator > > >’ changed in GCC 7.1 343 | std::string rangeToString(InputIterator first, Sentinel last) { | ^~~~~~~~~~~~~ /usr/include/catch2/catch_tostring.hpp:343:21: note: parameter passing for argument of type ‘std::_Rb_tree_const_iterator > > >’ changed in GCC 7.1 In function ‘std::string Catch::rangeToString(const Range&) [with Range = std::map > >]’, inlined from ‘static std::string Catch::StringMaker::value && (! Catch::Detail::IsStreamInsertable::value)), void>::type>::convert(const R&) [with R = std::map > >]’ at /usr/include/catch2/catch_tostring.hpp:522:41, inlined from ‘std::string Catch::Detail::stringify(const T&) [with T = std::map > >]’ at /usr/include/catch2/catch_tostring.hpp:150:97, inlined from ‘void Catch::BinaryExpr::streamReconstructedExpression(std::ostream&) const [with LhsT = std::map > >&; RhsT = std::map > >&]’ at /usr/include/catch2/internal/catch_decomposer.hpp:80:21: /usr/include/catch2/catch_tostring.hpp:499:77: note: parameter passing for argument of type ‘std::_Rb_tree_const_iterator > > >’ changed in GCC 7.1 499 | return ::Catch::Detail::rangeToString( begin( range ), end( range ) ); | ^ In function ‘std::string Catch::rangeToString(const Range&) [with Range = std::map > >]’, inlined from ‘static std::string Catch::StringMaker::value && (! Catch::Detail::IsStreamInsertable::value)), void>::type>::convert(const R&) [with R = std::map > >]’ at /usr/include/catch2/catch_tostring.hpp:522:41, inlined from ‘std::string Catch::Detail::stringify(const T&) [with T = std::map > >]’ at /usr/include/catch2/catch_tostring.hpp:150:97, inlined from ‘void Catch::BinaryExpr::streamReconstructedExpression(std::ostream&) const [with LhsT = std::map > >&; RhsT = std::map > >&]’ at /usr/include/catch2/internal/catch_decomposer.hpp:80:21: /usr/include/catch2/catch_tostring.hpp:499:77: note: parameter passing for argument of type ‘std::_Rb_tree_const_iterator > > >’ changed in GCC 7.1 499 | return ::Catch::Detail::rangeToString( begin( range ), end( range ) ); | ^ /usr/include/catch2/catch_tostring.hpp: In function ‘std::string Catch::Detail::rangeToString(InputIterator, Sentinel) [with InputIterator = __gnu_cxx::__normal_iterator >; Sentinel = __gnu_cxx::__normal_iterator >]’: /usr/include/catch2/catch_tostring.hpp:343:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 343 | std::string rangeToString(InputIterator first, Sentinel last) { | ^~~~~~~~~~~~~ /usr/include/catch2/catch_tostring.hpp:343:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In function ‘std::string Catch::rangeToString(const Range&) [with Range = std::vector]’, inlined from ‘static std::string Catch::StringMaker::value && (! Catch::Detail::IsStreamInsertable::value)), void>::type>::convert(const R&) [with R = std::vector]’ at /usr/include/catch2/catch_tostring.hpp:522:41, inlined from ‘std::string Catch::Detail::stringify(const T&) [with T = std::vector]’ at /usr/include/catch2/catch_tostring.hpp:150:97, inlined from ‘std::string Catch::Detail::rangeToString(InputIterator, Sentinel) [with InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; Sentinel = __gnu_cxx::__normal_iterator*, std::vector > >]’ at /usr/include/catch2/catch_tostring.hpp:347:21: /usr/include/catch2/catch_tostring.hpp:499:77: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 499 | return ::Catch::Detail::rangeToString( begin( range ), end( range ) ); | ^ In function ‘std::string Catch::rangeToString(const Range&) [with Range = std::vector]’, inlined from ‘static std::string Catch::StringMaker::value && (! Catch::Detail::IsStreamInsertable::value)), void>::type>::convert(const R&) [with R = std::vector]’ at /usr/include/catch2/catch_tostring.hpp:522:41, inlined from ‘std::string Catch::Detail::stringify(const T&) [with T = std::vector]’ at /usr/include/catch2/catch_tostring.hpp:150:97, inlined from ‘std::string Catch::Detail::rangeToString(InputIterator, Sentinel) [with InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; Sentinel = __gnu_cxx::__normal_iterator*, std::vector > >]’ at /usr/include/catch2/catch_tostring.hpp:349:33: /usr/include/catch2/catch_tostring.hpp:499:77: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 499 | return ::Catch::Detail::rangeToString( begin( range ), end( range ) ); | ^ make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 68%] Built target fpGenTestCatch make -f Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ForceFieldHelpers/MMFF /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/MMFF /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 68%] Building CXX object Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/testMMFFHelpers.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/MMFF && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/testMMFFHelpers.cpp.o -MF CMakeFiles/testMMFFForceFieldHelpers.dir/testMMFFHelpers.cpp.o.d -o CMakeFiles/testMMFFForceFieldHelpers.dir/testMMFFHelpers.cpp.o -c /<>/Code/GraphMol/ForceFieldHelpers/MMFF/testMMFFHelpers.cpp [ 68%] Linking CXX executable fpTestCatch cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_link_script CMakeFiles/fpTestCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/fpTestCatch.dir/catch_tests.cpp.o -o fpTestCatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/libCatch2.a ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 68%] Built target fpTestCatch make -f Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/build.make Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ForceFieldHelpers/MMFF /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/MMFF /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/build.make Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 68%] Building CXX object Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/testMultiThread.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/MMFF && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/testMultiThread.cpp.o -MF CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/testMultiThread.cpp.o.d -o CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/testMultiThread.cpp.o -c /<>/Code/GraphMol/ForceFieldHelpers/MMFF/testMultiThread.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/MolTransforms/test1.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void test1Canonicalization()’ at /<>/Code/GraphMol/MolTransforms/test1.cpp:36:19: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void test1Canonicalization()’ at /<>/Code/GraphMol/MolTransforms/test1.cpp:47:19: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void test1Canonicalization()’ at /<>/Code/GraphMol/MolTransforms/test1.cpp:58:19: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void test1Canonicalization()’ at /<>/Code/GraphMol/MolTransforms/test1.cpp:59:19: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void test1Canonicalization()’ at /<>/Code/GraphMol/MolTransforms/test1.cpp:68:19: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void test1Canonicalization()’ at /<>/Code/GraphMol/MolTransforms/test1.cpp:69:19: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void test1Canonicalization()’ at /<>/Code/GraphMol/MolTransforms/test1.cpp:83:19: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void test1Canonicalization()’ at /<>/Code/GraphMol/MolTransforms/test1.cpp:84:19: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void test1Canonicalization()’ at /<>/Code/GraphMol/MolTransforms/test1.cpp:98:19: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void test1Canonicalization()’ at /<>/Code/GraphMol/MolTransforms/test1.cpp:99:19: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void test1Canonicalization()’ at /<>/Code/GraphMol/MolTransforms/test1.cpp:100:19: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void testWeightedCentroid()’ at /<>/Code/GraphMol/MolTransforms/test1.cpp:400:24: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 68%] Linking CXX executable testMolTransforms cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolTransforms && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolTransforms.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testMolTransforms.dir/test1.cpp.o -o testMolTransforms ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 68%] Built target testMolTransforms make -f Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ForceFieldHelpers/UFF /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/UFF /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 68%] Building CXX object Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/testUFFHelpers.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/UFF && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/testUFFHelpers.cpp.o -MF CMakeFiles/testUFFForceFieldHelpers.dir/testUFFHelpers.cpp.o.d -o CMakeFiles/testUFFForceFieldHelpers.dir/testUFFHelpers.cpp.o -c /<>/Code/GraphMol/ForceFieldHelpers/UFF/testUFFHelpers.cpp [ 69%] Linking CXX executable testMMFFForceFieldHelpersMultiThread cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/MMFF && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/testMultiThread.cpp.o -o testMMFFForceFieldHelpersMultiThread ../../../../lib/libRDKitDistGeomHelpers.so.1.2023.09.3 ../../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../../lib/libRDKitDistGeometry.so.1.2023.09.3 ../../../../lib/libRDKitForceFieldHelpers.so.1.2023.09.3 ../../../../lib/libRDKitForceField.so.1.2023.09.3 ../../../../lib/libRDKitOptimizer.so.1.2023.09.3 ../../../../lib/libRDKitTrajectory.so.1.2023.09.3 ../../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 69%] Built target testMMFFForceFieldHelpersMultiThread make -f Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build.make Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ForceFieldHelpers/CrystalFF /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/CrystalFF /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build.make Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 69%] Building CXX object Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/testCrystalFF.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/CrystalFF && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/testCrystalFF.cpp.o -MF CMakeFiles/testCrystalForceField.dir/testCrystalFF.cpp.o.d -o CMakeFiles/testCrystalForceField.dir/testCrystalFF.cpp.o -c /<>/Code/GraphMol/ForceFieldHelpers/CrystalFF/testCrystalFF.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/ForceFieldHelpers/MMFF/testMMFFHelpers.cpp:13: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 69%] Linking CXX executable testMMFFForceFieldHelpers cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/MMFF && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMMFFForceFieldHelpers.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testMMFFForceFieldHelpers.dir/testMMFFHelpers.cpp.o -o testMMFFForceFieldHelpers ../../../../lib/libRDKitDistGeomHelpers.so.1.2023.09.3 ../../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../../lib/libRDKitDistGeometry.so.1.2023.09.3 ../../../../lib/libRDKitForceFieldHelpers.so.1.2023.09.3 ../../../../lib/libRDKitForceField.so.1.2023.09.3 ../../../../lib/libRDKitOptimizer.so.1.2023.09.3 ../../../../lib/libRDKitTrajectory.so.1.2023.09.3 ../../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 69%] Built target testMMFFForceFieldHelpers make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/DistGeomHelpers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 69%] Building CXX object Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/testDgeomHelpers.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/testDgeomHelpers.cpp.o -MF CMakeFiles/testDistGeomHelpers.dir/testDgeomHelpers.cpp.o.d -o CMakeFiles/testDistGeomHelpers.dir/testDgeomHelpers.cpp.o -c /<>/Code/GraphMol/DistGeomHelpers/testDgeomHelpers.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/ForceFieldHelpers/UFF/testUFFHelpers.cpp:13: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 69%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/CoulombMat.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/CoulombMat.cpp.o -MF CMakeFiles/Descriptors.dir/CoulombMat.cpp.o.d -o CMakeFiles/Descriptors.dir/CoulombMat.cpp.o -c /<>/Code/GraphMol/Descriptors/CoulombMat.cpp [ 69%] Linking CXX executable testCrystalForceField cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/CrystalFF && /usr/bin/cmake -E cmake_link_script CMakeFiles/testCrystalForceField.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testCrystalForceField.dir/testCrystalFF.cpp.o -o testCrystalForceField ../../../../lib/libRDKitDistGeomHelpers.so.1.2023.09.3 ../../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../../lib/libRDKitDistGeometry.so.1.2023.09.3 ../../../../lib/libRDKitForceFieldHelpers.so.1.2023.09.3 ../../../../lib/libRDKitForceField.so.1.2023.09.3 ../../../../lib/libRDKitOptimizer.so.1.2023.09.3 ../../../../lib/libRDKitTrajectory.so.1.2023.09.3 ../../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 69%] Built target testCrystalForceField make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/distGeomHelpersCatch.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/distGeomHelpersCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/DistGeomHelpers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers/CMakeFiles/distGeomHelpersCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/distGeomHelpersCatch.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/distGeomHelpersCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 69%] Building CXX object Code/GraphMol/DistGeomHelpers/CMakeFiles/distGeomHelpersCatch.dir/catch_tests.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/DistGeomHelpers/CMakeFiles/distGeomHelpersCatch.dir/catch_tests.cpp.o -MF CMakeFiles/distGeomHelpersCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/distGeomHelpersCatch.dir/catch_tests.cpp.o -c /<>/Code/GraphMol/DistGeomHelpers/catch_tests.cpp [ 69%] Linking CXX executable testUFFForceFieldHelpers cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/UFF && /usr/bin/cmake -E cmake_link_script CMakeFiles/testUFFForceFieldHelpers.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testUFFForceFieldHelpers.dir/testUFFHelpers.cpp.o -o testUFFForceFieldHelpers ../../../../lib/libRDKitDistGeomHelpers.so.1.2023.09.3 ../../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../../lib/libRDKitDistGeometry.so.1.2023.09.3 ../../../../lib/libRDKitForceFieldHelpers.so.1.2023.09.3 ../../../../lib/libRDKitForceField.so.1.2023.09.3 ../../../../lib/libRDKitOptimizer.so.1.2023.09.3 ../../../../lib/libRDKitTrajectory.so.1.2023.09.3 ../../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 69%] Built target testUFFForceFieldHelpers make -f Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/build.make Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/DistGeomHelpers/Wrap /<>/obj-arm-linux-gnueabihf 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../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1 ../../../lib/libRDKitDescriptors.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 69%] Built target Descriptors make -f Code/GraphMol/MolAlign/CMakeFiles/molAlignCatchTest.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/molAlignCatchTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolAlign /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign/CMakeFiles/molAlignCatchTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolAlign/CMakeFiles/molAlignCatchTest.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/molAlignCatchTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 69%] Building CXX object Code/GraphMol/MolAlign/CMakeFiles/molAlignCatchTest.dir/catch_tests.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/MolAlign/CMakeFiles/molAlignCatchTest.dir/catch_tests.cpp.o -MF CMakeFiles/molAlignCatchTest.dir/catch_tests.cpp.o.d -o CMakeFiles/molAlignCatchTest.dir/catch_tests.cpp.o -c /<>/Code/GraphMol/MolAlign/catch_tests.cpp In file included from /usr/include/c++/13/set:62, from /<>/Code/Query/SetQuery.h:13, from /<>/Code/Query/QueryObjects.h:29, from /<>/Code/GraphMol/Atom.h:24, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/DistGeomHelpers/testDgeomHelpers.cpp:13: /usr/include/c++/13/bits/stl_tree.h: In function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/stl_tree.h:2458:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 2458 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/map:62, from /usr/include/catch2/internal/catch_reporter_spec_parser.hpp:15, from /usr/include/catch2/catch_config.hpp:17, from /usr/include/catch2/catch_all.hpp:29, from /<>/Code/GraphMol/DistGeomHelpers/catch_tests.cpp:11: /usr/include/c++/13/bits/stl_tree.h: In function ‘std::pair std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_get_insert_hint_unique_pos(const_iterator, const key_type&) [with _Key = int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/stl_tree.h:2210:5: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 2210 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_tree.h: In function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/stl_tree.h:2458:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 2458 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/map:63: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = int; _Tp = RDGeom::Point3D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void CATCH2_INTERNAL_TEST_18()’ at /<>/Code/GraphMol/DistGeomHelpers/catch_tests.cpp:456:23: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = int; _Tp = RDGeom::Point3D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void CATCH2_INTERNAL_TEST_18()’ at /<>/Code/GraphMol/DistGeomHelpers/catch_tests.cpp:487:23: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/map:63, from /<>/Code/RDGeneral/Dict.h:19, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/GraphMol/Atom.h:25: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point3D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testGithub2246()’ at /<>/Code/GraphMol/DistGeomHelpers/testDgeomHelpers.cpp:2214:17: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point3D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testGithub2246()’ at /<>/Code/GraphMol/DistGeomHelpers/testDgeomHelpers.cpp:2236:17: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /usr/include/catch2/interfaces/catch_interfaces_config.hpp:17, from /usr/include/catch2/benchmark/catch_benchmark.hpp:20, from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, from /usr/include/catch2/catch_all.hpp:25: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::__cxx11::basic_string]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_map.h: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point3D; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point3D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testGithub55()’ at /<>/Code/GraphMol/DistGeomHelpers/testDgeomHelpers.cpp:1385:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point3D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testGithub55()’ at /<>/Code/GraphMol/DistGeomHelpers/testDgeomHelpers.cpp:1386:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point3D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testGithub55()’ at /<>/Code/GraphMol/DistGeomHelpers/testDgeomHelpers.cpp:1387:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point3D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testGithub55()’ at /<>/Code/GraphMol/DistGeomHelpers/testDgeomHelpers.cpp:1388:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point3D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testGithub55()’ at /<>/Code/GraphMol/DistGeomHelpers/testDgeomHelpers.cpp:1389:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/GraphMol/DistGeomHelpers/testDgeomHelpers.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::__cxx11::basic_string]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 69%] Linking CXX executable molAlignCatchTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_link_script CMakeFiles/molAlignCatchTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/molAlignCatchTest.dir/catch_tests.cpp.o -o molAlignCatchTest ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libcoordgen.so /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 69%] Built target molAlignCatchTest make -f Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build.make Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolAlign/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build.make Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 70%] Building CXX object Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/rdMolAlign.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolAlign_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/rdMolAlign.cpp.o -MF CMakeFiles/rdMolAlign.dir/rdMolAlign.cpp.o.d -o CMakeFiles/rdMolAlign.dir/rdMolAlign.cpp.o -c /<>/Code/GraphMol/MolAlign/Wrap/rdMolAlign.cpp [ 70%] Linking CXX executable distGeomHelpersCatch cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/distGeomHelpersCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/distGeomHelpersCatch.dir/catch_tests.cpp.o -o distGeomHelpersCatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitDistGeomHelpers.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/libCatch2.a ../../../lib/libRDKitDistGeometry.so.1.2023.09.3 ../../../lib/libRDKitForceFieldHelpers.so.1.2023.09.3 ../../../lib/libRDKitForceField.so.1.2023.09.3 ../../../lib/libRDKitOptimizer.so.1.2023.09.3 ../../../lib/libRDKitTrajectory.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libcoordgen.so /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 70%] Built target distGeomHelpersCatch make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolChemicalFeatures /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 70%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/testFeatures.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/testFeatures.cpp.o -MF CMakeFiles/testFeatures.dir/testFeatures.cpp.o.d -o CMakeFiles/testFeatures.dir/testFeatures.cpp.o -c /<>/Code/GraphMol/MolChemicalFeatures/testFeatures.cpp In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point3D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testConstrainedEmbedding()’ at /<>/Code/GraphMol/DistGeomHelpers/testDgeomHelpers.cpp:995:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point3D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testConstrainedEmbedding()’ at /<>/Code/GraphMol/DistGeomHelpers/testDgeomHelpers.cpp:996:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point3D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testConstrainedEmbedding()’ at /<>/Code/GraphMol/DistGeomHelpers/testDgeomHelpers.cpp:997:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point3D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testConstrainedEmbedding()’ at /<>/Code/GraphMol/DistGeomHelpers/testDgeomHelpers.cpp:998:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point3D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testConstrainedEmbedding()’ at /<>/Code/GraphMol/DistGeomHelpers/testDgeomHelpers.cpp:999:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point3D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testConstrainedEmbedding()’ at /<>/Code/GraphMol/DistGeomHelpers/testDgeomHelpers.cpp:1023:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point3D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testConstrainedEmbedding()’ at /<>/Code/GraphMol/DistGeomHelpers/testDgeomHelpers.cpp:1024:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point3D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testConstrainedEmbedding()’ at /<>/Code/GraphMol/DistGeomHelpers/testDgeomHelpers.cpp:1025:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point3D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testConstrainedEmbedding()’ at /<>/Code/GraphMol/DistGeomHelpers/testDgeomHelpers.cpp:1026:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point3D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void testConstrainedEmbedding()’ at /<>/Code/GraphMol/DistGeomHelpers/testDgeomHelpers.cpp:1027:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘void testTemp()’ at /<>/Code/GraphMol/DistGeomHelpers/testDgeomHelpers.cpp:504:27: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from /usr/include/c++/13/map:62, from /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:16, from /usr/include/boost/python/suite/indexing/indexing_suite.hpp:12, from /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:9, from /<>/Code/RDBoost/python.h:5, from /<>/Code/GraphMol/DistGeomHelpers/Wrap/rdDistGeom.cpp:10: /usr/include/c++/13/bits/stl_tree.h: In function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/stl_tree.h:2458:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 2458 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/map:63: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point3D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘int RDKit::EmbedMolecule(ROMol&, unsigned int, int, bool, bool, double, bool, unsigned int, boost::python::dict&, double, bool, bool, bool, bool, bool, bool, bool, unsigned int)’ at /<>/Code/GraphMol/DistGeomHelpers/Wrap/rdDistGeom.cpp:40:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDGeom::Point3D; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘RDKit::INT_VECT RDKit::EmbedMultipleConfs(ROMol&, unsigned int, unsigned int, int, bool, bool, double, bool, unsigned int, double, boost::python::dict&, double, bool, bool, int, bool, bool, bool, bool, bool, unsigned int)’ at /<>/Code/GraphMol/DistGeomHelpers/Wrap/rdDistGeom.cpp:89:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ [ 70%] Linking CXX executable testDistGeomHelpers cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDistGeomHelpers.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testDistGeomHelpers.dir/testDgeomHelpers.cpp.o -o testDistGeomHelpers ../../../lib/libRDKitDistGeomHelpers.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitDistGeometry.so.1.2023.09.3 ../../../lib/libRDKitForceFieldHelpers.so.1.2023.09.3 ../../../lib/libRDKitForceField.so.1.2023.09.3 ../../../lib/libRDKitOptimizer.so.1.2023.09.3 ../../../lib/libRDKitTrajectory.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libcoordgen.so /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 70%] Built target testDistGeomHelpers make -f Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ShapeHelpers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ShapeHelpers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 70%] Building CXX object Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/testShapeHelpers.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ShapeHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/testShapeHelpers.cpp.o -MF CMakeFiles/testShapeHelpers.dir/testShapeHelpers.cpp.o.d -o CMakeFiles/testShapeHelpers.dir/testShapeHelpers.cpp.o -c /<>/Code/GraphMol/ShapeHelpers/testShapeHelpers.cpp /<>/Code/GraphMol/MolAlign/Wrap/rdMolAlign.cpp: In function ‘RDKit::MolAlign::PyO3A* RDKit::MolAlign::getCrippenO3A(RDKit::ROMol&, RDKit::ROMol&, boost::python::list, boost::python::list, int, int, bool, unsigned int, unsigned int, boost::python::list, boost::python::list)’: /<>/Code/GraphMol/MolAlign/Wrap/rdMolAlign.cpp:453:40: warning: comparison of integer expressions of different signedness: ‘boost::python::ssize_t’ {aka ‘int’} and ‘unsigned int’ [-Wsign-compare] 453 | (python::len(prbCrippenContribs) == prbNAtoms)) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /<>/Code/GraphMol/MolAlign/Wrap/rdMolAlign.cpp:468:40: warning: comparison of integer expressions of different signedness: ‘boost::python::ssize_t’ {aka ‘int’} and ‘unsigned int’ [-Wsign-compare] 468 | (python::len(refCrippenContribs) == refNAtoms)) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /<>/Code/GraphMol/MolAlign/Wrap/rdMolAlign.cpp: In function ‘boost::python::tuple RDKit::MolAlign::getCrippenO3AForConfs(RDKit::ROMol&, RDKit::ROMol&, int, boost::python::list, boost::python::list, int, bool, unsigned int, unsigned int, boost::python::list, boost::python::list)’: /<>/Code/GraphMol/MolAlign/Wrap/rdMolAlign.cpp:529:40: warning: comparison of integer expressions of different signedness: ‘boost::python::ssize_t’ {aka ‘int’} and ‘unsigned int’ [-Wsign-compare] 529 | (python::len(prbCrippenContribs) == prbNAtoms)) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /<>/Code/GraphMol/MolAlign/Wrap/rdMolAlign.cpp:544:40: warning: comparison of integer expressions of different signedness: ‘boost::python::ssize_t’ {aka ‘int’} and ‘unsigned int’ [-Wsign-compare] 544 | (python::len(refCrippenContribs) == refNAtoms)) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/MolChemicalFeatures/testFeatures.cpp:14: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 70%] Linking CXX shared module ../../../../rdkit/Chem/rdDistGeom.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdDistGeom.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdDistGeom.so CMakeFiles/rdDistGeom.dir/rdDistGeom.cpp.o ../../../../lib/libRDKitDistGeomHelpers.so.1.2023.09.3 ../../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitDistGeometry.so.1.2023.09.3 ../../../../lib/libRDKitForceFieldHelpers.so.1.2023.09.3 ../../../../lib/libRDKitForceField.so.1.2023.09.3 ../../../../lib/libRDKitOptimizer.so.1.2023.09.3 ../../../../lib/libRDKitTrajectory.so.1.2023.09.3 ../../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../../lib/libRDKitDepictor.so.1.2023.09.3 ../../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so /usr/lib/arm-linux-gnueabihf/libmaeparser.so /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 70%] Built target rdDistGeom make -f Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolCatalog /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolCatalog /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 70%] Building CXX object Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/test1.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/test1.cpp.o -MF CMakeFiles/testMolCatalog.dir/test1.cpp.o.d -o CMakeFiles/testMolCatalog.dir/test1.cpp.o -c /<>/Code/GraphMol/MolCatalog/test1.cpp In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void test6()’ at /<>/Code/GraphMol/MolChemicalFeatures/testFeatures.cpp:417:19: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void test6()’ at /<>/Code/GraphMol/MolChemicalFeatures/testFeatures.cpp:418:19: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void test6()’ at /<>/Code/GraphMol/MolChemicalFeatures/testFeatures.cpp:419:19: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void testGithub2077()’ at /<>/Code/GraphMol/MolChemicalFeatures/testFeatures.cpp:890:19: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void testGithub2077()’ at /<>/Code/GraphMol/MolChemicalFeatures/testFeatures.cpp:891:19: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void testGithub2077()’ at /<>/Code/GraphMol/MolChemicalFeatures/testFeatures.cpp:892:19: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void testGithub2077()’ at /<>/Code/GraphMol/MolChemicalFeatures/testFeatures.cpp:896:19: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void testGithub2077()’ at /<>/Code/GraphMol/MolChemicalFeatures/testFeatures.cpp:897:19: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void testGithub2077()’ at /<>/Code/GraphMol/MolChemicalFeatures/testFeatures.cpp:898:19: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 70%] Linking CXX executable testFeatures cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFeatures.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testFeatures.dir/testFeatures.cpp.o -o testFeatures ../../../lib/libRDKitMolChemicalFeatures.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 70%] Built target testFeatures make -f Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FMCS /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 70%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/FMCS.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFMCS_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FMCS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/FMCS.cpp.o -MF CMakeFiles/FMCS.dir/FMCS.cpp.o.d -o CMakeFiles/FMCS.dir/FMCS.cpp.o -c /<>/Code/GraphMol/FMCS/FMCS.cpp [ 70%] Linking CXX executable testShapeHelpers cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ShapeHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testShapeHelpers.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testShapeHelpers.dir/testShapeHelpers.cpp.o -o testShapeHelpers ../../../lib/libRDKitShapeHelpers.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libcoordgen.so /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 70%] Built target testShapeHelpers make -f Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build.make Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolHash /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build.make Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 70%] Building CXX object Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/hashfunctions.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolHash_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLHASH_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/hashfunctions.cpp.o -MF CMakeFiles/MolHash.dir/hashfunctions.cpp.o.d -o CMakeFiles/MolHash.dir/hashfunctions.cpp.o -c /<>/Code/GraphMol/MolHash/hashfunctions.cpp [ 70%] Linking CXX executable testMolCatalog cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolCatalog.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testMolCatalog.dir/test1.cpp.o -o testMolCatalog ../../../lib/libRDKitMolCatalog.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 70%] Built target testMolCatalog make -f Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MMPA /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MMPA /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 70%] Building CXX object Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/MMPA.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MMPA && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMMPA_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MMPA_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/MMPA.cpp.o -MF CMakeFiles/MMPA.dir/MMPA.cpp.o.d -o CMakeFiles/MMPA.dir/MMPA.cpp.o -c /<>/Code/GraphMol/MMPA/MMPA.cpp [ 70%] Linking CXX shared module ../../../../rdkit/Chem/rdMolAlign.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolAlign.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolAlign.so CMakeFiles/rdMolAlign.dir/rdMolAlign.cpp.o ../../../../lib/libRDKitO3AAlign.so.1.2023.09.3 ../../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitForceFieldHelpers.so.1.2023.09.3 ../../../../lib/libRDKitForceField.so.1.2023.09.3 ../../../../lib/libRDKitOptimizer.so.1.2023.09.3 ../../../../lib/libRDKitTrajectory.so.1.2023.09.3 ../../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../../lib/libRDKitDepictor.so.1.2023.09.3 ../../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../../lib/libRDKitGenericGroups.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 70%] Built target rdMolAlign make -f Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/build.make Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/RascalMCES /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RascalMCES /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/build.make Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 70%] Building CXX object Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/RascalMCES.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RascalMCES && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_RASCALMCES_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRascalMCES_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/RascalMCES.cpp.o -MF CMakeFiles/RascalMCES.dir/RascalMCES.cpp.o.d -o CMakeFiles/RascalMCES.dir/RascalMCES.cpp.o -c /<>/Code/GraphMol/RascalMCES/RascalMCES.cpp [ 70%] Building CXX object Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/normalize.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolHash_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLHASH_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/normalize.cpp.o -MF CMakeFiles/MolHash.dir/normalize.cpp.o.d -o CMakeFiles/MolHash.dir/normalize.cpp.o -c /<>/Code/GraphMol/MolHash/normalize.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/GraphMol/MMPA/MMPA.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 70%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/Seed.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFMCS_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FMCS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/Seed.cpp.o -MF CMakeFiles/FMCS.dir/Seed.cpp.o.d -o CMakeFiles/FMCS.dir/Seed.cpp.o -c /<>/Code/GraphMol/FMCS/Seed.cpp [ 70%] Linking CXX shared library ../../../lib/libRDKitMMPA.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MMPA && /usr/bin/cmake -E cmake_link_script CMakeFiles/MMPA.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMMPA.so.1 -o ../../../lib/libRDKitMMPA.so.1.2023.09.3 CMakeFiles/MMPA.dir/MMPA.cpp.o ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MMPA && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMMPA.so.1.2023.09.3 ../../../lib/libRDKitMMPA.so.1 ../../../lib/libRDKitMMPA.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 70%] Built target MMPA [ 70%] Building CXX object Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/RascalCluster.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RascalMCES && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_RASCALMCES_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRascalMCES_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/RascalCluster.cpp.o -MF CMakeFiles/RascalMCES.dir/RascalCluster.cpp.o.d -o CMakeFiles/RascalMCES.dir/RascalCluster.cpp.o -c /<>/Code/GraphMol/RascalMCES/RascalCluster.cpp In file included from /usr/include/c++/13/regex:59, from /<>/Code/GraphMol/RascalMCES/RascalMCES.cpp:21: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/MolHash/normalize.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::vector >]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::RascalMCES::RascalResult}; _Tp = RDKit::RascalMCES::RascalResult; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ [ 70%] Linking CXX shared library ../../../lib/libRDKitMolHash.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolHash.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMolHash.so.1 -o ../../../lib/libRDKitMolHash.so.1.2023.09.3 CMakeFiles/MolHash.dir/hashfunctions.cpp.o CMakeFiles/MolHash.dir/normalize.cpp.o ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolHash.so.1.2023.09.3 ../../../lib/libRDKitMolHash.so.1 ../../../lib/libRDKitMolHash.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 70%] Built target MolHash make -f Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/CIPLabeler /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 70%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/catch_tests.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/catch_tests.cpp.o -MF CMakeFiles/testCIPLabeler.dir/catch_tests.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/catch_tests.cpp.o -c /<>/Code/GraphMol/CIPLabeler/catch_tests.cpp In file included from /usr/include/c++/13/regex:52: /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Val_comp_iter]’: /usr/include/c++/13/bits/stl_algo.h:1792:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1792 | __unguarded_linear_insert(_RandomAccessIterator __last, | ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’: /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1812 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In file included from /usr/include/c++/13/bits/stl_algo.h:61: /usr/include/c++/13/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = RDKit::RascalMCES::RascalResult; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’: /usr/include/c++/13/bits/stl_heap.h:224:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’: /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1918 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_algo.h:1932:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1932 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::RascalMCES::RascalResult}; _Tp = RDKit::RascalMCES::RascalResult; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::RascalMCES::RascalResult; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘std::vector RDKit::RascalMCES::findMCES(RascalStartPoint&, const RascalOptions&)’ at /<>/Code/GraphMol/RascalMCES/RascalMCES.cpp:1061:22: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = bool (*)(const RDKit::RascalMCES::RascalResult&, const RDKit::RascalMCES::RascalResult&)]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘std::vector RDKit::RascalMCES::findMCES(RascalStartPoint&, const RascalOptions&)’ at /<>/Code/GraphMol/RascalMCES/RascalMCES.cpp:1068:12: /usr/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1947 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1948 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1949 | __comp); | ~~~~~~~ In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’, inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’ at /usr/include/c++/13/bits/stl_algo.h:1950:31, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = bool (*)(const RDKit::RascalMCES::RascalResult&, const RDKit::RascalMCES::RascalResult&)]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘std::vector RDKit::RascalMCES::findMCES(RascalStartPoint&, const RascalOptions&)’ at /<>/Code/GraphMol/RascalMCES/RascalMCES.cpp:1068:12: /usr/include/c++/13/bits/stl_algo.h:1859:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1859 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1864:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1864 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algo.h:61, from /usr/include/c++/13/algorithm:61, from /<>/Code/GraphMol/RascalMCES/RascalCluster.cpp:19: /usr/include/c++/13/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Distance = int; _Tp = pair; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >&, std::vector >&)::&, const pair&)> >]’: /usr/include/c++/13/bits/stl_heap.h:224:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Val_comp_iter >&, std::vector >&)::&, const pair&)> >]’: /usr/include/c++/13/bits/stl_algo.h:1792:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1792 | __unguarded_linear_insert(_RandomAccessIterator __last, | ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >&, std::vector >&)::&, const pair&)> >]’: /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1812 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >&, std::vector >&)::&, const pair&)> >]’: /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1918 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_algo.h:1932:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1932 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Val_comp_iter&, const std::vector >&, const RDKit::RascalMCES::RascalClusterOptions&):: >]’: /usr/include/c++/13/bits/stl_algo.h:1792:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1792 | __unguarded_linear_insert(_RandomAccessIterator __last, | ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, const std::vector >&, const RDKit::RascalMCES::RascalClusterOptions&):: >]’: /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1812 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = RDKit::RascalMCES::details::ClusNode; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, const std::vector >&, const RDKit::RascalMCES::RascalClusterOptions&):: >]’: /usr/include/c++/13/bits/stl_heap.h:224:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/GraphMol/RascalMCES/RascalCluster.cpp:23: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const RDKit::RascalMCES::details::ClusNode&}; _Tp = RDKit::RascalMCES::details::ClusNode; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ [ 70%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/MaximumCommonSubgraph.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFMCS_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FMCS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/MaximumCommonSubgraph.cpp.o -MF CMakeFiles/FMCS.dir/MaximumCommonSubgraph.cpp.o.d -o CMakeFiles/FMCS.dir/MaximumCommonSubgraph.cpp.o -c /<>/Code/GraphMol/FMCS/MaximumCommonSubgraph.cpp /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = std::pair; _Alloc = std::allocator >]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::RascalMCES::details::sortClusterMembersByMeanSim(const std::vector >&, std::vector >&)’ at /<>/Code/GraphMol/RascalMCES/RascalCluster.cpp:316:25: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >&, std::vector >&)::&, const pair&)> >]’, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator*, vector > >; _Compare = RDKit::RascalMCES::details::sortClusterMembersByMeanSim(const std::vector >&, std::vector >&)::&, const pair&)>]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘void RDKit::RascalMCES::details::sortClusterMembersByMeanSim(const std::vector >&, std::vector >&)’ at /<>/Code/GraphMol/RascalMCES/RascalCluster.cpp:318:14: /usr/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1947 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1948 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1949 | __comp); | ~~~~~~~ In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >&, std::vector >&)::&, const pair&)> >]’, inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >&, std::vector >&)::&, const pair&)> >]’ at /usr/include/c++/13/bits/stl_algo.h:1950:31, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator*, vector > >; _Compare = RDKit::RascalMCES::details::sortClusterMembersByMeanSim(const std::vector >&, std::vector >&)::&, const pair&)>]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘void RDKit::RascalMCES::details::sortClusterMembersByMeanSim(const std::vector >&, std::vector >&)’ at /<>/Code/GraphMol/RascalMCES/RascalCluster.cpp:318:14: /usr/include/c++/13/bits/stl_algo.h:1859:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1859 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1864:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1864 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, const std::vector >&, const RDKit::RascalMCES::RascalClusterOptions&):: >]’: /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1918 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_algo.h:1932:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1932 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDKit::RascalMCES::details::ClusNode; _Alloc = std::allocator]’, inlined from ‘std::vector > RDKit::RascalMCES::details::formInitialClusters(const std::vector&, const std::vector >&, const RDKit::RascalMCES::RascalClusterOptions&)’ at /<>/Code/GraphMol/RascalMCES/RascalCluster.cpp:240:24: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, const std::vector >&, const RDKit::RascalMCES::RascalClusterOptions&):: >]’, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = RDKit::RascalMCES::details::formInitialClusters(const std::vector&, const std::vector >&, const RDKit::RascalMCES::RascalClusterOptions&)::]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘std::vector > RDKit::RascalMCES::details::formInitialClusters(const std::vector&, const std::vector >&, const RDKit::RascalMCES::RascalClusterOptions&)’ at /<>/Code/GraphMol/RascalMCES/RascalCluster.cpp:243:14: /usr/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1947 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1948 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1949 | __comp); | ~~~~~~~ In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, const std::vector >&, const RDKit::RascalMCES::RascalClusterOptions&):: >]’, inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, const std::vector >&, const RDKit::RascalMCES::RascalClusterOptions&):: >]’ at /usr/include/c++/13/bits/stl_algo.h:1950:31, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = RDKit::RascalMCES::details::formInitialClusters(const std::vector&, const std::vector >&, const RDKit::RascalMCES::RascalClusterOptions&)::]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘std::vector > RDKit::RascalMCES::details::formInitialClusters(const std::vector&, const std::vector >&, const RDKit::RascalMCES::RascalClusterOptions&)’ at /<>/Code/GraphMol/RascalMCES/RascalCluster.cpp:243:14: /usr/include/c++/13/bits/stl_algo.h:1859:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1859 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1864:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1864 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ [ 70%] Building CXX object Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/RascalButinaCluster.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RascalMCES && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_RASCALMCES_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRascalMCES_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/RascalButinaCluster.cpp.o -MF CMakeFiles/RascalMCES.dir/RascalButinaCluster.cpp.o.d -o CMakeFiles/RascalMCES.dir/RascalButinaCluster.cpp.o -c /<>/Code/GraphMol/RascalMCES/RascalButinaCluster.cpp [ 70%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/SubstructMatchCustom.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFMCS_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FMCS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/SubstructMatchCustom.cpp.o -MF CMakeFiles/FMCS.dir/SubstructMatchCustom.cpp.o.d -o CMakeFiles/FMCS.dir/SubstructMatchCustom.cpp.o -c /<>/Code/GraphMol/FMCS/SubstructMatchCustom.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/GraphMol/CIPLabeler/catch_tests.cpp:14: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::vector >]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algo.h:61, from /usr/include/c++/13/algorithm:61, from /<>/Code/GraphMol/RascalMCES/RascalButinaCluster.cpp:15: /usr/include/c++/13/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Distance = int; _Tp = pair; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >&)::&, const pair&)> >]’: /usr/include/c++/13/bits/stl_heap.h:224:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Val_comp_iter >&)::&, const pair&)> >]’: /usr/include/c++/13/bits/stl_algo.h:1792:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1792 | __unguarded_linear_insert(_RandomAccessIterator __last, | ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >&)::&, const pair&)> >]’: /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1812 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >&)::&, const pair&)> >]’: /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1918 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_algo.h:1932:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1932 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/GraphMol/RascalMCES/RascalButinaCluster.cpp:17: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >&)::&, const pair&)> >]’, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator*, vector > >; _Compare = RDKit::RascalMCES::details::buildNborLists(const std::vector >&)::&, const pair&)>]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘std::vector > RDKit::RascalMCES::details::buildNborLists(const std::vector >&)’ at /<>/Code/GraphMol/RascalMCES/RascalButinaCluster.cpp:43:14: /usr/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1947 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1948 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1949 | __comp); | ~~~~~~~ In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >&)::&, const pair&)> >]’, inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >&)::&, const pair&)> >]’ at /usr/include/c++/13/bits/stl_algo.h:1950:31, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator*, vector > >; _Compare = RDKit::RascalMCES::details::buildNborLists(const std::vector >&)::&, const pair&)>]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘std::vector > RDKit::RascalMCES::details::buildNborLists(const std::vector >&)’ at /<>/Code/GraphMol/RascalMCES/RascalButinaCluster.cpp:43:14: /usr/include/c++/13/bits/stl_algo.h:1859:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1859 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1864:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1864 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ [ 71%] Building CXX object Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/lap_a_la_scipy.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RascalMCES && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_RASCALMCES_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRascalMCES_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/lap_a_la_scipy.cpp.o -MF CMakeFiles/RascalMCES.dir/lap_a_la_scipy.cpp.o.d -o CMakeFiles/RascalMCES.dir/lap_a_la_scipy.cpp.o -c /<>/Code/GraphMol/RascalMCES/lap_a_la_scipy.cpp [ 71%] Building CXX object Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/PartitionSet.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RascalMCES && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_RASCALMCES_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRascalMCES_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/PartitionSet.cpp.o -MF CMakeFiles/RascalMCES.dir/PartitionSet.cpp.o.d -o CMakeFiles/RascalMCES.dir/PartitionSet.cpp.o -c /<>/Code/GraphMol/RascalMCES/PartitionSet.cpp [ 72%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/CIPMol.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/CIPMol.cpp.o -MF CMakeFiles/testCIPLabeler.dir/CIPMol.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/CIPMol.cpp.o -c /<>/Code/GraphMol/CIPLabeler/CIPMol.cpp In file included from /usr/include/c++/13/set:62, from /<>/Code/Query/SetQuery.h:13, from /<>/Code/Query/QueryObjects.h:29, from /<>/Code/GraphMol/FMCS/../Atom.h:24, from /<>/Code/GraphMol/FMCS/../QueryAtom.h:15, from /<>/Code/GraphMol/FMCS/MaximumCommonSubgraph.cpp:13: /usr/include/c++/13/bits/stl_tree.h: In member function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {std::pair}; _Key = long long unsigned int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/stl_tree.h:2458:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 2458 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 72%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/CIPLabeler.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/CIPLabeler.cpp.o -MF CMakeFiles/testCIPLabeler.dir/CIPLabeler.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/CIPLabeler.cpp.o -c /<>/Code/GraphMol/CIPLabeler/CIPLabeler.cpp [ 72%] Building CXX object Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/RascalResult.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RascalMCES && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_RASCALMCES_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRascalMCES_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/RascalResult.cpp.o -MF CMakeFiles/RascalMCES.dir/RascalResult.cpp.o.d -o CMakeFiles/RascalMCES.dir/RascalResult.cpp.o -c /<>/Code/GraphMol/RascalMCES/RascalResult.cpp In file included from /usr/include/c++/13/map:63, from /<>/Code/RDGeneral/Dict.h:19, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/GraphMol/FMCS/../Atom.h:25: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair}; _Key = long long unsigned int; _Tp = unsigned int; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘std::__enable_if_t, _Pair>::value, std::pair, std::_Select1st >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair; _Key = long long unsigned int; _Tp = unsigned int; _Compare = std::less; _Alloc = std::allocator >]’ at /usr/include/c++/13/bits/stl_map.h:860:27, inlined from ‘void RDKit::FMCS::SubstructureCache::add(const RDKit::FMCS::Seed&, TKey&, TIndexEntry*)’ at /<>/Code/GraphMol/FMCS/SubstructureCache.h:153:21: /usr/include/c++/13/bits/stl_map.h:640:45: note: parameter passing for argument of type ‘std::map::const_iterator’ {aka ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’} changed in GCC 7.1 640 | return _M_t._M_emplace_hint_unique(__pos, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ 641 | std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 72%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Mancude.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Mancude.cpp.o -MF CMakeFiles/testCIPLabeler.dir/Mancude.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/Mancude.cpp.o -c /<>/Code/GraphMol/CIPLabeler/Mancude.cpp [ 72%] Linking CXX shared library ../../../lib/libRDKitFMCS.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS && /usr/bin/cmake -E cmake_link_script CMakeFiles/FMCS.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitFMCS.so.1 -o ../../../lib/libRDKitFMCS.so.1.2023.09.3 CMakeFiles/FMCS.dir/FMCS.cpp.o CMakeFiles/FMCS.dir/Seed.cpp.o CMakeFiles/FMCS.dir/MaximumCommonSubgraph.cpp.o CMakeFiles/FMCS.dir/SubstructMatchCustom.cpp.o ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFMCS.so.1.2023.09.3 ../../../lib/libRDKitFMCS.so.1 ../../../lib/libRDKitFMCS.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 72%] Built target FMCS make -f Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Trajectory /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Trajectory /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 72%] Building CXX object Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/trajectoryTest.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Trajectory && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/trajectoryTest.cpp.o -MF CMakeFiles/trajectoryTest.dir/trajectoryTest.cpp.o.d -o CMakeFiles/trajectoryTest.dir/trajectoryTest.cpp.o -c /<>/Code/GraphMol/Trajectory/trajectoryTest.cpp [ 72%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Digraph.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Digraph.cpp.o -MF CMakeFiles/testCIPLabeler.dir/Digraph.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/Digraph.cpp.o -c /<>/Code/GraphMol/CIPLabeler/Digraph.cpp [ 72%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Node.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Node.cpp.o -MF CMakeFiles/testCIPLabeler.dir/Node.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/Node.cpp.o -c /<>/Code/GraphMol/CIPLabeler/Node.cpp [ 72%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Edge.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Edge.cpp.o -MF CMakeFiles/testCIPLabeler.dir/Edge.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/Edge.cpp.o -c /<>/Code/GraphMol/CIPLabeler/Edge.cpp In file included from /usr/include/c++/13/regex:59, from /<>/Code/GraphMol/RascalMCES/RascalResult.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 72%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Sort.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Sort.cpp.o -MF CMakeFiles/testCIPLabeler.dir/Sort.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/Sort.cpp.o -c /<>/Code/GraphMol/CIPLabeler/Sort.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/GraphMol/Trajectory/Trajectory.h:14, from /<>/Code/GraphMol/Trajectory/trajectoryTest.cpp:13: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::__cxx11::basic_string]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 73%] Linking CXX executable trajectoryTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Trajectory && /usr/bin/cmake -E cmake_link_script CMakeFiles/trajectoryTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/trajectoryTest.dir/trajectoryTest.cpp.o -o trajectoryTest ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitForceFieldHelpers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitForceField.so.1.2023.09.3 ../../../lib/libRDKitOptimizer.so.1.2023.09.3 ../../../lib/libRDKitTrajectory.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 73%] Built target trajectoryTest make -f Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolInterchange /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 74%] Building CXX object Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/test1.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/rapidjson -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/test1.cpp.o -MF CMakeFiles/molInterchangeTest1.dir/test1.cpp.o.d -o CMakeFiles/molInterchangeTest1.dir/test1.cpp.o -c /<>/Code/GraphMol/MolInterchange/test1.cpp [ 74%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/configs/Configuration.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/configs/Configuration.cpp.o -MF CMakeFiles/testCIPLabeler.dir/configs/Configuration.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/configs/Configuration.cpp.o -c /<>/Code/GraphMol/CIPLabeler/configs/Configuration.cpp [ 74%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/configs/Sp2Bond.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/configs/Sp2Bond.cpp.o -MF CMakeFiles/testCIPLabeler.dir/configs/Sp2Bond.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/configs/Sp2Bond.cpp.o -c /<>/Code/GraphMol/CIPLabeler/configs/Sp2Bond.cpp [ 74%] Linking CXX shared library ../../../lib/libRDKitRascalMCES.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RascalMCES && /usr/bin/cmake -E cmake_link_script CMakeFiles/RascalMCES.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitRascalMCES.so.1 -o ../../../lib/libRDKitRascalMCES.so.1.2023.09.3 CMakeFiles/RascalMCES.dir/RascalMCES.cpp.o CMakeFiles/RascalMCES.dir/RascalCluster.cpp.o CMakeFiles/RascalMCES.dir/RascalButinaCluster.cpp.o CMakeFiles/RascalMCES.dir/lap_a_la_scipy.cpp.o CMakeFiles/RascalMCES.dir/PartitionSet.cpp.o CMakeFiles/RascalMCES.dir/RascalResult.cpp.o ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RascalMCES && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitRascalMCES.so.1.2023.09.3 ../../../lib/libRDKitRascalMCES.so.1 ../../../lib/libRDKitRascalMCES.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 74%] Built target RascalMCES make -f Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeCatchTest.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeCatchTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolInterchange /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeCatchTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeCatchTest.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeCatchTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 74%] Building CXX object Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeCatchTest.dir/molinterchange_catch.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/rapidjson -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeCatchTest.dir/molinterchange_catch.cpp.o -MF CMakeFiles/molInterchangeCatchTest.dir/molinterchange_catch.cpp.o.d -o CMakeFiles/molInterchangeCatchTest.dir/molinterchange_catch.cpp.o -c /<>/Code/GraphMol/MolInterchange/molinterchange_catch.cpp [ 75%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/configs/Tetrahedral.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/configs/Tetrahedral.cpp.o -MF CMakeFiles/testCIPLabeler.dir/configs/Tetrahedral.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/configs/Tetrahedral.cpp.o -c /<>/Code/GraphMol/CIPLabeler/configs/Tetrahedral.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/RDGeneral/types.h:27, from /<>/Code/GraphMol/Chirality.h:16, from /<>/Code/GraphMol/CIPLabeler/configs/Sp2Bond.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::__cxx11::basic_string]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 75%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule1a.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule1a.cpp.o -MF CMakeFiles/testCIPLabeler.dir/rules/Rule1a.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/rules/Rule1a.cpp.o -c /<>/Code/GraphMol/CIPLabeler/rules/Rule1a.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/GraphMol/MolInterchange/test1.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 75%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule1b.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule1b.cpp.o -MF CMakeFiles/testCIPLabeler.dir/rules/Rule1b.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/rules/Rule1b.cpp.o -c /<>/Code/GraphMol/CIPLabeler/rules/Rule1b.cpp [ 75%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule2.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule2.cpp.o -MF CMakeFiles/testCIPLabeler.dir/rules/Rule2.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/rules/Rule2.cpp.o -c /<>/Code/GraphMol/CIPLabeler/rules/Rule2.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/GraphMol/CIPLabeler/configs/Configuration.h:14, from /<>/Code/GraphMol/CIPLabeler/configs/Tetrahedral.h:13, from /<>/Code/GraphMol/CIPLabeler/configs/Tetrahedral.cpp:12: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::__cxx11::basic_string]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 75%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule3.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule3.cpp.o -MF CMakeFiles/testCIPLabeler.dir/rules/Rule3.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/rules/Rule3.cpp.o -c /<>/Code/GraphMol/CIPLabeler/rules/Rule3.cpp [ 75%] Linking CXX executable molInterchangeTest1 cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange && /usr/bin/cmake -E cmake_link_script CMakeFiles/molInterchangeTest1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/molInterchangeTest1.dir/test1.cpp.o -o molInterchangeTest1 ../../../lib/libRDKitMolInterchange.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 75%] Built target molInterchangeTest1 make -f Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/build.make Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Abbreviations /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Abbreviations /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/build.make Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 75%] Building CXX object Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/catch_tests.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Abbreviations && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/catch_tests.cpp.o -MF CMakeFiles/testAbbreviations.dir/catch_tests.cpp.o.d -o CMakeFiles/testAbbreviations.dir/catch_tests.cpp.o -c /<>/Code/GraphMol/Abbreviations/catch_tests.cpp [ 75%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule4a.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule4a.cpp.o -MF CMakeFiles/testCIPLabeler.dir/rules/Rule4a.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/rules/Rule4a.cpp.o -c /<>/Code/GraphMol/CIPLabeler/rules/Rule4a.cpp [ 75%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule4b.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule4b.cpp.o -MF CMakeFiles/testCIPLabeler.dir/rules/Rule4b.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/rules/Rule4b.cpp.o -c /<>/Code/GraphMol/CIPLabeler/rules/Rule4b.cpp [ 75%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule4c.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule4c.cpp.o -MF CMakeFiles/testCIPLabeler.dir/rules/Rule4c.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/rules/Rule4c.cpp.o -c /<>/Code/GraphMol/CIPLabeler/rules/Rule4c.cpp [ 75%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule5.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule5.cpp.o -MF CMakeFiles/testCIPLabeler.dir/rules/Rule5.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/rules/Rule5.cpp.o -c /<>/Code/GraphMol/CIPLabeler/rules/Rule5.cpp [ 75%] Linking CXX executable molInterchangeCatchTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange && /usr/bin/cmake -E cmake_link_script CMakeFiles/molInterchangeCatchTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/molInterchangeCatchTest.dir/molinterchange_catch.cpp.o -o molInterchangeCatchTest ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitMolInterchange.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so [ 76%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule5New.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule5New.cpp.o -MF CMakeFiles/testCIPLabeler.dir/rules/Rule5New.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/rules/Rule5New.cpp.o -c /<>/Code/GraphMol/CIPLabeler/rules/Rule5New.cpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 76%] Built target molInterchangeCatchTest make -f Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ChemReactions /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f 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-Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Reaction.cpp.o -MF CMakeFiles/ChemReactions.dir/Reaction.cpp.o.d -o CMakeFiles/ChemReactions.dir/Reaction.cpp.o -c /<>/Code/GraphMol/ChemReactions/Reaction.cpp [ 76%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule6.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule6.cpp.o -MF CMakeFiles/testCIPLabeler.dir/rules/Rule6.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/rules/Rule6.cpp.o -c /<>/Code/GraphMol/CIPLabeler/rules/Rule6.cpp [ 76%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/SequenceRule.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/SequenceRule.cpp.o -MF CMakeFiles/testCIPLabeler.dir/rules/SequenceRule.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/rules/SequenceRule.cpp.o -c /<>/Code/GraphMol/CIPLabeler/rules/SequenceRule.cpp [ 76%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/MDLParser.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/MDLParser.cpp.o -MF CMakeFiles/ChemReactions.dir/MDLParser.cpp.o.d -o CMakeFiles/ChemReactions.dir/MDLParser.cpp.o -c /<>/Code/GraphMol/ChemReactions/MDLParser.cpp [ 76%] Linking CXX executable testCIPLabeler cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler && /usr/bin/cmake -E cmake_link_script CMakeFiles/testCIPLabeler.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testCIPLabeler.dir/catch_tests.cpp.o CMakeFiles/testCIPLabeler.dir/CIPMol.cpp.o CMakeFiles/testCIPLabeler.dir/CIPLabeler.cpp.o CMakeFiles/testCIPLabeler.dir/Mancude.cpp.o CMakeFiles/testCIPLabeler.dir/Digraph.cpp.o CMakeFiles/testCIPLabeler.dir/Node.cpp.o CMakeFiles/testCIPLabeler.dir/Edge.cpp.o CMakeFiles/testCIPLabeler.dir/Sort.cpp.o CMakeFiles/testCIPLabeler.dir/configs/Configuration.cpp.o CMakeFiles/testCIPLabeler.dir/configs/Sp2Bond.cpp.o CMakeFiles/testCIPLabeler.dir/configs/Tetrahedral.cpp.o CMakeFiles/testCIPLabeler.dir/rules/Rule1a.cpp.o CMakeFiles/testCIPLabeler.dir/rules/Rule1b.cpp.o CMakeFiles/testCIPLabeler.dir/rules/Rule2.cpp.o CMakeFiles/testCIPLabeler.dir/rules/Rule3.cpp.o CMakeFiles/testCIPLabeler.dir/rules/Rule4a.cpp.o CMakeFiles/testCIPLabeler.dir/rules/Rule4b.cpp.o CMakeFiles/testCIPLabeler.dir/rules/Rule4c.cpp.o CMakeFiles/testCIPLabeler.dir/rules/Rule5.cpp.o CMakeFiles/testCIPLabeler.dir/rules/Rule5New.cpp.o CMakeFiles/testCIPLabeler.dir/rules/Rule6.cpp.o CMakeFiles/testCIPLabeler.dir/rules/SequenceRule.cpp.o -o testCIPLabeler ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/ChemReactions/Reaction.h:39, from /<>/Code/GraphMol/ChemReactions/Reaction.cpp:35: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 76%] Built target testCIPLabeler make -f Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f 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CXX executable testATF cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testATF.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testATF.dir/testATF.cpp.o -o testATF ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 77%] Built target testATF make -f Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 77%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/testBCUT.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/testBCUT.cpp.o -MF CMakeFiles/testBCUT.dir/testBCUT.cpp.o.d -o CMakeFiles/testBCUT.dir/testBCUT.cpp.o -c /<>/Code/GraphMol/Descriptors/testBCUT.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/ChemReactions/Reaction.h:39, from /<>/Code/GraphMol/ChemReactions/ReactionWriter.cpp:35: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setPODVal(const std::string&, T) [with T = int]’ at /<>/Code/RDGeneral/Dict.h:285:20, inlined from ‘void RDKit::Dict::setVal(const std::string&, int)’ at /<>/Code/RDGeneral/Dict.h:294:60, inlined from ‘void RDKit::RDProps::setProp(const std::string&, T, bool) const [with T = int]’ at /<>/Code/RDGeneral/RDProps.h:86:19, inlined from ‘void {anonymous}::setRXNRoleOfAllMoleculeAtoms(RDKit::ROMol&, int)’ at /<>/Code/GraphMol/ChemReactions/ReactionWriter.cpp:51:19: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 77%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionFingerprints.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionFingerprints.cpp.o -MF CMakeFiles/ChemReactions.dir/ReactionFingerprints.cpp.o.d -o CMakeFiles/ChemReactions.dir/ReactionFingerprints.cpp.o -c /<>/Code/GraphMol/ChemReactions/ReactionFingerprints.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/c++/13/functional:64, from /usr/include/boost/algorithm/string/detail/classification.hpp:17, from /usr/include/boost/algorithm/string/classification.hpp:18, from /usr/include/boost/algorithm/string/trim.hpp:23, from /usr/include/boost/algorithm/string.hpp:19, from /<>/Code/GraphMol/Descriptors/test.cpp:16: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 [ 77%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionUtils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionUtils.cpp.o -MF CMakeFiles/ChemReactions.dir/ReactionUtils.cpp.o.d -o CMakeFiles/ChemReactions.dir/ReactionUtils.cpp.o -c /<>/Code/GraphMol/ChemReactions/ReactionUtils.cpp In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘void testProperties()’ at /<>/Code/GraphMol/Descriptors/test.cpp:1892:20: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void testProperties()’ at /<>/Code/GraphMol/Descriptors/test.cpp:1906:18: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void testProperties()’ at /<>/Code/GraphMol/Descriptors/test.cpp:1907:18: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 77%] Linking CXX executable testBCUT cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testBCUT.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testBCUT.dir/testBCUT.cpp.o -o testBCUT ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 77%] Built target testBCUT make -f Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 77%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/testEEM.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/testEEM.cpp.o -MF CMakeFiles/testEEM.dir/testEEM.cpp.o.d -o CMakeFiles/testEEM.dir/testEEM.cpp.o -c /<>/Code/GraphMol/Descriptors/testEEM.cpp [ 77%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/MoleculeParser.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/MoleculeParser.cpp.o -MF CMakeFiles/ChemReactions.dir/MoleculeParser.cpp.o.d -o CMakeFiles/ChemReactions.dir/MoleculeParser.cpp.o -c /<>/Code/GraphMol/ChemReactions/MoleculeParser.cpp [ 77%] Linking CXX executable testDescriptors cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDescriptors.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testDescriptors.dir/test.cpp.o -o testDescriptors ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 77%] Built target testDescriptors make -f Code/GraphMol/Descriptors/CMakeFiles/testPBF.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testPBF.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/CMakeFiles/testPBF.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Descriptors/CMakeFiles/testPBF.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testPBF.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 77%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testPBF.dir/testPBF.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/Descriptors/CMakeFiles/testPBF.dir/testPBF.cpp.o -MF CMakeFiles/testPBF.dir/testPBF.cpp.o.d -o CMakeFiles/testPBF.dir/testPBF.cpp.o -c /<>/Code/GraphMol/Descriptors/testPBF.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/ChemReactions/Reaction.h:39, from /<>/Code/GraphMol/ChemReactions/ReactionUtils.cpp:33: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 77%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionRunner.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionRunner.cpp.o -MF CMakeFiles/ChemReactions.dir/ReactionRunner.cpp.o.d -o CMakeFiles/ChemReactions.dir/ReactionRunner.cpp.o -c /<>/Code/GraphMol/ChemReactions/ReactionRunner.cpp [ 77%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/PreprocessRxn.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/PreprocessRxn.cpp.o -MF CMakeFiles/ChemReactions.dir/PreprocessRxn.cpp.o.d -o CMakeFiles/ChemReactions.dir/PreprocessRxn.cpp.o -c /<>/Code/GraphMol/ChemReactions/PreprocessRxn.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/Descriptors/testPBF.cpp:12: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘void testPBFEdges()’ at /<>/Code/GraphMol/Descriptors/testPBF.cpp:114:56: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 77%] Linking CXX executable testEEM cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testEEM.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testEEM.dir/testEEM.cpp.o -o testEEM ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 77%] Built target testEEM make -f Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 77%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/testRDFcustom.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/testRDFcustom.cpp.o -MF CMakeFiles/testRDFcustom.dir/testRDFcustom.cpp.o.d -o CMakeFiles/testRDFcustom.dir/testRDFcustom.cpp.o -c /<>/Code/GraphMol/Descriptors/testRDFcustom.cpp [ 77%] Linking CXX executable testPBF cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testPBF.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testPBF.dir/testPBF.cpp.o -o testPBF ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 77%] Built target testPBF make -f Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 77%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/testRDF.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/testRDF.cpp.o -MF CMakeFiles/testRDF.dir/testRDF.cpp.o.d -o CMakeFiles/testRDF.dir/testRDF.cpp.o -c /<>/Code/GraphMol/Descriptors/testRDF.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/ChemReactions/Reaction.h:39, from /<>/Code/GraphMol/ChemReactions/ReactionRunner.cpp:35: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ [ 77%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/SanitizeRxn.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/SanitizeRxn.cpp.o -MF CMakeFiles/ChemReactions.dir/SanitizeRxn.cpp.o.d -o CMakeFiles/ChemReactions.dir/SanitizeRxn.cpp.o -c /<>/Code/GraphMol/ChemReactions/SanitizeRxn.cpp In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::ReactionRunnerUtils::generateProductConformers(RDKit::Conformer*, const RDKit::ROMol&, ReactantProductAtomMapping*)’ at /<>/Code/GraphMol/ChemReactions/ReactionRunner.cpp:1314:30: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/Descriptors/testRDFcustom.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 77%] Linking CXX executable testRDF cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testRDF.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testRDF.dir/testRDF.cpp.o -o testRDF ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 77%] Built target testRDF make -f Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 77%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/testMORSE.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/testMORSE.cpp.o -MF CMakeFiles/testMORSE.dir/testMORSE.cpp.o.d -o CMakeFiles/testMORSE.dir/testMORSE.cpp.o -c /<>/Code/GraphMol/Descriptors/testMORSE.cpp [ 77%] Linking CXX executable testRDFcustom cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testRDFcustom.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testRDFcustom.dir/testRDFcustom.cpp.o -o testRDFcustom ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 77%] Built target testRDFcustom make -f Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 77%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/test3D.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/test3D.cpp.o -MF CMakeFiles/test3D.dir/test3D.cpp.o.d -o CMakeFiles/test3D.dir/test3D.cpp.o -c /<>/Code/GraphMol/Descriptors/test3D.cpp [ 77%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/PNGParser.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/PNGParser.cpp.o -MF CMakeFiles/ChemReactions.dir/PNGParser.cpp.o.d -o CMakeFiles/ChemReactions.dir/PNGParser.cpp.o -c /<>/Code/GraphMol/ChemReactions/PNGParser.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/ChemReactions/Reaction.h:39, from /<>/Code/GraphMol/ChemReactions/SanitizeRxn.h:36, from /<>/Code/GraphMol/ChemReactions/SanitizeRxn.cpp:32: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 78%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/CDXMLParser.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/CDXMLParser.cpp.o -MF CMakeFiles/ChemReactions.dir/CDXMLParser.cpp.o.d -o CMakeFiles/ChemReactions.dir/CDXMLParser.cpp.o -c /<>/Code/GraphMol/ChemReactions/CDXMLParser.cpp [ 78%] Linking CXX executable testMORSE cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMORSE.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testMORSE.dir/testMORSE.cpp.o -o testMORSE ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 78%] Built target testMORSE make -f Code/GraphMol/Descriptors/CMakeFiles/testWHIM.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testWHIM.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/CMakeFiles/testWHIM.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Descriptors/CMakeFiles/testWHIM.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testWHIM.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 78%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testWHIM.dir/testWHIM.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/Descriptors/CMakeFiles/testWHIM.dir/testWHIM.cpp.o -MF CMakeFiles/testWHIM.dir/testWHIM.cpp.o.d -o CMakeFiles/testWHIM.dir/testWHIM.cpp.o -c /<>/Code/GraphMol/Descriptors/testWHIM.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/c++/13/functional:64, from /usr/include/boost/algorithm/string/detail/classification.hpp:17, from /usr/include/boost/algorithm/string/classification.hpp:18, from /usr/include/boost/algorithm/string/trim.hpp:23, from /usr/include/boost/algorithm/string.hpp:19, from /<>/Code/GraphMol/Descriptors/test3D.cpp:21: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ [ 78%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/Enumerate.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/Enumerate.cpp.o -MF CMakeFiles/ChemReactions.dir/Enumerate/Enumerate.cpp.o.d -o CMakeFiles/ChemReactions.dir/Enumerate/Enumerate.cpp.o -c /<>/Code/GraphMol/ChemReactions/Enumerate/Enumerate.cpp In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void test3DEdges()’ at /<>/Code/GraphMol/Descriptors/test3D.cpp:449:32: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void test3DEdges()’ at /<>/Code/GraphMol/Descriptors/test3D.cpp:450:32: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void test3DEdges()’ at /<>/Code/GraphMol/Descriptors/test3D.cpp:451:32: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void test3DEdges()’ at /<>/Code/GraphMol/Descriptors/test3D.cpp:452:32: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void test3DEdges()’ at /<>/Code/GraphMol/Descriptors/test3D.cpp:453:32: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void test3DEdges()’ at /<>/Code/GraphMol/Descriptors/test3D.cpp:454:32: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 78%] Linking CXX executable test3D cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/test3D.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/test3D.dir/test3D.cpp.o -o test3D ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 78%] Built target test3D make -f Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 78%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/testGETAWAY.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/testGETAWAY.cpp.o -MF CMakeFiles/testGETAWAY.dir/testGETAWAY.cpp.o.d -o CMakeFiles/testGETAWAY.dir/testGETAWAY.cpp.o -c /<>/Code/GraphMol/Descriptors/testGETAWAY.cpp [ 78%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/EnumerationPickler.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/EnumerationPickler.cpp.o -MF CMakeFiles/ChemReactions.dir/Enumerate/EnumerationPickler.cpp.o.d -o CMakeFiles/ChemReactions.dir/Enumerate/EnumerationPickler.cpp.o -c /<>/Code/GraphMol/ChemReactions/Enumerate/EnumerationPickler.cpp [ 78%] Linking CXX executable testWHIM cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testWHIM.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testWHIM.dir/testWHIM.cpp.o -o testWHIM ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 78%] Built target testWHIM make -f Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 79%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/testAUTOCORR3D.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/testAUTOCORR3D.cpp.o -MF CMakeFiles/testAUTOCORR3D.dir/testAUTOCORR3D.cpp.o.d -o CMakeFiles/testAUTOCORR3D.dir/testAUTOCORR3D.cpp.o -c /<>/Code/GraphMol/Descriptors/testAUTOCORR3D.cpp [ 79%] Linking CXX executable testGETAWAY cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testGETAWAY.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testGETAWAY.dir/testGETAWAY.cpp.o -o testGETAWAY ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 79%] Built target testGETAWAY make -f Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 79%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/testCoulombMat.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/testCoulombMat.cpp.o -MF CMakeFiles/testCoulombMat.dir/testCoulombMat.cpp.o.d -o CMakeFiles/testCoulombMat.dir/testCoulombMat.cpp.o -c /<>/Code/GraphMol/Descriptors/testCoulombMat.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/GraphMol/ChemReactions/Enumerate/EnumerateBase.h:36, from /<>/Code/GraphMol/ChemReactions/Enumerate/Enumerate.h:35, from /<>/Code/GraphMol/ChemReactions/Enumerate/Enumerate.cpp:33: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {long long unsigned int}; _Tp = long long unsigned int; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {long long unsigned int}; _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = long long unsigned int; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘RDKit::EnumerationTypes::RGROUPS RDKit::getSizesFromBBs(const std::vector >&) [with T = boost::shared_ptr]’ at /<>/Code/GraphMol/ChemReactions/Enumerate/EnumerationStrategyBase.h:79:20, inlined from ‘void RDKit::EnumerationStrategyBase::initialize(const RDKit::ChemicalReaction&, const RDKit::EnumerationTypes::BBS&)’ at /<>/Code/GraphMol/ChemReactions/Enumerate/EnumerationStrategyBase.h:149:41: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 79%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/EvenSamplePairs.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/EvenSamplePairs.cpp.o -MF CMakeFiles/ChemReactions.dir/Enumerate/EvenSamplePairs.cpp.o.d -o CMakeFiles/ChemReactions.dir/Enumerate/EvenSamplePairs.cpp.o -c /<>/Code/GraphMol/ChemReactions/Enumerate/EvenSamplePairs.cpp [ 79%] Linking CXX executable testAUTOCORR3D cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testAUTOCORR3D.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testAUTOCORR3D.dir/testAUTOCORR3D.cpp.o -o testAUTOCORR3D ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 79%] Built target testAUTOCORR3D make -f Code/GraphMol/Descriptors/CMakeFiles/descriptorsTestCatch.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/descriptorsTestCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/CMakeFiles/descriptorsTestCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Descriptors/CMakeFiles/descriptorsTestCatch.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/descriptorsTestCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 80%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/descriptorsTestCatch.dir/catch_tests.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/Descriptors/CMakeFiles/descriptorsTestCatch.dir/catch_tests.cpp.o -MF CMakeFiles/descriptorsTestCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/descriptorsTestCatch.dir/catch_tests.cpp.o -c /<>/Code/GraphMol/Descriptors/catch_tests.cpp make -f Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build.make 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-DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolDescriptors_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/rdMolDescriptors.cpp.o -MF CMakeFiles/rdMolDescriptors.dir/rdMolDescriptors.cpp.o.d -o CMakeFiles/rdMolDescriptors.dir/rdMolDescriptors.cpp.o -c /<>/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp [ 81%] Linking CXX executable testCoulombMat cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testCoulombMat.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testCoulombMat.dir/testCoulombMat.cpp.o -o testCoulombMat ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitDistGeomHelpers.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitDistGeometry.so.1.2023.09.3 ../../../lib/libRDKitForceFieldHelpers.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitForceField.so.1.2023.09.3 ../../../lib/libRDKitOptimizer.so.1.2023.09.3 ../../../lib/libRDKitTrajectory.so.1.2023.09.3 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-I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/testMolAlign.cpp.o -MF CMakeFiles/testMolAlign.dir/testMolAlign.cpp.o.d -o CMakeFiles/testMolAlign.dir/testMolAlign.cpp.o -c /<>/Code/GraphMol/MolAlign/testMolAlign.cpp [ 81%] Linking CXX shared library ../../../lib/libRDKitChemReactions.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_link_script 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/usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitChemReactions.so.1 ../../../lib/libRDKitChemReactions.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 81%] Built target ChemReactions make -f Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolAlign /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 81%] Building CXX object Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/testO3AAlign.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/testO3AAlign.cpp.o -MF CMakeFiles/testO3AAlign.dir/testO3AAlign.cpp.o.d -o CMakeFiles/testO3AAlign.dir/testO3AAlign.cpp.o -c /<>/Code/GraphMol/MolAlign/testO3AAlign.cpp /<>/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp: In function ‘std::pair {anonymous}::{anonymous}::BCUT2D_list(const RDKit::ROMol&, boost::python::list)’: /<>/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:437:61: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 437 | python::list atomprops) { | ^ [ 81%] Linking CXX executable descriptorsTestCatch cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/descriptorsTestCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/descriptorsTestCatch.dir/catch_tests.cpp.o -o descriptorsTestCatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 81%] Built target descriptorsTestCatch make -f Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolDraw2D /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 81%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2D.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/freetype2 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2D.cpp.o -MF CMakeFiles/MolDraw2D.dir/MolDraw2D.cpp.o.d -o CMakeFiles/MolDraw2D.dir/MolDraw2D.cpp.o -c /<>/Code/GraphMol/MolDraw2D/MolDraw2D.cpp In file included from /usr/include/c++/13/bits/stl_algobase.h:64, from /usr/include/c++/13/string:51, from /<>/Code/RDGeneral/Invariant.h:17, from /<>/Code/Numerics/Matrix.h:14, from /<>/Code/Numerics/SquareMatrix.h:14, from /<>/Code/Geometry/Transform3D.h:16, from /<>/Code/GraphMol/MolAlign/AlignMolecules.h:14, from /<>/Code/GraphMol/MolAlign/testO3AAlign.cpp:11: /usr/include/c++/13/bits/stl_pair.h: In instantiation of ‘constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = double&; _T2 = double&; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp>::type = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp2>::type = double]’: /<>/Code/GraphMol/MolAlign/testO3AAlign.cpp:643:37: required from here /usr/include/c++/13/bits/stl_pair.h:922:5: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 922 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ [ 81%] Linking CXX executable testMolAlign cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolAlign.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testMolAlign.dir/testMolAlign.cpp.o -o testMolAlign ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitDistGeomHelpers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 ../../../lib/libRDKitMolAlign.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitDistGeometry.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitForceFieldHelpers.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitForceField.so.1.2023.09.3 ../../../lib/libRDKitOptimizer.so.1.2023.09.3 ../../../lib/libRDKitTrajectory.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 81%] Built target testMolAlign make -f Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FMCS /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 82%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/testFMCS_Unit.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/testFMCS_Unit.cpp.o -MF CMakeFiles/testFMCS.dir/testFMCS_Unit.cpp.o.d -o CMakeFiles/testFMCS.dir/testFMCS_Unit.cpp.o -c /<>/Code/GraphMol/FMCS/testFMCS_Unit.cpp In file included from /usr/include/c++/13/bits/stl_algobase.h:64, from /usr/include/c++/13/string:51, from /<>/Code/RDGeneral/Invariant.h:17, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/QueryOps.h:19, from /<>/Code/GraphMol/MolDraw2D/MolDraw2D.cpp:16: /usr/include/c++/13/bits/stl_pair.h: In instantiation of ‘constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = double; _T2 = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp>::type = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp2>::type = double]’: /<>/Code/GraphMol/MolDraw2D/MolDraw2D.cpp:553:16: required from here /usr/include/c++/13/bits/stl_pair.h:922:5: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 922 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/RDBoost/Wrap.h:14, from /<>/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘std::pair {anonymous}::{anonymous}::BCUT2D_tuple(const RDKit::ROMol&, boost::python::tuple)’ at /<>/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:449:19: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘std::pair {anonymous}::{anonymous}::BCUT2D_list(const RDKit::ROMol&, boost::python::list)’ at /<>/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:440:19: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from /usr/include/c++/13/set:62, from /<>/Code/Query/SetQuery.h:13, from /<>/Code/Query/QueryObjects.h:29, from /<>/Code/GraphMol/Atom.h:24, from /<>/Code/GraphMol/RDKitBase.h:23: /usr/include/c++/13/bits/stl_tree.h: In function ‘std::pair std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_get_insert_hint_unique_pos(const_iterator, const key_type&) [with _Key = int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/stl_tree.h:2210:5: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 2210 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_tree.h: In function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/stl_tree.h:2458:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 2458 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 82%] Linking CXX executable testO3AAlign cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_link_script CMakeFiles/testO3AAlign.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testO3AAlign.dir/testO3AAlign.cpp.o -o testO3AAlign ../../../lib/libRDKitO3AAlign.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitDistGeomHelpers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 ../../../lib/libRDKitMolAlign.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitDistGeometry.so.1.2023.09.3 ../../../lib/libRDKitForceFieldHelpers.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitForceField.so.1.2023.09.3 ../../../lib/libRDKitOptimizer.so.1.2023.09.3 ../../../lib/libRDKitTrajectory.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 82%] Built target testO3AAlign make -f Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build.make Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FMCS/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build.make Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 82%] Building CXX object Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/rdFMCS.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdFMCS_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/rdFMCS.cpp.o -MF CMakeFiles/rdFMCS.dir/rdFMCS.cpp.o.d -o CMakeFiles/rdFMCS.dir/rdFMCS.cpp.o -c /<>/Code/GraphMol/FMCS/Wrap/rdFMCS.cpp In file included from /usr/include/c++/13/map:63, from /<>/Code/RDGeneral/Dict.h:19, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/GraphMol/Atom.h:25: /usr/include/c++/13/bits/stl_map.h: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:69:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:70:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:71:25: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:71:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:72:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:73:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:75:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:77:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:78:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:79:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22: /usr/include/c++/13/bits/stl_vector.h: In constructor ‘std::vector<_Tp, _Alloc>::vector(std::initializer_list<_Tp>, const allocator_type&) [with _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/stl_vector.h:675:7: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 675 | vector(initializer_list __l, | ^~~~~~ In file included from /usr/include/c++/13/vector:72: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::DrawColour}; _Tp = RDKit::DrawColour; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::DrawColour}; _Tp = RDKit::DrawColour; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const RDGeom::Point2D&}; _Tp = RDGeom::Point2D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘virtual void RDKit::MolDraw2D::drawArc(const RDGeom::Point2D&, double, double, double, double, bool)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2D.cpp:428:18: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘virtual void RDKit::MolDraw2D::drawRect(const RDGeom::Point2D&, const RDGeom::Point2D&, bool)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2D.cpp:444:18: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {int&, double&}; _Tp = RDGeom::Point2D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {int&, double&}; _Tp = RDGeom::Point2D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {int&, double}; _Tp = RDGeom::Point2D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {int&, double}; _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D::calcReactionOffsets(std::vector >&, std::vector >&, std::vector >&, int&, std::vector&, RDGeom::Point2D&, RDGeom::Point2D&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2D.cpp:1113:27: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_tree.h: In member function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {std::pair}; _Key = int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/stl_tree.h:2458:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 2458 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::vector >]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair}; _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘std::__enable_if_t, _Pair>::value, std::pair, std::_Select1st >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair; _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’ at /usr/include/c++/13/bits/stl_map.h:860:27, inlined from ‘void RDKit::MolDraw2D::makeReactionComponents(const std::vector >&, const std::vector*, int, std::map&, std::vector >&, double&, double&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2D.cpp:904:36: /usr/include/c++/13/bits/stl_map.h:640:45: note: parameter passing for argument of type ‘std::map::const_iterator’ {aka ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’} changed in GCC 7.1 640 | return _M_t._M_emplace_hint_unique(__pos, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ 641 | std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair}; _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘std::__enable_if_t, _Pair>::value, std::pair, std::_Select1st >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair; _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’ at /usr/include/c++/13/bits/stl_map.h:860:27, inlined from ‘void RDKit::MolDraw2D::makeReactionComponents(const std::vector >&, const std::vector*, int, std::map&, std::vector >&, double&, double&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2D.cpp:911:32: /usr/include/c++/13/bits/stl_map.h:640:45: note: parameter passing for argument of type ‘std::map::const_iterator’ {aka ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’} changed in GCC 7.1 640 | return _M_t._M_emplace_hint_unique(__pos, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ 641 | std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/Code/GraphMol/MolDraw2D/DrawMol.h:26, from /<>/Code/GraphMol/MolDraw2D/MolDraw2D.cpp:18: In function ‘void __static_initialization_and_destruction_0()’, inlined from ‘(static initializers for /<>/Code/GraphMol/MolDraw2D/MolDraw2D.cpp)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2D.cpp:1260:1: /<>/Code/GraphMol/MolDraw2D/DrawShape.h:27:32: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 27 | const DashPattern dots{2.0, 6.0}; | ^ /<>/Code/GraphMol/MolDraw2D/DrawShape.h:28:34: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 28 | const DashPattern dashes{6.0, 4.0}; | ^ /<>/Code/GraphMol/MolDraw2D/DrawShape.h:29:39: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 29 | const DashPattern shortDashes{2.0, 2.0}; | ^ [ 82%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DSVG.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/freetype2 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DSVG.cpp.o -MF CMakeFiles/MolDraw2D.dir/MolDraw2DSVG.cpp.o.d -o CMakeFiles/MolDraw2D.dir/MolDraw2DSVG.cpp.o -c /<>/Code/GraphMol/MolDraw2D/MolDraw2DSVG.cpp /<>/Code/GraphMol/FMCS/Wrap/rdFMCS.cpp: In function ‘boost::python::api::object {anonymous}::degenerateSmartsQueryMolDictHelper(const RDKit::MCSResult&)’: /<>/Code/GraphMol/FMCS/Wrap/rdFMCS.cpp:646:19: warning: redundant move in return statement [-Wredundant-move] 646 | return std::move(res); | ~~~~~~~~~^~~~~ /<>/Code/GraphMol/FMCS/Wrap/rdFMCS.cpp:646:19: note: remove ‘std::move’ call In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/GraphMol/FMCS/testFMCS_Unit.cpp:46: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 82%] Linking CXX shared module ../../../../rdkit/Chem/rdMolDescriptors.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolDescriptors.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolDescriptors.so CMakeFiles/rdMolDescriptors.dir/rdMolDescriptors.cpp.o ../../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../../lib/libRDKitAlignment.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 82%] Built target rdMolDescriptors make -f Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build.make Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FMCS/Test /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS/Test /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build.make Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 83%] Building CXX object Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/testFMCS.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS/Test && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/testFMCS.cpp.o -MF CMakeFiles/FMCStest.dir/testFMCS.cpp.o.d -o CMakeFiles/FMCStest.dir/testFMCS.cpp.o -c /<>/Code/GraphMol/FMCS/Test/testFMCS.cpp [ 83%] Linking CXX executable testFMCS cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFMCS.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testFMCS.dir/testFMCS_Unit.cpp.o -o testFMCS ../../../lib/libRDKitFMCS.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 83%] Built target testFMCS make -f Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/build.make Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolHash /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/build.make Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 83%] Building CXX object Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/catch_tests.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/catch_tests.cpp.o -MF CMakeFiles/molHashCatchTest.dir/catch_tests.cpp.o.d -o CMakeFiles/molHashCatchTest.dir/catch_tests.cpp.o -c /<>/Code/GraphMol/MolHash/catch_tests.cpp /<>/Code/GraphMol/FMCS/Test/testFMCS.cpp: In function ‘std::string testChEMBL_Txt(const char*, double, const char*)’: /<>/Code/GraphMol/FMCS/Test/testFMCS.cpp:550:23: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘std::vector >::size_type’ {aka ‘unsigned int’} [-Wformat=] 550 | fprintf(fres, "%s;%lu;%.1f;%.4f;%u;%u;%s;", test, mols.size(), th, sec, | ~~^ ~~~~~~~~~~~ | | | | long unsigned int std::vector >::size_type {aka unsigned int} | %u /<>/Code/GraphMol/FMCS/Test/testFMCS.cpp: In function ‘void testFileSDF_RandomSet_SMI(const char*, const char*)’: /<>/Code/GraphMol/FMCS/Test/testFMCS.cpp:1232:27: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘std::vector >::size_type’ {aka ‘unsigned int’} [-Wformat=] 1232 | fprintf(fcsv, "%u;%lu;%s;%.3f;%u;%u;%s;", n, mols.size(), | ~~^ ~~~~~~~~~~~ | | | | long unsigned int std::vector >::size_type {aka unsigned int} | %u /<>/Code/GraphMol/FMCS/Test/testFMCS.cpp:1244:27: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘std::vector >::size_type’ {aka ‘unsigned int’} [-Wformat=] 1244 | fprintf(fcsv, "%u;%lu;%s;%.3f;%u;%u;%s\n", n, mols.size(), | ~~^ ~~~~~~~~~~~ | | | | long unsigned int std::vector >::size_type {aka unsigned int} | %u /<>/Code/GraphMol/FMCS/Test/testFMCS.cpp: In function ‘void testFileSDF_RandomSet(const char*, const char*)’: /<>/Code/GraphMol/FMCS/Test/testFMCS.cpp:1350:29: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘std::vector >::size_type’ {aka ‘unsigned int’} [-Wformat=] 1350 | fprintf(fcsv, "%u;%lu;%s;%.5f;%u;%u;%s;", n, mols.size(), | ~~^ ~~~~~~~~~~~ | | | | long unsigned int std::vector >::size_type {aka unsigned int} | %u /<>/Code/GraphMol/FMCS/Test/testFMCS.cpp:1403:27: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘std::vector >::size_type’ {aka ‘unsigned int’} [-Wformat=] 1403 | fprintf(fcsv, "%u;%lu;%s;%.5f;%u;%u;%s;", n, mols.size(), | ~~^ ~~~~~~~~~~~ | | | | long unsigned int std::vector >::size_type {aka unsigned int} | %u /<>/Code/GraphMol/FMCS/Test/testFMCS.cpp:1492:29: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘std::vector >::size_type’ {aka ‘unsigned int’} [-Wformat=] 1492 | fprintf(fcsv, "%u;%lu;%s;%.5f;%u;%u;%s;", n, mols.size(), | ~~^ ~~~~~~~~~~~ | | | | long unsigned int std::vector >::size_type {aka unsigned int} | %u [ 83%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DDetails.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/freetype2 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DDetails.cpp.o -MF CMakeFiles/MolDraw2D.dir/MolDraw2DDetails.cpp.o.d -o CMakeFiles/MolDraw2D.dir/MolDraw2DDetails.cpp.o -c /<>/Code/GraphMol/MolDraw2D/MolDraw2DDetails.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/FMCS/Test/../../RDKitBase.h:21, from /<>/Code/GraphMol/FMCS/Test/testFMCS.cpp:47: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setPODVal(const std::string&, T) [with T = int]’ at /<>/Code/RDGeneral/Dict.h:285:20, inlined from ‘void RDKit::Dict::setVal(const std::string&, int)’ at /<>/Code/RDGeneral/Dict.h:294:60, inlined from ‘void RDKit::RDProps::setProp(const std::string&, T, bool) const [with T = int]’ at /<>/Code/RDGeneral/RDProps.h:86:19, inlined from ‘void test504()’ at /<>/Code/GraphMol/FMCS/Test/testFMCS.cpp:498:18: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 83%] Linking CXX shared module ../../../../rdkit/Chem/rdFMCS.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdFMCS.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdFMCS.so CMakeFiles/rdFMCS.dir/rdFMCS.cpp.o ../../../../lib/libRDKitFMCS.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 83%] Built target rdFMCS make -f Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build.make Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolHash/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build.make Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 83%] Building CXX object Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/rdMolHash.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolHash_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/rdMolHash.cpp.o -MF CMakeFiles/rdMolHash.dir/rdMolHash.cpp.o.d -o CMakeFiles/rdMolHash.dir/rdMolHash.cpp.o -c /<>/Code/GraphMol/MolHash/Wrap/rdMolHash.cpp [ 83%] Linking CXX executable FMCStest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS/Test && /usr/bin/cmake -E cmake_link_script CMakeFiles/FMCStest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/FMCStest.dir/testFMCS.cpp.o -o FMCStest ../../../../lib/libRDKitFMCS.so.1.2023.09.3 ../../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 83%] Built target FMCStest make -f Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MMPA /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MMPA /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 83%] Building CXX object Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/MMPA_UnitTest.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MMPA && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/MMPA_UnitTest.cpp.o -MF CMakeFiles/testMMPA.dir/MMPA_UnitTest.cpp.o.d -o CMakeFiles/testMMPA.dir/MMPA_UnitTest.cpp.o -c /<>/Code/GraphMol/MMPA/MMPA_UnitTest.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/GraphMol/MolDraw2D/MolDraw2DDetails.h:15, from /<>/Code/GraphMol/MolDraw2D/MolDraw2DDetails.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDGeom::Point2D&}; _Tp = RDGeom::Point2D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDGeom::Point2D&}; _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::arcPoints(const RDGeom::Point2D&, const RDGeom::Point2D&, std::vector&, float, float)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DDetails.cpp:44:21: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const RDGeom::Point2D&}; _Tp = RDGeom::Point2D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘std::vector RDKit::MolDraw2D_detail::handdrawnLine(RDGeom::Point2D, RDGeom::Point2D, double, bool, bool, unsigned int, double, double)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DDetails.cpp:203:16: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘std::vector RDKit::MolDraw2D_detail::handdrawnLine(RDGeom::Point2D, RDGeom::Point2D, double, bool, bool, unsigned int, double, double)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DDetails.cpp:207:18: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘std::vector RDKit::MolDraw2D_detail::handdrawnLine(RDGeom::Point2D, RDGeom::Point2D, double, bool, bool, unsigned int, double, double)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DDetails.cpp:209:16: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDGeom::Point2D&, RDGeom::Point2D&, RDGeom::Point2D&, RDGeom::Point2D&}; _Tp = std::tuple; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDGeom::Point2D&, RDGeom::Point2D&, RDGeom::Point2D&, RDGeom::Point2D&}; _Tp = std::tuple; _Alloc = std::allocator >]’, inlined from ‘std::vector > RDKit::MolDraw2D_detail::getWavyLineSegments(const RDGeom::Point2D&, const RDGeom::Point2D&, unsigned int, double)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DDetails.cpp:401:21: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::__cxx11::basic_string]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 83%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DUtils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/freetype2 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DUtils.cpp.o -MF CMakeFiles/MolDraw2D.dir/MolDraw2DUtils.cpp.o.d -o CMakeFiles/MolDraw2D.dir/MolDraw2DUtils.cpp.o -c /<>/Code/GraphMol/MolDraw2D/MolDraw2DUtils.cpp [ 83%] Linking CXX executable molHashCatchTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash && /usr/bin/cmake -E cmake_link_script CMakeFiles/molHashCatchTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/molHashCatchTest.dir/catch_tests.cpp.o -o molHashCatchTest ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitMolHash.so.1.2023.09.3 /usr/lib/libCatch2.a ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 83%] Built target molHashCatchTest make -f Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build.make Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MMPA/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MMPA/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build.make Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 83%] Building CXX object Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/rdMMPA.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MMPA/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMMPA_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/rdMMPA.cpp.o -MF CMakeFiles/rdMMPA.dir/rdMMPA.cpp.o.d -o CMakeFiles/rdMMPA.dir/rdMMPA.cpp.o -c /<>/Code/GraphMol/MMPA/Wrap/rdMMPA.cpp [ 83%] Linking CXX shared module ../../../../rdkit/Chem/rdMolHash.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolHash.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolHash.so CMakeFiles/rdMolHash.dir/rdMolHash.cpp.o ../../../../lib/libRDKitMolHash.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../../lib/libRDKitGenericGroups.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 83%] Built target rdMolHash make -f Code/GraphMol/RascalMCES/CMakeFiles/testRascalMCES.dir/build.make Code/GraphMol/RascalMCES/CMakeFiles/testRascalMCES.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/RascalMCES /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RascalMCES /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RascalMCES/CMakeFiles/testRascalMCES.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/RascalMCES/CMakeFiles/testRascalMCES.dir/build.make Code/GraphMol/RascalMCES/CMakeFiles/testRascalMCES.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 83%] Building CXX object Code/GraphMol/RascalMCES/CMakeFiles/testRascalMCES.dir/mces_catch.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RascalMCES && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/RascalMCES/CMakeFiles/testRascalMCES.dir/mces_catch.cpp.o -MF CMakeFiles/testRascalMCES.dir/mces_catch.cpp.o.d -o CMakeFiles/testRascalMCES.dir/mces_catch.cpp.o -c /<>/Code/GraphMol/RascalMCES/mces_catch.cpp [ 83%] Linking CXX executable testMMPA cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MMPA && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMMPA.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testMMPA.dir/MMPA_UnitTest.cpp.o -o testMMPA ../../../lib/libRDKitMMPA.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 83%] Built target testMMPA make -f Code/GraphMol/RascalMCES/CMakeFiles/testRascalCluster.dir/build.make Code/GraphMol/RascalMCES/CMakeFiles/testRascalCluster.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/RascalMCES /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RascalMCES /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RascalMCES/CMakeFiles/testRascalCluster.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/RascalMCES/CMakeFiles/testRascalCluster.dir/build.make Code/GraphMol/RascalMCES/CMakeFiles/testRascalCluster.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 83%] Building CXX object Code/GraphMol/RascalMCES/CMakeFiles/testRascalCluster.dir/mces_cluster_catch.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RascalMCES && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/RascalMCES/CMakeFiles/testRascalCluster.dir/mces_cluster_catch.cpp.o -MF CMakeFiles/testRascalCluster.dir/mces_cluster_catch.cpp.o.d -o CMakeFiles/testRascalCluster.dir/mces_cluster_catch.cpp.o -c /<>/Code/GraphMol/RascalMCES/mces_cluster_catch.cpp In file included from /usr/include/c++/13/map:62, from /<>/Code/Geometry/point.h:17, from /<>/Code/GraphMol/MolDraw2D/MolDraw2D.h:30, from /<>/Code/GraphMol/MolDraw2D/MolDraw2DUtils.cpp:10: /usr/include/c++/13/bits/stl_tree.h: In function ‘std::pair std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_get_insert_hint_unique_pos(const_iterator, const key_type&) [with _Key = int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/stl_tree.h:2210:5: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 2210 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/python/override.hpp:13, from /usr/include/boost/python/wrapper.hpp:8, from /usr/include/boost/python/object/value_holder.hpp:15, from /usr/include/boost/python/object/class_metadata.hpp:14, from /usr/include/boost/python/class.hpp:23, from /usr/include/boost/python.hpp:18, from /<>/Code/GraphMol/MMPA/Wrap/rdMMPA.cpp:11: In member function ‘boost::python::converter::extract_rvalue::result_type boost::python::converter::extract_rvalue::operator()() const [with T = unsigned int]’, inlined from ‘ValueT boost::python::stl_input_iterator::dereference() const [with ValueT = unsigned int]’ at /usr/include/boost/python/stl_iterator.hpp:48:60, inlined from ‘static typename Facade::reference boost::iterators::iterator_core_access::dereference(const Facade&) [with Facade = boost::python::stl_input_iterator]’ at /usr/include/boost/iterator/iterator_facade.hpp:631:31, inlined from ‘boost::iterators::detail::iterator_facade_base::reference boost::iterators::detail::iterator_facade_base::operator*() const [with Derived = boost::python::stl_input_iterator; Value = unsigned int; CategoryOrTraversal = std::input_iterator_tag; Reference = unsigned int; Difference = int]’ at /usr/include/boost/iterator/iterator_facade.hpp:737:53, inlined from ‘void std::vector<_Tp, _Alloc>::_M_range_initialize(_InputIterator, _InputIterator, std::input_iterator_tag) [with _InputIterator = boost::python::stl_input_iterator; _Tp = unsigned int; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1670:21, inlined from ‘std::vector<_Tp, _Alloc>::vector(_InputIterator, _InputIterator, const allocator_type&) [with _InputIterator = boost::python::stl_input_iterator; = void; _Tp = unsigned int; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:708:23, inlined from ‘std::unique_ptr > pythonObjectToVect(const boost::python::api::object&) [with T = unsigned int]’ at /<>/Code/RDBoost/Wrap.h:140:15: /usr/include/boost/python/extract.hpp:185:11: warning: ‘*(unsigned int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 185 | ); | ^ In file included from /usr/include/boost/python.hpp:66: /usr/include/boost/python/stl_iterator.hpp: In function ‘std::unique_ptr > pythonObjectToVect(const boost::python::api::object&) [with T = unsigned int]’: /usr/include/boost/python/stl_iterator.hpp:48:16: note: ‘’ declared here 48 | return extract(this->impl_.current().get())(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/GraphMol/MolDraw2D/MolDraw2D.h:28: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDGeom::Point2D, RDGeom::Point2D, double&}; _Tp = conrec::ConrecSegment; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDGeom::Point2D, RDGeom::Point2D, double&}; _Tp = conrec::ConrecSegment; _Alloc = std::allocator]’, inlined from ‘void conrec::Contour(const double*, size_t, size_t, size_t, size_t, const double*, const double*, size_t, double*, std::vector&)’ at /<>/Code/Numerics/Conrec.h:204:27: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const RDGeom::Point2D&}; _Tp = RDGeom::Point2D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {std::pair >, double>}; _Tp = std::pair, double>; _Alloc = std::allocator, double> >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector, double> >::iterator’ changed in GCC 7.1 [ 83%] Linking CXX shared module ../../../../rdkit/Chem/rdMMPA.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MMPA/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMMPA.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMMPA.so CMakeFiles/rdMMPA.dir/rdMMPA.cpp.o ../../../../lib/libRDKitMMPA.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 83%] Built target rdMMPA make -f Code/GraphMol/RascalMCES/Wrap/CMakeFiles/rdRascalMCES.dir/build.make Code/GraphMol/RascalMCES/Wrap/CMakeFiles/rdRascalMCES.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/RascalMCES/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RascalMCES/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RascalMCES/Wrap/CMakeFiles/rdRascalMCES.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/RascalMCES/Wrap/CMakeFiles/rdRascalMCES.dir/build.make Code/GraphMol/RascalMCES/Wrap/CMakeFiles/rdRascalMCES.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 83%] Building CXX object Code/GraphMol/RascalMCES/Wrap/CMakeFiles/rdRascalMCES.dir/rdRascalMCES.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RascalMCES/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdRascalMCES_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/RascalMCES/Wrap/CMakeFiles/rdRascalMCES.dir/rdRascalMCES.cpp.o -MF CMakeFiles/rdRascalMCES.dir/rdRascalMCES.cpp.o.d -o CMakeFiles/rdRascalMCES.dir/rdRascalMCES.cpp.o -c /<>/Code/GraphMol/RascalMCES/Wrap/rdRascalMCES.cpp In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘std::vector, double> > conrec::connectLineSegments(const std::vector&, double, double)’ at /<>/Code/Numerics/Conrec.h:266:26: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘std::vector, double> > conrec::connectLineSegments(const std::vector&, double, double)’ at /<>/Code/Numerics/Conrec.h:268:26: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘std::vector, double> > conrec::connectLineSegments(const std::vector&, double, double)’ at /<>/Code/Numerics/Conrec.h:280:28: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘std::vector, double> > conrec::connectLineSegments(const std::vector&, double, double)’ at /<>/Code/Numerics/Conrec.h:282:28: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::pair >, double>}; _Tp = std::pair, double>; _Alloc = std::allocator, double> >]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = std::pair, double>; _Alloc = std::allocator, double> >]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘std::vector, double> > conrec::connectLineSegments(const std::vector&, double, double)’ at /<>/Code/Numerics/Conrec.h:289:18: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator, double>*, std::vector, double> > >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 83%] Linking CXX executable testRascalCluster cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RascalMCES && /usr/bin/cmake -E cmake_link_script CMakeFiles/testRascalCluster.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testRascalCluster.dir/mces_cluster_catch.cpp.o -o testRascalCluster ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitRascalMCES.so.1.2023.09.3 /usr/lib/libCatch2.a ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 83%] Built target testRascalCluster make -f Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/build.make Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Deprotect /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Deprotect /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/build.make Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 83%] Building CXX object Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/Deprotect.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Deprotect && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DDeprotect_EXPORTS -DRDKIT_DEPROTECT_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/Deprotect.cpp.o -MF CMakeFiles/Deprotect.dir/Deprotect.cpp.o.d -o CMakeFiles/Deprotect.dir/Deprotect.cpp.o -c /<>/Code/GraphMol/Deprotect/Deprotect.cpp [ 83%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/AtomSymbol.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/freetype2 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/AtomSymbol.cpp.o -MF CMakeFiles/MolDraw2D.dir/AtomSymbol.cpp.o.d -o CMakeFiles/MolDraw2D.dir/AtomSymbol.cpp.o -c /<>/Code/GraphMol/MolDraw2D/AtomSymbol.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/c++/13/bits/random.h:34, from /usr/include/c++/13/random:51, from /<>/Code/GraphMol/RascalMCES/mces_catch.cpp:12: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void CATCH2_INTERNAL_TEST_30()’ at /<>/Code/GraphMol/RascalMCES/mces_catch.cpp:786:22: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/Deprotect/Deprotect.h:15, from /<>/Code/GraphMol/Deprotect/Deprotect.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ [ 84%] Linking CXX executable testRascalMCES cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RascalMCES && /usr/bin/cmake -E cmake_link_script CMakeFiles/testRascalMCES.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testRascalMCES.dir/mces_catch.cpp.o -o testRascalMCES ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitRascalMCES.so.1.2023.09.3 /usr/lib/libCatch2.a ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 84%] Built target testRascalMCES make -f Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolEnumerator /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolEnumerator /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 85%] Building CXX object Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/MolEnumerator.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolEnumerator && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolEnumerator_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLENUMERATOR_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/MolEnumerator.cpp.o -MF CMakeFiles/MolEnumerator.dir/MolEnumerator.cpp.o.d -o CMakeFiles/MolEnumerator.dir/MolEnumerator.cpp.o -c /<>/Code/GraphMol/MolEnumerator/MolEnumerator.cpp [ 85%] Linking CXX shared library ../../../lib/libRDKitDeprotect.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Deprotect && /usr/bin/cmake -E cmake_link_script CMakeFiles/Deprotect.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security 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/usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Deprotect && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitDeprotect.so.1.2023.09.3 ../../../lib/libRDKitDeprotect.so.1 ../../../lib/libRDKitDeprotect.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 85%] Built target Deprotect make -f Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 85%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/rdmolops.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolops_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/rdmolops.cpp.o -MF CMakeFiles/rdmolops.dir/rdmolops.cpp.o.d -o CMakeFiles/rdmolops.dir/rdmolops.cpp.o -c /<>/Code/GraphMol/Wrap/rdmolops.cpp [ 85%] Linking CXX shared module ../../../../rdkit/Chem/rdRascalMCES.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RascalMCES/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdRascalMCES.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdRascalMCES.so CMakeFiles/rdRascalMCES.dir/rdRascalMCES.cpp.o ../../../../lib/libRDKitRascalMCES.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 85%] Built target rdRascalMCES make -f Code/GraphMol/MarvinParse/CMakeFiles/MarvinParser.dir/build.make Code/GraphMol/MarvinParse/CMakeFiles/MarvinParser.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MarvinParse /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MarvinParse /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MarvinParse/CMakeFiles/MarvinParser.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MarvinParse/CMakeFiles/MarvinParser.dir/build.make Code/GraphMol/MarvinParse/CMakeFiles/MarvinParser.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 85%] Building CXX object Code/GraphMol/MarvinParse/CMakeFiles/MarvinParser.dir/MarvinParser.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MarvinParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMarvinParser_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MARVINPARSER_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MarvinParse/CMakeFiles/MarvinParser.dir/MarvinParser.cpp.o -MF CMakeFiles/MarvinParser.dir/MarvinParser.cpp.o.d -o CMakeFiles/MarvinParser.dir/MarvinParser.cpp.o -c /<>/Code/GraphMol/MarvinParse/MarvinParser.cpp [ 86%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawAnnotation.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/freetype2 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawAnnotation.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawAnnotation.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawAnnotation.cpp.o -c /<>/Code/GraphMol/MolDraw2D/DrawAnnotation.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:14, from /<>/Code/GraphMol/MolEnumerator/MolEnumerator.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 86%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/MolOps.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolops_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/MolOps.cpp.o -MF CMakeFiles/rdmolops.dir/MolOps.cpp.o.d -o CMakeFiles/rdmolops.dir/MolOps.cpp.o -c /<>/Code/GraphMol/Wrap/MolOps.cpp [ 86%] Building CXX object Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/PositionVariation.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolEnumerator && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolEnumerator_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLENUMERATOR_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/PositionVariation.cpp.o -MF CMakeFiles/MolEnumerator.dir/PositionVariation.cpp.o.d -o CMakeFiles/MolEnumerator.dir/PositionVariation.cpp.o -c /<>/Code/GraphMol/MolEnumerator/PositionVariation.cpp [ 86%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawMol.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/freetype2 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawMol.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawMol.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawMol.cpp.o -c /<>/Code/GraphMol/MolDraw2D/DrawMol.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/GraphMol/MarvinParse/MarvinParser.cpp:17: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 86%] Building CXX object Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/LinkNode.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolEnumerator && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolEnumerator_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLENUMERATOR_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/LinkNode.cpp.o -MF CMakeFiles/MolEnumerator.dir/LinkNode.cpp.o.d -o CMakeFiles/MolEnumerator.dir/LinkNode.cpp.o -c /<>/Code/GraphMol/MolEnumerator/LinkNode.cpp [ 87%] Building CXX object Code/GraphMol/MarvinParse/CMakeFiles/MarvinParser.dir/MarvinWriter.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MarvinParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMarvinParser_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MARVINPARSER_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MarvinParse/CMakeFiles/MarvinParser.dir/MarvinWriter.cpp.o -MF CMakeFiles/MarvinParser.dir/MarvinWriter.cpp.o.d -o CMakeFiles/MarvinParser.dir/MarvinWriter.cpp.o -c /<>/Code/GraphMol/MarvinParse/MarvinWriter.cpp In file included from /usr/include/c++/13/bits/stl_algo.h:61, from /usr/include/c++/13/algorithm:61, from /<>/Code/GraphMol/MolDraw2D/DrawMol.cpp:13: /usr/include/c++/13/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Distance = int; _Tp = pair; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, std::vector&)::&, const pair&)> >]’: /usr/include/c++/13/bits/stl_heap.h:224:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Val_comp_iter&, std::vector&)::&, const pair&)> >]’: /usr/include/c++/13/bits/stl_algo.h:1792:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1792 | __unguarded_linear_insert(_RandomAccessIterator __last, | ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, std::vector&)::&, const pair&)> >]’: /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1812 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Val_comp_iter >]’: /usr/include/c++/13/bits/stl_algo.h:1792:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1792 | __unguarded_linear_insert(_RandomAccessIterator __last, | ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1812 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = RDGeom::Point2D; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/13/bits/stl_heap.h:224:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Val_comp_iter >]’: /usr/include/c++/13/bits/stl_algo.h:1792:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1792 | __unguarded_linear_insert(_RandomAccessIterator __last, | ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1812 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, std::vector&)::&, const pair&)> >]’: /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1918 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_algo.h:1932:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1932 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = RDGeom::Point2D; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/13/bits/stl_heap.h:224:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/Numerics/Matrix.h:14, from /<>/Code/Numerics/SquareMatrix.h:14, from /<>/Code/Geometry/Transform2D.h:15, from /<>/Code/GraphMol/MolDraw2D/DrawMol.cpp:17: /usr/include/c++/13/bits/stl_vector.h: In constructor ‘std::vector<_Tp, _Alloc>::vector(std::initializer_list<_Tp>, const allocator_type&) [with _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/stl_vector.h:675:7: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 675 | vector(initializer_list __l, | ^~~~~~ /usr/include/c++/13/bits/stl_vector.h: In constructor ‘std::vector<_Tp, _Alloc>::vector(std::initializer_list<_Tp>, const allocator_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/stl_vector.h:675:7: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 /<>/Code/GraphMol/MolDraw2D/DrawMol.cpp: In member function ‘void RDKit::MolDraw2D_detail::DrawMol::extractAttachments()’: /<>/Code/GraphMol/MolDraw2D/DrawMol.cpp:367:43: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 367 | std::vector points{p1, p2}; | ^ In file included from /usr/include/c++/13/vector:72: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const RDGeom::Point2D&}; _Tp = RDGeom::Point2D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawMol::extractAtomCoords()’ at /<>/Code/GraphMol/MolDraw2D/DrawMol.cpp:254:21: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘double RDKit::MolDraw2D_detail::DrawMol::getNoteStartAngle(const RDKit::Atom*) const’ at /<>/Code/GraphMol/MolDraw2D/DrawMol.cpp:2392:24: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::MolDraw2D_detail::StringRect&, RDKit::MolDraw2D_detail::OrientType&, unsigned int}; _Tp = std::tuple; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::MolDraw2D_detail::StringRect&, RDKit::MolDraw2D_detail::OrientType&, unsigned int}; _Tp = std::tuple; _Alloc = std::allocator >]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawMol::extractRadicals()’ at /<>/Code/GraphMol/MolDraw2D/DrawMol.cpp:476:27: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/Code/GraphMol/MolDraw2D/DrawMol.cpp: In member function ‘void RDKit::MolDraw2D_detail::DrawMol::newBondLine(const RDGeom::Point2D&, const RDGeom::Point2D&, const RDKit::DrawColour&, const RDKit::DrawColour&, int, int, int, const RDKit::DashPattern&)’: /<>/Code/GraphMol/MolDraw2D/DrawMol.cpp:2035:38: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 2035 | std::vector pts{pt1, pt2}; | ^ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDGeom::Point2D}; _Tp = RDGeom::Point2D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDGeom::Point2D}; _Tp = RDGeom::Point2D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/Code/GraphMol/MolDraw2D/DrawMol.cpp: In member function ‘void RDKit::MolDraw2D_detail::DrawMol::makeQueryBond(RDKit::Bond*, double)’: /<>/Code/GraphMol/MolDraw2D/DrawMol.cpp:1777:48: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 1777 | midp + segment}; | ^ /<>/Code/GraphMol/MolDraw2D/DrawMol.cpp:1789:40: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 1789 | std::vector pts{p1, p2}; | ^ /<>/Code/GraphMol/MolDraw2D/DrawMol.cpp:1795:20: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 1795 | pts = std::vector{p1, p2}; | ^~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawMol::makeHighlightEnd(const RDKit::Atom*, const RDKit::Atom*, double, const std::vector&, std::vector&)’ at /<>/Code/GraphMol/MolDraw2D/DrawMol.cpp:3374:21: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawMol::makeHighlightEnd(const RDKit::Atom*, const RDKit::Atom*, double, const std::vector&, std::vector&)’ at /<>/Code/GraphMol/MolDraw2D/DrawMol.cpp:3376:21: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = std::pair; _Alloc = std::allocator >]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::MolDraw2D_detail::DrawMol::makeHighlightEnd(const RDKit::Atom*, const RDKit::Atom*, double, const std::vector&, std::vector&)’ at /<>/Code/GraphMol/MolDraw2D/DrawMol.cpp:3389:21: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, std::vector&)::&, const pair&)> >]’, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator*, vector > >; _Compare = RDKit::MolDraw2D_detail::DrawMol::makeHighlightEnd(const RDKit::Atom*, const RDKit::Atom*, double, const std::vector&, std::vector&)::&, const pair&)>]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘void RDKit::MolDraw2D_detail::DrawMol::makeHighlightEnd(const RDKit::Atom*, const RDKit::Atom*, double, const std::vector&, std::vector&)’ at /<>/Code/GraphMol/MolDraw2D/DrawMol.cpp:3391:14: /usr/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1947 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1948 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1949 | __comp); | ~~~~~~~ In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, std::vector&)::&, const pair&)> >]’, inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, std::vector&)::&, const pair&)> >]’ at /usr/include/c++/13/bits/stl_algo.h:1950:31, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator*, vector > >; _Compare = RDKit::MolDraw2D_detail::DrawMol::makeHighlightEnd(const RDKit::Atom*, const RDKit::Atom*, double, const std::vector&, std::vector&)::&, const pair&)>]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘void RDKit::MolDraw2D_detail::DrawMol::makeHighlightEnd(const RDKit::Atom*, const RDKit::Atom*, double, const std::vector&, std::vector&)’ at /<>/Code/GraphMol/MolDraw2D/DrawMol.cpp:3391:14: /usr/include/c++/13/bits/stl_algo.h:1859:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1859 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1864:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1864 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawMol::makeHighlightEnd(const RDKit::Atom*, const RDKit::Atom*, double, const std::vector&, std::vector&)’ at /<>/Code/GraphMol/MolDraw2D/DrawMol.cpp:3403:21: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawMol::makeHighlightEnd(const RDKit::Atom*, const RDKit::Atom*, double, const std::vector&, std::vector&)’ at /<>/Code/GraphMol/MolDraw2D/DrawMol.cpp:3404:21: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawMol::makeHighlightEnd(const RDKit::Atom*, const RDKit::Atom*, double, const std::vector&, std::vector&)’ at /<>/Code/GraphMol/MolDraw2D/DrawMol.cpp:3414:21: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from /<>/Code/GraphMol/Wrap/MolOps.cpp:36: /<>/Code/RDBoost/python_streambuf.h: In member function ‘virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(off_type, std::ios_base::seekdir, std::ios_base::openmode)’: /<>/Code/RDBoost/python_streambuf.h:420:16: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 420 | result = off_type(bp::extract(py_tell())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/Code/RDBoost/python_streambuf.h:420:56: note: ‘’ declared here 420 | result = off_type(bp::extract(py_tell())); | ^ /<>/Code/RDBoost/python_streambuf.h: In constructor ‘boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)’: /<>/Code/RDBoost/python_streambuf.h:185:56: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 185 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:185:56: note: ‘’ declared here 185 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:155:58: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 155 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:155:58: note: ‘’ declared here 155 | off_type py_pos = bp::extract(py_tell()); | ^ In file included from /usr/include/c++/13/vector:72, from /usr/include/c++/13/functional:64, from /usr/include/boost/config/no_tr1/functional.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:15, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/GraphMol/Wrap/MolOps.cpp:12: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:60: /usr/include/c++/13/bits/stl_algobase.h: In function ‘void std::iter_swap(_ForwardIterator1, _ForwardIterator2) [with _ForwardIterator1 = __gnu_cxx::__normal_iterator >; _ForwardIterator2 = __gnu_cxx::__normal_iterator >]’: /usr/include/c++/13/bits/stl_algobase.h:155:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 155 | iter_swap(_ForwardIterator1 __a, _ForwardIterator2 __b) | ^~~~~~~~~ /usr/include/c++/13/bits/stl_algobase.h:155:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1918 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In function ‘void std::__move_median_to_first(_Iterator, _Iterator, _Iterator, _Iterator, _Compare) [with _Iterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’, inlined from ‘_RandomAccessIterator std::__unguarded_partition_pivot(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’ at /usr/include/c++/13/bits/stl_algo.h:1897:34, inlined from ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’ at /usr/include/c++/13/bits/stl_algo.h:1931:38: /usr/include/c++/13/bits/stl_algo.h:98:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 98 | std::iter_swap(__result, __a); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/13/bits/stl_algo.h:1932:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1932 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1918 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In function ‘void std::__move_median_to_first(_Iterator, _Iterator, _Iterator, _Iterator, _Compare) [with _Iterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’, inlined from ‘_RandomAccessIterator std::__unguarded_partition_pivot(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’ at /usr/include/c++/13/bits/stl_algo.h:1897:34, inlined from ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’ at /usr/include/c++/13/bits/stl_algo.h:1931:38: /usr/include/c++/13/bits/stl_algo.h:93:27: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 93 | std::iter_swap(__result, __c); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:95:27: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 95 | std::iter_swap(__result, __a); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:100:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 100 | std::iter_swap(__result, __c); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:102:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 102 | std::iter_swap(__result, __b); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/13/bits/stl_algo.h:1932:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1932 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = RDKit::MolDraw2D_detail::DrawMol::makeBondHighlightLines(double, double)::]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘void RDKit::MolDraw2D_detail::DrawMol::makeBondHighlightLines(double, double)’ at /<>/Code/GraphMol/MolDraw2D/DrawMol.cpp:2253:20: /usr/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1947 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1948 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1949 | __comp); | ~~~~~~~ In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’, inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’ at /usr/include/c++/13/bits/stl_algo.h:1950:31, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = RDKit::MolDraw2D_detail::DrawMol::makeBondHighlightLines(double, double)::]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘void RDKit::MolDraw2D_detail::DrawMol::makeBondHighlightLines(double, double)’ at /<>/Code/GraphMol/MolDraw2D/DrawMol.cpp:2253:20: /usr/include/c++/13/bits/stl_algo.h:1859:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1859 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1864:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1864 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = RDKit::MolDraw2D_detail::DrawMol::makeBondHighlightLines(double, double)::]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘void RDKit::MolDraw2D_detail::DrawMol::makeBondHighlightLines(double, double)’ at /<>/Code/GraphMol/MolDraw2D/DrawMol.cpp:2264:20: /usr/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1947 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1948 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1949 | __comp); | ~~~~~~~ In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’, inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’ at /usr/include/c++/13/bits/stl_algo.h:1950:31, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = RDKit::MolDraw2D_detail::DrawMol::makeBondHighlightLines(double, double)::]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘void RDKit::MolDraw2D_detail::DrawMol::makeBondHighlightLines(double, double)’ at /<>/Code/GraphMol/MolDraw2D/DrawMol.cpp:2264:20: /usr/include/c++/13/bits/stl_algo.h:1859:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1859 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1864:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1864 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/GraphMol/MarvinParse/MarvinWriter.cpp:17: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const RDKit::MarvinRectangle&}; _Tp = RDKit::MarvinRectangle; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/Code/GraphMol/MarvinParse/MarvinWriter.cpp:18: /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Val_comp_iter]’: /usr/include/c++/13/bits/stl_algo.h:1792:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1792 | __unguarded_linear_insert(_RandomAccessIterator __last, | ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’: /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1812 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’: /usr/include/c++/13/bits/stl_algo.h:1854:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1854 | __final_insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1854:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_algo.h:1859:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1859 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1864:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1864 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::_testSetProps(RDProps&, const std::string&)’ at /<>/Code/GraphMol/Wrap/MolOps.cpp:1000:21: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::_testSetProps(RDProps&, const std::string&)’ at /<>/Code/GraphMol/Wrap/MolOps.cpp:1001:21: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::_testSetProps(RDProps&, const std::string&)’ at /<>/Code/GraphMol/Wrap/MolOps.cpp:1002:21: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algo.h:61: /usr/include/c++/13/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = RDKit::MarvinRectangle; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’: /usr/include/c++/13/bits/stl_heap.h:224:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’: /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1918 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_algo.h:1932:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1932 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/Code/GraphMol/MolDraw2D/DrawMol.h:26, from /<>/Code/GraphMol/MolDraw2D/DrawMol.cpp:28: In function ‘void __static_initialization_and_destruction_0()’, inlined from ‘(static initializers for /<>/Code/GraphMol/MolDraw2D/DrawMol.cpp)’ at /<>/Code/GraphMol/MolDraw2D/DrawMol.cpp:3768:1: /<>/Code/GraphMol/MolDraw2D/DrawShape.h:27:32: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 27 | const DashPattern dots{2.0, 6.0}; | ^ /<>/Code/GraphMol/MolDraw2D/DrawShape.h:28:34: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 28 | const DashPattern dashes{6.0, 4.0}; | ^ /<>/Code/GraphMol/MolDraw2D/DrawShape.h:29:39: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 29 | const DashPattern shortDashes{2.0, 2.0}; | ^ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDKit::MarvinRectangle; _Alloc = std::allocator]’, inlined from ‘double RDKit::MarvinCMLWriter::GetArrowPerdendicularPosition(std::vector >&, bool)’ at /<>/Code/GraphMol/MarvinParse/MarvinWriter.cpp:871:32: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = bool (*)(RDKit::MarvinRectangle&, RDKit::MarvinRectangle&)]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘double RDKit::MarvinCMLWriter::GetArrowPerdendicularPosition(std::vector >&, bool)’ at /<>/Code/GraphMol/MarvinParse/MarvinWriter.cpp:878:16: /usr/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1947 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1948 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1949 | __comp); | ~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1950:38: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1950 | std::__final_insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = bool (*)(RDKit::MarvinRectangle&, RDKit::MarvinRectangle&)]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘double RDKit::MarvinCMLWriter::GetArrowPerdendicularPosition(std::vector >&, bool)’ at /<>/Code/GraphMol/MarvinParse/MarvinWriter.cpp:881:16: /usr/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1947 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1948 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1949 | __comp); | ~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1950:38: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1950 | std::__final_insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDKit::MarvinRectangle; _Alloc = std::allocator]’, inlined from ‘void RDKit::MarvinCMLWriter::AddMarvinPluses(RDKit::MarvinReaction&, std::vector >&, int&)’ at /<>/Code/GraphMol/MarvinParse/MarvinWriter.cpp:945:25: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDKit::MarvinRectangle; _Alloc = std::allocator]’, inlined from ‘void RDKit::MarvinCMLWriter::AddMarvinPluses(RDKit::MarvinReaction&, std::vector >&, int&)’ at /<>/Code/GraphMol/MarvinParse/MarvinWriter.cpp:936:26: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’, inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = bool (*)(RDKit::MarvinRectangle&, RDKit::MarvinRectangle&)]’ at /usr/include/c++/13/bits/stl_algo.h:4894:18, inlined from ‘void RDKit::MarvinCMLWriter::AddMarvinPluses(RDKit::MarvinReaction&, std::vector >&, int&)’ at /<>/Code/GraphMol/MarvinParse/MarvinWriter.cpp:953:16: /usr/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1947 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1948 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1949 | __comp); | ~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1950:38: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1950 | std::__final_insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ [ 87%] Building CXX object Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/RepeatUnit.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolEnumerator && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolEnumerator_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLENUMERATOR_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/RepeatUnit.cpp.o -MF CMakeFiles/MolEnumerator.dir/RepeatUnit.cpp.o.d -o CMakeFiles/MolEnumerator.dir/RepeatUnit.cpp.o -c /<>/Code/GraphMol/MolEnumerator/RepeatUnit.cpp [ 87%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawMolMCH.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/freetype2 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawMolMCH.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawMolMCH.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawMolMCH.cpp.o -c /<>/Code/GraphMol/MolDraw2D/DrawMolMCH.cpp [ 87%] Building CXX object Code/GraphMol/MarvinParse/CMakeFiles/MarvinParser.dir/MarvinDefs.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MarvinParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMarvinParser_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MARVINPARSER_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MarvinParse/CMakeFiles/MarvinParser.dir/MarvinDefs.cpp.o -MF CMakeFiles/MarvinParser.dir/MarvinDefs.cpp.o.d -o CMakeFiles/MarvinParser.dir/MarvinDefs.cpp.o -c /<>/Code/GraphMol/MarvinParse/MarvinDefs.cpp In file included from /usr/include/c++/13/vector:66, from /usr/include/boost/graph/adjacency_list.hpp:16, from /<>/Code/GraphMol/ROMol.h:29, from /<>/Code/GraphMol/RWMol.h:22, from /<>/Code/GraphMol/MolDraw2D/DrawMolMCH.cpp:13: /usr/include/c++/13/bits/stl_vector.h: In constructor ‘std::vector<_Tp, _Alloc>::vector(std::initializer_list<_Tp>, const allocator_type&) [with _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/stl_vector.h:675:7: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 675 | vector(initializer_list __l, | ^~~~~~ In file included from /<>/Code/GraphMol/MolDraw2D/DrawMol.h:26, from /<>/Code/GraphMol/MolDraw2D/DrawMolMCH.h:20, from /<>/Code/GraphMol/MolDraw2D/DrawMolMCH.cpp:15: In function ‘void __static_initialization_and_destruction_0()’, inlined from ‘(static initializers for /<>/Code/GraphMol/MolDraw2D/DrawMolMCH.cpp)’ at /<>/Code/GraphMol/MolDraw2D/DrawMolMCH.cpp:51:1: /<>/Code/GraphMol/MolDraw2D/DrawShape.h:27:32: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 27 | const DashPattern dots{2.0, 6.0}; | ^ /<>/Code/GraphMol/MolDraw2D/DrawShape.h:28:34: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 28 | const DashPattern dashes{6.0, 4.0}; | ^ /<>/Code/GraphMol/MolDraw2D/DrawShape.h:29:39: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 29 | const DashPattern shortDashes{2.0, 2.0}; | ^ [ 87%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawMolMCHCircleAndLine.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/freetype2 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawMolMCHCircleAndLine.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawMolMCHCircleAndLine.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawMolMCHCircleAndLine.cpp.o -c /<>/Code/GraphMol/MolDraw2D/DrawMolMCHCircleAndLine.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:14, from /<>/Code/GraphMol/MolEnumerator/RepeatUnit.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 87%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/ChiralityOps.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolops_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/ChiralityOps.cpp.o -MF CMakeFiles/rdmolops.dir/ChiralityOps.cpp.o.d -o CMakeFiles/rdmolops.dir/ChiralityOps.cpp.o -c /<>/Code/GraphMol/Wrap/ChiralityOps.cpp [ 87%] Linking CXX shared library ../../../lib/libRDKitMolEnumerator.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolEnumerator && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolEnumerator.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMolEnumerator.so.1 -o ../../../lib/libRDKitMolEnumerator.so.1.2023.09.3 CMakeFiles/MolEnumerator.dir/MolEnumerator.cpp.o CMakeFiles/MolEnumerator.dir/PositionVariation.cpp.o CMakeFiles/MolEnumerator.dir/LinkNode.cpp.o CMakeFiles/MolEnumerator.dir/RepeatUnit.cpp.o ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolEnumerator && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolEnumerator.so.1.2023.09.3 ../../../lib/libRDKitMolEnumerator.so.1 ../../../lib/libRDKitMolEnumerator.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 87%] Built target MolEnumerator make -f Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ChemReactions /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 87%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/testReaction.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/testReaction.cpp.o -MF CMakeFiles/testReaction.dir/testReaction.cpp.o.d -o CMakeFiles/testReaction.dir/testReaction.cpp.o -c /<>/Code/GraphMol/ChemReactions/testReaction.cpp In file included from /usr/include/c++/13/vector:66, from /usr/include/boost/graph/adjacency_list.hpp:16, from /<>/Code/GraphMol/ROMol.h:29, from /<>/Code/GraphMol/RWMol.h:22, from /<>/Code/GraphMol/MolDraw2D/DrawMolMCHCircleAndLine.cpp:15: /usr/include/c++/13/bits/stl_vector.h: In constructor ‘std::vector<_Tp, _Alloc>::vector(std::initializer_list<_Tp>, const allocator_type&) [with _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/stl_vector.h:675:7: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 675 | vector(initializer_list __l, | ^~~~~~ In file included from /usr/include/c++/13/vector:72: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const RDGeom::Point2D&}; _Tp = RDGeom::Point2D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDGeom::Point2D}; _Tp = RDGeom::Point2D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDGeom::Point2D}; _Tp = RDGeom::Point2D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawMolMCHCircleAndLine::makeBondHighlights(std::vector >&)’ at /<>/Code/GraphMol/MolDraw2D/DrawMolMCHCircleAndLine.cpp:116:29: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawMolMCHCircleAndLine::makeBondHighlights(std::vector >&)’ at /<>/Code/GraphMol/MolDraw2D/DrawMolMCHCircleAndLine.cpp:119:29: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from /<>/Code/GraphMol/MolDraw2D/DrawMol.h:26, from /<>/Code/GraphMol/MolDraw2D/DrawMolMCH.h:20, from /<>/Code/GraphMol/MolDraw2D/DrawMolMCHCircleAndLine.h:16, from /<>/Code/GraphMol/MolDraw2D/DrawMolMCHCircleAndLine.cpp:17: In function ‘void __static_initialization_and_destruction_0()’, inlined from ‘(static initializers for /<>/Code/GraphMol/MolDraw2D/DrawMolMCHCircleAndLine.cpp)’ at /<>/Code/GraphMol/MolDraw2D/DrawMolMCHCircleAndLine.cpp:301:1: /<>/Code/GraphMol/MolDraw2D/DrawShape.h:27:32: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 27 | const DashPattern dots{2.0, 6.0}; | ^ /<>/Code/GraphMol/MolDraw2D/DrawShape.h:28:34: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 28 | const DashPattern dashes{6.0, 4.0}; | ^ /<>/Code/GraphMol/MolDraw2D/DrawShape.h:29:39: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 29 | const DashPattern shortDashes{2.0, 2.0}; | ^ [ 87%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawMolMCHLasso.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/freetype2 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawMolMCHLasso.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawMolMCHLasso.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawMolMCHLasso.cpp.o -c /<>/Code/GraphMol/MolDraw2D/DrawMolMCHLasso.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/GraphMol/MarvinParse/MarvinDefs.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algo.h:61, from /usr/include/c++/13/algorithm:61, from /<>/Code/GraphMol/MolDraw2D/DrawMolMCHLasso.cpp:15: /usr/include/c++/13/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Distance = int; _Tp = pair; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/include/c++/13/bits/stl_heap.h:224:5: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66, from /<>/Code/GraphMol/MolDraw2D/DrawMolMCHLasso.cpp:17: /usr/include/c++/13/bits/stl_vector.h: In constructor ‘std::vector<_Tp, _Alloc>::vector(std::initializer_list<_Tp>, const allocator_type&) [with _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/stl_vector.h:675:7: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 675 | vector(initializer_list __l, | ^~~~~~ In file included from /usr/include/c++/13/vector:72: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const RDKit::DrawColour&}; _Tp = RDKit::DrawColour; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__move_median_to_first(_Iterator, _Iterator, _Iterator, _Iterator, _Compare) [with _Iterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/include/c++/13/bits/stl_algo.h:85:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 85 | __move_median_to_first(_Iterator __result,_Iterator __a, _Iterator __b, | ^~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:85:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_algo.h:85:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_algo.h:85:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Val_less_iter]’: /usr/include/c++/13/bits/stl_algo.h:1792:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1792 | __unguarded_linear_insert(_RandomAccessIterator __last, | ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1812 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Distance = int; _Tp = pair; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/include/c++/13/bits/stl_heap.h:224:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1918 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 In function ‘_RandomAccessIterator std::__unguarded_partition_pivot(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’, inlined from ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’ at /usr/include/c++/13/bits/stl_algo.h:1931:38: /usr/include/c++/13/bits/stl_algo.h:1897:34: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1897 | std::__move_median_to_first(__first, __first + 1, __mid, __last - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1898 | __comp); | ~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1897:34: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/include/c++/13/bits/stl_algo.h:1932:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1932 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = std::pair; _Alloc = std::allocator >]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::MolDraw2D_detail::DrawMolMCHLasso::fixArcsAndLines(std::vector >&, std::vector >&) const’ at /<>/Code/GraphMol/MolDraw2D/DrawMolMCHLasso.cpp:326:32: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’, inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator*, vector > >]’ at /usr/include/c++/13/bits/stl_algo.h:4861:18, inlined from ‘void RDKit::MolDraw2D_detail::DrawMolMCHLasso::fixArcsAndLines(std::vector >&, std::vector >&) const’ at /<>/Code/GraphMol/MolDraw2D/DrawMolMCHLasso.cpp:337:18: /usr/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1947 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1948 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1949 | __comp); | ~~~~~~~ In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’, inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’ at /usr/include/c++/13/bits/stl_algo.h:1950:31, inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator*, vector > >]’ at /usr/include/c++/13/bits/stl_algo.h:4861:18, inlined from ‘void RDKit::MolDraw2D_detail::DrawMolMCHLasso::fixArcsAndLines(std::vector >&, std::vector >&) const’ at /<>/Code/GraphMol/MolDraw2D/DrawMolMCHLasso.cpp:337:18: /usr/include/c++/13/bits/stl_algo.h:1859:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1859 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1864:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1864 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:60: In static member function ‘static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = int; _Up = int; bool _IsMove = false]’, inlined from ‘_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = int*; _OI = int*]’ at /usr/include/c++/13/bits/stl_algobase.h:506:30, inlined from ‘_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = int*; _OI = int*]’ at /usr/include/c++/13/bits/stl_algobase.h:533:42, inlined from ‘_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = __gnu_cxx::__normal_iterator >; _OI = int*]’ at /usr/include/c++/13/bits/stl_algobase.h:540:31, inlined from ‘_OI std::copy(_II, _II, _OI) [with _II = __gnu_cxx::__normal_iterator >; _OI = int*]’ at /usr/include/c++/13/bits/stl_algobase.h:633:7, inlined from ‘static _ForwardIterator std::__uninitialized_copy::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = int*]’ at /usr/include/c++/13/bits/stl_uninitialized.h:147:27, inlined from ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = int*]’ at /usr/include/c++/13/bits/stl_uninitialized.h:185:15, inlined from ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = int*; _Tp = int]’ at /usr/include/c++/13/bits/stl_uninitialized.h:373:37, inlined from ‘void std::vector<_Tp, _Alloc>::_M_range_insert(iterator, _ForwardIterator, _ForwardIterator, std::forward_iterator_tag) [with _ForwardIterator = __gnu_cxx::__normal_iterator >; _Tp = int; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/vector.tcc:814:38, inlined from ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, _InputIterator, _InputIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; = void; _Tp = int; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1483:19, inlined from ‘void RDKit::MolDraw2D_detail::DrawMolMCHLasso::extractAtomColourLists(std::vector&, std::vector >&, std::vector >&) const’ at /<>/Code/GraphMol/MolDraw2D/DrawMolMCHLasso.cpp:113:32: /usr/include/c++/13/bits/stl_algobase.h:437:30: warning: ‘void* __builtin_memmove(void*, const void*, unsigned int)’ writing between 5 and 2147483644 bytes into a region of size 0 overflows the destination [-Wstringop-overflow=] 437 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/arm-linux-gnueabihf/c++/13/bits/c++allocator.h:33, from /usr/include/c++/13/bits/allocator.h:46, from /usr/include/c++/13/list:63, from /<>/Code/GraphMol/MolDraw2D/DrawMolMCHLasso.cpp:16: In member function ‘_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = long unsigned int]’, inlined from ‘static _Tp* std::allocator_traits >::allocate(allocator_type&, size_type) [with _Tp = long unsigned int]’ at /usr/include/c++/13/bits/alloc_traits.h:482:28, inlined from ‘std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = long unsigned int; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:378:33, inlined from ‘std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = int; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:375:7, inlined from ‘void std::vector<_Tp, _Alloc>::_M_range_insert(iterator, _ForwardIterator, _ForwardIterator, std::forward_iterator_tag) [with _ForwardIterator = __gnu_cxx::__normal_iterator >; _Tp = int; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/vector.tcc:805:40, inlined from ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, _InputIterator, _InputIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; = void; _Tp = int; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1483:19, inlined from ‘void RDKit::MolDraw2D_detail::DrawMolMCHLasso::extractAtomColourLists(std::vector&, std::vector >&, std::vector >&) const’ at /<>/Code/GraphMol/MolDraw2D/DrawMolMCHLasso.cpp:113:32: /usr/include/c++/13/bits/new_allocator.h:151:55: note: at offset [-2147483648, -1] into destination object of size [4, 2147483644] allocated by ‘operator new’ 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDKit::DrawColour; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawMolMCHLasso::extractAtomColourLists(std::vector&, std::vector >&, std::vector >&) const’ at /<>/Code/GraphMol/MolDraw2D/DrawMolMCHLasso.cpp:69:26: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = std::pair; _Alloc = std::allocator >]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::MolDraw2D_detail::DrawMolMCHLasso::fixOrphanLines(std::vector >&, std::vector >&)’ at /<>/Code/GraphMol/MolDraw2D/DrawMolMCHLasso.cpp:568:22: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/Code/GraphMol/MolDraw2D/DrawMol.h:26, from /<>/Code/GraphMol/MolDraw2D/DrawMolMCH.h:20, from /<>/Code/GraphMol/MolDraw2D/DrawMolMCHLasso.h:13, from /<>/Code/GraphMol/MolDraw2D/DrawMolMCHLasso.cpp:21: In function ‘void __static_initialization_and_destruction_0()’, inlined from ‘(static initializers for /<>/Code/GraphMol/MolDraw2D/DrawMolMCHLasso.cpp)’ at /<>/Code/GraphMol/MolDraw2D/DrawMolMCHLasso.cpp:626:1: /<>/Code/GraphMol/MolDraw2D/DrawShape.h:27:32: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 27 | const DashPattern dots{2.0, 6.0}; | ^ /<>/Code/GraphMol/MolDraw2D/DrawShape.h:28:34: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 28 | const DashPattern dashes{6.0, 4.0}; | ^ /<>/Code/GraphMol/MolDraw2D/DrawShape.h:29:39: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 29 | const DashPattern shortDashes{2.0, 2.0}; | ^ [ 87%] Linking CXX shared module ../../../rdkit/Chem/rdmolops.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdmolops.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/Chem/rdmolops.so CMakeFiles/rdmolops.dir/rdmolops.cpp.o CMakeFiles/rdmolops.dir/MolOps.cpp.o CMakeFiles/rdmolops.dir/ChiralityOps.cpp.o ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl [ 87%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawShape.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/freetype2 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawShape.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawShape.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawShape.cpp.o -c /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 87%] Built target rdmolops make -f Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ChemReactions /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 87%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/testReactionFingerprints.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/testReactionFingerprints.cpp.o -MF CMakeFiles/testReactionFingerprints.dir/testReactionFingerprints.cpp.o.d -o CMakeFiles/testReactionFingerprints.dir/testReactionFingerprints.cpp.o -c /<>/Code/GraphMol/ChemReactions/testReactionFingerprints.cpp [ 87%] Linking CXX shared library ../../../lib/libRDKitMarvinParser.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MarvinParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/MarvinParser.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMarvinParser.so.1 -o ../../../lib/libRDKitMarvinParser.so.1.2023.09.3 CMakeFiles/MarvinParser.dir/MarvinParser.cpp.o CMakeFiles/MarvinParser.dir/MarvinWriter.cpp.o CMakeFiles/MarvinParser.dir/MarvinDefs.cpp.o ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MarvinParse && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMarvinParser.so.1.2023.09.3 ../../../lib/libRDKitMarvinParser.so.1 ../../../lib/libRDKitMarvinParser.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 87%] Built target MarvinParser make -f Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ChemReactions /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 87%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/Enumerate/testEnumerate.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/Enumerate/testEnumerate.cpp.o -MF CMakeFiles/testEnumeration.dir/Enumerate/testEnumerate.cpp.o.d -o CMakeFiles/testEnumeration.dir/Enumerate/testEnumerate.cpp.o -c /<>/Code/GraphMol/ChemReactions/Enumerate/testEnumerate.cpp In file included from /usr/include/c++/13/vector:66, from /<>/Code/GraphMol/MolDraw2D/MolDraw2DDetails.h:15, from /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:15: /usr/include/c++/13/bits/stl_vector.h: In constructor ‘std::vector<_Tp, _Alloc>::vector(std::initializer_list<_Tp>, const allocator_type&) [with _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/stl_vector.h:675:7: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 675 | vector(initializer_list __l, | ^~~~~~ In file included from /usr/include/c++/13/vector:72: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const RDGeom::Point2D&}; _Tp = RDGeom::Point2D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘RDKit::MolDraw2D_detail::DrawShapeArrow::DrawShapeArrow(const std::vector&, double, bool, RDKit::DrawColour, bool, int, int, int, double, double)’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:107:20: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘RDKit::MolDraw2D_detail::DrawShapeArrow::DrawShapeArrow(const std::vector&, double, bool, RDKit::DrawColour, bool, int, int, int, double, double)’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:108:20: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildSingleColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:319:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildSingleColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:320:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildSingleColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:321:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildSingleColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:333:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildSingleColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:334:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildSingleColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:335:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildSingleColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:342:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildSingleColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:343:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildSingleColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:344:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildSingleColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:350:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildSingleColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:351:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildSingleColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:352:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildTwoColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:369:20: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildTwoColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:370:20: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildTwoColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:371:20: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildTwoColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:373:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildTwoColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:374:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildTwoColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:375:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildTwoColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:376:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildTwoColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:377:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildTwoColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:378:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildTwoColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:390:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildTwoColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:391:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildTwoColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:392:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildTwoColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:393:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildTwoColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:394:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildTwoColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:395:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildTwoColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:407:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildTwoColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:408:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildTwoColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:409:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildTwoColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:410:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildTwoColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:411:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildTwoColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:412:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildTwoColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:413:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildTwoColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:414:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeSolidWedge::buildTwoColorTriangles()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:415:22: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const RDKit::DrawColour&}; _Tp = RDKit::DrawColour; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeDashedWedge::buildLines()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:560:24: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeDashedWedge::buildLines()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:561:24: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDKit::DrawColour; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeDashedWedge::buildLines()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:563:31: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDKit::DrawColour; _Alloc = std::allocator]’, inlined from ‘void RDKit::MolDraw2D_detail::DrawShapeDashedWedge::buildLines()’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:565:31: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:16: In function ‘void __static_initialization_and_destruction_0()’, inlined from ‘(static initializers for /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp)’ at /<>/Code/GraphMol/MolDraw2D/DrawShape.cpp:723:1: /<>/Code/GraphMol/MolDraw2D/DrawShape.h:27:32: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 27 | const DashPattern dots{2.0, 6.0}; | ^ /<>/Code/GraphMol/MolDraw2D/DrawShape.h:28:34: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 28 | const DashPattern dashes{6.0, 4.0}; | ^ /<>/Code/GraphMol/MolDraw2D/DrawShape.h:29:39: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 29 | const DashPattern shortDashes{2.0, 2.0}; | ^ [ 87%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawText.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/freetype2 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawText.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawText.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawText.cpp.o -c /<>/Code/GraphMol/MolDraw2D/DrawText.cpp [ 87%] Linking CXX executable testReactionFingerprints cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_link_script CMakeFiles/testReactionFingerprints.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testReactionFingerprints.dir/testReactionFingerprints.cpp.o -o testReactionFingerprints ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 87%] Built target testReactionFingerprints make -f Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ChemReactions /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 87%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/catch_tests.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/catch_tests.cpp.o -MF CMakeFiles/rxnTestCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/rxnTestCatch.dir/catch_tests.cpp.o -c /<>/Code/GraphMol/ChemReactions/catch_tests.cpp In file included from /usr/include/c++/13/bits/stl_algobase.h:64, from /usr/include/c++/13/string:51, from /<>/Code/GraphMol/MolDraw2D/DrawText.h:19, from /<>/Code/GraphMol/MolDraw2D/DrawText.cpp:13: /usr/include/c++/13/bits/stl_pair.h: In instantiation of ‘constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = double&; _T2 = double&; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp>::type = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp2>::type = double]’: /<>/Code/GraphMol/MolDraw2D/DrawText.cpp:165:47: required from here /usr/include/c++/13/bits/stl_pair.h:922:5: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 922 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/RDGeneral/types.h:27, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/ChemReactions/Enumerate/testEnumerate.cpp:34: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {long long unsigned int}; _Tp = long long unsigned int; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {long long unsigned int}; _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = long long unsigned int; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘RDKit::EnumerationTypes::RGROUPS RDKit::getSizesFromBBs(const std::vector >&) [with T = boost::shared_ptr]’ at /<>/Code/GraphMol/ChemReactions/Enumerate/EnumerationStrategyBase.h:79:20, inlined from ‘void RDKit::EnumerationStrategyBase::initialize(const RDKit::ChemicalReaction&, const RDKit::EnumerationTypes::BBS&)’ at /<>/Code/GraphMol/ChemReactions/Enumerate/EnumerationStrategyBase.h:149:41: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 87%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextNotFT.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/freetype2 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextNotFT.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawTextNotFT.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawTextNotFT.cpp.o -c /<>/Code/GraphMol/MolDraw2D/DrawTextNotFT.cpp [ 87%] Linking CXX executable testEnumeration cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_link_script CMakeFiles/testEnumeration.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testEnumeration.dir/Enumerate/testEnumerate.cpp.o -o testEnumeration ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 87%] Built target testEnumeration make -f Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build.make Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ChemReactions/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build.make Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 87%] Building CXX object Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/Enumerate.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdChemReactions_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/Enumerate.cpp.o -MF CMakeFiles/rdChemReactions.dir/Enumerate.cpp.o.d -o CMakeFiles/rdChemReactions.dir/Enumerate.cpp.o -c /<>/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/GraphMol/ChemReactions/testReaction.cpp:33: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 87%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextSVG.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/freetype2 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextSVG.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawTextSVG.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawTextSVG.cpp.o -c /<>/Code/GraphMol/MolDraw2D/DrawTextSVG.cpp /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 88%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DJS.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/freetype2 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DJS.cpp.o -MF CMakeFiles/MolDraw2D.dir/MolDraw2DJS.cpp.o.d -o CMakeFiles/MolDraw2D.dir/MolDraw2DJS.cpp.o -c /<>/Code/GraphMol/MolDraw2D/MolDraw2DJS.cpp [ 88%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextJS.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/freetype2 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextJS.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawTextJS.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawTextJS.cpp.o -c /<>/Code/GraphMol/MolDraw2D/DrawTextJS.cpp [ 88%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DCairo.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/freetype2 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DCairo.cpp.o -MF CMakeFiles/MolDraw2D.dir/MolDraw2DCairo.cpp.o.d -o CMakeFiles/MolDraw2D.dir/MolDraw2DCairo.cpp.o -c /<>/Code/GraphMol/MolDraw2D/MolDraw2DCairo.cpp In file included from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp:32: /usr/include/c++/13/bits/stl_algobase.h: In function ‘_RandomAccessIterator std::__find_if(_RandomAccessIterator, _RandomAccessIterator, _Predicate, random_access_iterator_tag) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Predicate = __gnu_cxx::__ops::_Iter_equals_val]’: /usr/include/c++/13/bits/stl_algobase.h:2064:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2064 | __find_if(_RandomAccessIterator __first, _RandomAccessIterator __last, | ^~~~~~~~~ /usr/include/c++/13/bits/stl_algobase.h:2064:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In file included from /usr/include/c++/13/vector:72, from /usr/include/c++/13/functional:64, from /usr/include/boost/config/no_tr1/functional.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:15, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10: /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(iterator, iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:195:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 195 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc:195:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 /usr/include/c++/13/bits/vector.tcc: In function ‘void std::vector<_Tp, _Alloc>::_M_range_insert(iterator, _ForwardIterator, _ForwardIterator, std::forward_iterator_tag) [with _ForwardIterator = __gnu_cxx::__normal_iterator >; _Tp = long long unsigned int; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:751:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 751 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc:751:7: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/13/bits/vector.tcc:751:7: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In file included from /usr/include/boost/python/override.hpp:13, from /usr/include/boost/python/wrapper.hpp:8, from /usr/include/boost/python/object/value_holder.hpp:15, from /usr/include/boost/python/object/class_metadata.hpp:14, from /usr/include/boost/python/class.hpp:23, from /usr/include/boost/python.hpp:18: In member function ‘boost::python::converter::extract_rvalue::result_type boost::python::converter::extract_rvalue::operator()() const [with T = unsigned int]’, inlined from ‘boost::python::extract::operator result_type() const [with T = unsigned int]’ at /usr/include/boost/python/extract.hpp:136:23, inlined from ‘std::vector > > RDKit::ConvertToVect(T) [with T = boost::python::list]’ at /<>/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp:51:33: /usr/include/boost/python/extract.hpp:185:11: warning: ‘*(unsigned int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 185 | ); | ^ /<>/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp: In function ‘std::vector > > RDKit::ConvertToVect(T) [with T = boost::python::list]’: /<>/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp:51:33: note: ‘’ declared here 51 | unsigned int len1 = python::extract(bbs[i].attr("__len__")()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘boost::python::converter::extract_rvalue::result_type boost::python::converter::extract_rvalue::operator()() const [with T = unsigned int]’, inlined from ‘boost::python::extract::operator result_type() const [with T = unsigned int]’ at /usr/include/boost/python/extract.hpp:136:23, inlined from ‘std::vector > > RDKit::ConvertToVect(T) [with T = boost::python::list]’ at /<>/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp:48:28: /usr/include/boost/python/extract.hpp:185:11: warning: ‘*(unsigned int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 185 | ); | ^ /<>/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp: In function ‘std::vector > > RDKit::ConvertToVect(T) [with T = boost::python::list]’: /<>/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp:48:28: note: ‘’ declared here 48 | size_t num_bbs = python::extract(bbs.attr("__len__")()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘boost::python::converter::extract_rvalue::result_type boost::python::converter::extract_rvalue::operator()() const [with T = unsigned int]’, inlined from ‘boost::python::extract::operator result_type() const [with T = unsigned int]’ at /usr/include/boost/python/extract.hpp:136:23, inlined from ‘std::vector > > RDKit::ConvertToVect(T) [with T = boost::python::tuple]’ at /<>/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp:51:33: /usr/include/boost/python/extract.hpp:185:11: warning: ‘*(unsigned int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 185 | ); | ^ /<>/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp: In function ‘std::vector > > RDKit::ConvertToVect(T) [with T = boost::python::tuple]’: /<>/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp:51:33: note: ‘’ declared here 51 | unsigned int len1 = python::extract(bbs[i].attr("__len__")()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘boost::python::converter::extract_rvalue::result_type boost::python::converter::extract_rvalue::operator()() const [with T = unsigned int]’, inlined from ‘boost::python::extract::operator result_type() const [with T = unsigned int]’ at /usr/include/boost/python/extract.hpp:136:23, inlined from ‘std::vector > > RDKit::ConvertToVect(T) [with T = boost::python::tuple]’ at /<>/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp:48:28: /usr/include/boost/python/extract.hpp:185:11: warning: ‘*(unsigned int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 185 | ); | ^ /<>/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp: In function ‘std::vector > > RDKit::ConvertToVect(T) [with T = boost::python::tuple]’: /<>/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp:48:28: note: ‘’ declared here 48 | size_t num_bbs = python::extract(bbs.attr("__len__")()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 88%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextCairo.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/freetype2 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextCairo.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawTextCairo.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawTextCairo.cpp.o -c /<>/Code/GraphMol/MolDraw2D/DrawTextCairo.cpp In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘void test25Conformers()’ at /<>/Code/GraphMol/ChemReactions/testReaction.cpp:2541:27: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void test25Conformers()’ at /<>/Code/GraphMol/ChemReactions/testReaction.cpp:2542:21: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void test25Conformers()’ at /<>/Code/GraphMol/ChemReactions/testReaction.cpp:2543:21: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void test25Conformers()’ at /<>/Code/GraphMol/ChemReactions/testReaction.cpp:2544:21: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘void test25Conformers()’ at /<>/Code/GraphMol/ChemReactions/testReaction.cpp:2551:27: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void test25Conformers()’ at /<>/Code/GraphMol/ChemReactions/testReaction.cpp:2552:21: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25, inlined from ‘void RDKit::Conformer::setAtomPos(U, const RDGeom::Point3D&) [with U = int]’ at /<>/Code/GraphMol/Conformer.h:137:22, inlined from ‘void test25Conformers()’ at /<>/Code/GraphMol/ChemReactions/testReaction.cpp:2553:21: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘_Iterator std::__find_if(_Iterator, _Iterator, _Predicate) [with _Iterator = __gnu_cxx::__normal_iterator >; _Predicate = __gnu_cxx::__ops::_Iter_equals_val]’, inlined from ‘_IIter std::find(_IIter, _IIter, const _Tp&) [with _IIter = __gnu_cxx::__normal_iterator >; _Tp = long long unsigned int]’ at /usr/include/c++/13/bits/stl_algo.h:3897:28, inlined from ‘static bool boost::python::vector_indexing_suite::contains(Container&, const key_type&) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:146:29, inlined from ‘static bool boost::python::indexing_suite::base_contains(Container&, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>; bool NoProxy = true; bool NoSlice = false; Data = long long unsigned int; Index = unsigned int; Key = long long unsigned int]’ at /usr/include/boost/python/suite/indexing/indexing_suite.hpp:279:49: /usr/include/c++/13/bits/stl_algobase.h:2117:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2117 | return __find_if(__first, __last, __pred, | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 2118 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘_Iterator std::__find_if(_Iterator, _Iterator, _Predicate) [with _Iterator = __gnu_cxx::__normal_iterator >; _Predicate = __gnu_cxx::__ops::_Iter_equals_val]’, inlined from ‘_IIter std::find(_IIter, _IIter, const _Tp&) [with _IIter = __gnu_cxx::__normal_iterator >; _Tp = long long unsigned int]’ at /usr/include/c++/13/bits/stl_algo.h:3897:28, inlined from ‘static bool boost::python::vector_indexing_suite::contains(Container&, const key_type&) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:146:29, inlined from ‘static bool boost::python::indexing_suite::base_contains(Container&, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>; bool NoProxy = true; bool NoSlice = false; Data = long long unsigned int; Index = unsigned int; Key = long long unsigned int]’ at /usr/include/boost/python/suite/indexing/indexing_suite.hpp:286:53: /usr/include/c++/13/bits/stl_algobase.h:2117:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2117 | return __find_if(__first, __last, __pred, | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 2118 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘_Iterator std::__find_if(_Iterator, _Iterator, _Predicate) [with _Iterator = __gnu_cxx::__normal_iterator >; _Predicate = __gnu_cxx::__ops::_Iter_equals_val]’, inlined from ‘_IIter std::find(_IIter, _IIter, const _Tp&) [with _IIter = __gnu_cxx::__normal_iterator >; _Tp = long long unsigned int]’ at /usr/include/c++/13/bits/stl_algo.h:3897:28, inlined from ‘static bool boost::python::vector_indexing_suite::contains(Container&, const key_type&) [with Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:146:29, inlined from ‘static bool boost::python::indexing_suite::base_contains(Container&, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; bool NoProxy = false; bool NoSlice = false; Data = long long unsigned int; Index = unsigned int; Key = long long unsigned int]’ at /usr/include/boost/python/suite/indexing/indexing_suite.hpp:279:49: /usr/include/c++/13/bits/stl_algobase.h:2117:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2117 | return __find_if(__first, __last, __pred, | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 2118 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘_Iterator std::__find_if(_Iterator, _Iterator, _Predicate) [with _Iterator = __gnu_cxx::__normal_iterator >; _Predicate = __gnu_cxx::__ops::_Iter_equals_val]’, inlined from ‘_IIter std::find(_IIter, _IIter, const _Tp&) [with _IIter = __gnu_cxx::__normal_iterator >; _Tp = long long unsigned int]’ at /usr/include/c++/13/bits/stl_algo.h:3897:28, inlined from ‘static bool boost::python::vector_indexing_suite::contains(Container&, const key_type&) [with Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:146:29, inlined from ‘static bool boost::python::indexing_suite::base_contains(Container&, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; bool NoProxy = false; bool NoSlice = false; Data = long long unsigned int; Index = unsigned int; Key = long long unsigned int]’ at /usr/include/boost/python/suite/indexing/indexing_suite.hpp:286:53: /usr/include/c++/13/bits/stl_algobase.h:2117:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2117 | return __find_if(__first, __last, __pred, | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 2118 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator, const_iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::delete_slice(Container&, index_type, index_type) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:134:28, inlined from ‘static void boost::python::vector_indexing_suite::delete_slice(Container&, index_type, index_type) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:128:9, inlined from ‘static void boost::python::detail::slice_helper::base_delete_slice(Container&, PySliceObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, true>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, true> >, unsigned int>; Data = long long unsigned int; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:697:42, inlined from ‘static void boost::python::indexing_suite::base_delete_item(Container&, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>; bool NoProxy = true; bool NoSlice = false; Data = long long unsigned int; Index = unsigned int; Key = long long unsigned int]’ at /usr/include/boost/python/suite/indexing/indexing_suite.hpp:256:49: /usr/include/c++/13/bits/stl_vector.h:1563:24: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1563 | return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg)); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator, const_iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::delete_slice(Container&, index_type, index_type) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:134:28, inlined from ‘static void boost::python::vector_indexing_suite::delete_slice(Container&, index_type, index_type) [with Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:128:9, inlined from ‘static void boost::python::detail::slice_helper::base_delete_slice(Container&, PySliceObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, false>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, false> >, unsigned int>; Data = long long unsigned int; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:697:42, inlined from ‘static void boost::python::indexing_suite::base_delete_item(Container&, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; bool NoProxy = false; bool NoSlice = false; Data = long long unsigned int; Index = unsigned int; Key = long long unsigned int]’ at /usr/include/boost/python/suite/indexing/indexing_suite.hpp:256:49: /usr/include/c++/13/bits/stl_vector.h:1563:24: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1563 | return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg)); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const long long unsigned int&}; _Tp = long long unsigned int; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_vector.h: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = long long unsigned int; _Alloc = std::allocator]’: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘void boost::python::container_utils::extend_container(Container&, boost::python::api::object) [with Container = std::vector]’ at /usr/include/boost/python/suite/indexing/container_utils.hpp:36:36: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘void boost::python::container_utils::extend_container(Container&, boost::python::api::object) [with Container = std::vector]’ at /usr/include/boost/python/suite/indexing/container_utils.hpp:44:40: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, _InputIterator, _InputIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; = void; _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::extend(Container&, Iter, Iter) [with Iter = __gnu_cxx::__normal_iterator >; Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:200:29, inlined from ‘static void boost::python::vector_indexing_suite::base_extend(Container&, boost::python::api::object) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:236:36: /usr/include/c++/13/bits/stl_vector.h:1483:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1483 | _M_range_insert(begin() + __offset, __first, __last, | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1484 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_vector.h:1483:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, _InputIterator, _InputIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; = void; _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::extend(Container&, Iter, Iter) [with Iter = __gnu_cxx::__normal_iterator >; Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:200:29, inlined from ‘static void boost::python::vector_indexing_suite::base_extend(Container&, boost::python::api::object) [with Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:236:36: /usr/include/c++/13/bits/stl_vector.h:1483:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1483 | _M_range_insert(begin() + __offset, __first, __last, | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1484 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_vector.h:1483:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::append(Container&, const data_type&) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:193:32, inlined from ‘static void boost::python::vector_indexing_suite::base_append(Container&, boost::python::api::object) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:212:40: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::append(Container&, const data_type&) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:193:32, inlined from ‘static void boost::python::vector_indexing_suite::base_append(Container&, boost::python::api::object) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:220:44: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::append(Container&, const data_type&) [with Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:193:32, inlined from ‘static void boost::python::vector_indexing_suite::base_append(Container&, boost::python::api::object) [with Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:212:40: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::append(Container&, const data_type&) [with Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:193:32, inlined from ‘static void boost::python::vector_indexing_suite::base_append(Container&, boost::python::api::object) [with Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:220:44: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator, const_iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, const data_type&) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:102:32, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, const data_type&) [with Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:95:9, inlined from ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, false>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, false> >, unsigned int>; Data = long long unsigned int; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:639:43: /usr/include/c++/13/bits/stl_vector.h:1563:24: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1563 | return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg)); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, const value_type&) [with _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, const data_type&) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:103:33, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, const data_type&) [with Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:95:9, inlined from ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, false>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, false> >, unsigned int>; Data = long long unsigned int; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:639:43: /usr/include/c++/13/bits/vector.tcc:170:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 170 | _M_realloc_insert(begin() + (__position - cbegin()), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator, const_iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, const data_type&) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:102:32, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, const data_type&) [with Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:95:9, inlined from ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, false>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, false> >, unsigned int>; Data = long long unsigned int; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:648:47: /usr/include/c++/13/bits/stl_vector.h:1563:24: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1563 | return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg)); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, const value_type&) [with _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, const data_type&) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:103:33, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, const data_type&) [with Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:95:9, inlined from ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, false>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, false> >, unsigned int>; Data = long long unsigned int; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:648:47: /usr/include/c++/13/bits/vector.tcc:170:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 170 | _M_realloc_insert(begin() + (__position - cbegin()), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, false>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, false> >, unsigned int>; Data = long long unsigned int; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:664:43: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, _InputIterator, _InputIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; = void; _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, Iter, Iter) [with Iter = __gnu_cxx::__normal_iterator >; Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:113:33, inlined from ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, false>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, false> >, unsigned int>; Data = long long unsigned int; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:685:47: /usr/include/c++/13/bits/stl_vector.h:1483:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1483 | _M_range_insert(begin() + __offset, __first, __last, | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1484 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_vector.h:1483:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator, const_iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, Iter, Iter) [with Iter = __gnu_cxx::__normal_iterator >; Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:116:32, inlined from ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, false>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, false> >, unsigned int>; Data = long long unsigned int; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:685:47: /usr/include/c++/13/bits/stl_vector.h:1563:24: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1563 | return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg)); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, _InputIterator, _InputIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; = void; _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, Iter, Iter) [with Iter = __gnu_cxx::__normal_iterator >; Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:117:33, inlined from ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, false>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, false> >, unsigned int>; Data = long long unsigned int; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:685:47: /usr/include/c++/13/bits/stl_vector.h:1483:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1483 | _M_range_insert(begin() + __offset, __first, __last, | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1484 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_vector.h:1483:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator, const_iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, const data_type&) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:102:32, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, const data_type&) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:95:9, inlined from ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, true>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, true> >, unsigned int>; Data = long long unsigned int; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:639:43: /usr/include/c++/13/bits/stl_vector.h:1563:24: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1563 | return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg)); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, const value_type&) [with _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, const data_type&) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:103:33, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, const data_type&) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:95:9, inlined from ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, true>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, true> >, unsigned int>; Data = long long unsigned int; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:639:43: /usr/include/c++/13/bits/vector.tcc:170:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 170 | _M_realloc_insert(begin() + (__position - cbegin()), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator, const_iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, const data_type&) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:102:32, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, const data_type&) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:95:9, inlined from ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, true>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, true> >, unsigned int>; Data = long long unsigned int; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:648:47: /usr/include/c++/13/bits/stl_vector.h:1563:24: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1563 | return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg)); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, const value_type&) [with _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, const data_type&) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:103:33, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, const data_type&) [with Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:95:9, inlined from ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, true>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, true> >, unsigned int>; Data = long long unsigned int; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:648:47: /usr/include/c++/13/bits/vector.tcc:170:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 170 | _M_realloc_insert(begin() + (__position - cbegin()), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, true>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, true> >, unsigned int>; Data = long long unsigned int; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:664:43: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, _InputIterator, _InputIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; = void; _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, Iter, Iter) [with Iter = __gnu_cxx::__normal_iterator >; Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:113:33, inlined from ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, true>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, true> >, unsigned int>; Data = long long unsigned int; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:685:47: /usr/include/c++/13/bits/stl_vector.h:1483:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1483 | _M_range_insert(begin() + __offset, __first, __last, | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1484 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_vector.h:1483:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator, const_iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, Iter, Iter) [with Iter = __gnu_cxx::__normal_iterator >; Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:116:32, inlined from ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, true>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, true> >, unsigned int>; Data = long long unsigned int; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:685:47: /usr/include/c++/13/bits/stl_vector.h:1563:24: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1563 | return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg)); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, _InputIterator, _InputIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; = void; _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘static void boost::python::vector_indexing_suite::set_slice(Container&, index_type, index_type, Iter, Iter) [with Iter = __gnu_cxx::__normal_iterator >; Container = std::vector; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>]’ at /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:117:33, inlined from ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, true>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, true>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, true> >, unsigned int>; Data = long long unsigned int; Index = unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:685:47: /usr/include/c++/13/bits/stl_vector.h:1483:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1483 | _M_range_insert(begin() + __offset, __first, __last, | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1484 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_vector.h:1483:26: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 [ 89%] Linking CXX executable rxnTestCatch cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_link_script CMakeFiles/rxnTestCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/rxnTestCatch.dir/catch_tests.cpp.o -o rxnTestCatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitChemReactions.so.1.2023.09.3 /usr/lib/libCatch2.a ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 89%] Built target rxnTestCatch make -f Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 89%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/MolStandardize.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/MolStandardize.cpp.o -MF CMakeFiles/MolStandardize.dir/MolStandardize.cpp.o.d -o CMakeFiles/MolStandardize.dir/MolStandardize.cpp.o -c /<>/Code/GraphMol/MolStandardize/MolStandardize.cpp [ 89%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextFT.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/freetype2 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextFT.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawTextFT.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawTextFT.cpp.o -c /<>/Code/GraphMol/MolDraw2D/DrawTextFT.cpp [ 89%] Building CXX object Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/rdChemReactions.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdChemReactions_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/rdChemReactions.cpp.o -MF CMakeFiles/rdChemReactions.dir/rdChemReactions.cpp.o.d -o CMakeFiles/rdChemReactions.dir/rdChemReactions.cpp.o -c /<>/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/GraphMol/MolDraw2D/MolDraw2D.h:28, from /<>/Code/GraphMol/MolDraw2D/DrawTextFT.cpp:17: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘virtual void RDKit::MolDraw2D_detail::DrawTextFT::getStringRects(const std::string&, std::vector >&, std::vector&, std::vector&) const’ at /<>/Code/GraphMol/MolDraw2D/DrawTextFT.cpp:178:21: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 89%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextFTSVG.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/freetype2 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextFTSVG.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawTextFTSVG.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawTextFTSVG.cpp.o -c /<>/Code/GraphMol/MolDraw2D/DrawTextFTSVG.cpp [ 89%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Metal.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Metal.cpp.o -MF CMakeFiles/MolStandardize.dir/Metal.cpp.o.d -o CMakeFiles/MolStandardize.dir/Metal.cpp.o -c /<>/Code/GraphMol/MolStandardize/Metal.cpp [ 89%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextFTJS.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/freetype2 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextFTJS.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawTextFTJS.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawTextFTJS.cpp.o -c /<>/Code/GraphMol/MolDraw2D/DrawTextFTJS.cpp [ 89%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextFTCairo.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/freetype2 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextFTCairo.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawTextFTCairo.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawTextFTCairo.cpp.o -c /<>/Code/GraphMol/MolDraw2D/DrawTextFTCairo.cpp [ 89%] Linking CXX shared library ../../../lib/libRDKitMolDraw2D.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolDraw2D.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection 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CMakeFiles/MolDraw2D.dir/DrawTextNotFT.cpp.o CMakeFiles/MolDraw2D.dir/DrawTextSVG.cpp.o CMakeFiles/MolDraw2D.dir/MolDraw2DJS.cpp.o CMakeFiles/MolDraw2D.dir/DrawTextJS.cpp.o CMakeFiles/MolDraw2D.dir/MolDraw2DCairo.cpp.o CMakeFiles/MolDraw2D.dir/DrawTextCairo.cpp.o CMakeFiles/MolDraw2D.dir/DrawTextFT.cpp.o CMakeFiles/MolDraw2D.dir/DrawTextFTSVG.cpp.o CMakeFiles/MolDraw2D.dir/DrawTextFTJS.cpp.o CMakeFiles/MolDraw2D.dir/DrawTextFTCairo.cpp.o ../../../lib/libRDKitChemReactions.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libfreetype.so ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libcairo.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolDraw2D.so.1.2023.09.3 ../../../lib/libRDKitMolDraw2D.so.1 ../../../lib/libRDKitMolDraw2D.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 89%] Built target MolDraw2D make -f Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/build.make Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Deprotect /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Deprotect /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/build.make Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 89%] Building CXX object Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/deprotectTest.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Deprotect && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DEPROTECT_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/deprotectTest.cpp.o -MF CMakeFiles/deprotectTest.dir/deprotectTest.cpp.o.d -o CMakeFiles/deprotectTest.dir/deprotectTest.cpp.o -c /<>/Code/GraphMol/Deprotect/deprotectTest.cpp [ 89%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Normalize.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Normalize.cpp.o -MF CMakeFiles/MolStandardize.dir/Normalize.cpp.o.d -o CMakeFiles/MolStandardize.dir/Normalize.cpp.o -c /<>/Code/GraphMol/MolStandardize/Normalize.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/Geometry/point.h:16, from /<>/Code/GraphMol/MolPickler.h:14, from /<>/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:34: /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(iterator) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:181:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 181 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ [ 89%] Linking CXX executable testReaction cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_link_script CMakeFiles/testReaction.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testReaction.dir/testReaction.cpp.o -o testReaction ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 89%] Built target testReaction make -f Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/build.make Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Deprotect/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Deprotect/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/build.make Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 89%] Building CXX object Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/rdDeprotect.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Deprotect/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DEPROTECT_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdDeprotect_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/rdDeprotect.cpp.o -MF CMakeFiles/rdDeprotect.dir/rdDeprotect.cpp.o.d -o CMakeFiles/rdDeprotect.dir/rdDeprotect.cpp.o -c /<>/Code/GraphMol/Deprotect/Wrap/rdDeprotect.cpp /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 89%] Linking CXX executable deprotectTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Deprotect && /usr/bin/cmake -E cmake_link_script CMakeFiles/deprotectTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/deprotectTest.dir/deprotectTest.cpp.o -o deprotectTest ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitDeprotect.so.1.2023.09.3 /usr/lib/libCatch2.a ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 89%] Built target deprotectTest make -f Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 89%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/rdchem.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/rdchem.cpp.o -MF CMakeFiles/rdchem.dir/rdchem.cpp.o.d -o CMakeFiles/rdchem.dir/rdchem.cpp.o -c /<>/Code/GraphMol/Wrap/rdchem.cpp [ 89%] Building CXX object Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/DeprotectWrap.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Deprotect/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DEPROTECT_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdDeprotect_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/DeprotectWrap.cpp.o -MF CMakeFiles/rdDeprotect.dir/DeprotectWrap.cpp.o.d -o CMakeFiles/rdDeprotect.dir/DeprotectWrap.cpp.o -c /<>/Code/GraphMol/Deprotect/Wrap/DeprotectWrap.cpp [ 89%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Validate.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Validate.cpp.o -MF CMakeFiles/MolStandardize.dir/Validate.cpp.o.d -o CMakeFiles/MolStandardize.dir/Validate.cpp.o -c /<>/Code/GraphMol/MolStandardize/Validate.cpp In file included from /usr/include/c++/13/vector:66: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void RDKit::Dict::clearVal(const std::string&)’ at /<>/Code/RDGeneral/Dict.h:320:20, inlined from ‘void RDKit::RDProps::clearComputedProps() const’ at /<>/Code/RDGeneral/RDProps.h:153:25, inlined from ‘void RDKit::MolClearComputedProps(const RDOb&) [with RDOb = ChemicalReaction]’ at /<>/Code/GraphMol/Wrap/props.hpp:300:25: /usr/include/c++/13/bits/stl_vector.h:1532:24: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1532 | { return _M_erase(begin() + (__position - cbegin())); } | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void RDKit::Dict::clearVal(const std::string&)’ at /<>/Code/RDGeneral/Dict.h:320:20, inlined from ‘void RDKit::RDProps::clearProp(const std::string&) const’ at /<>/Code/RDGeneral/RDProps.h:145:21, inlined from ‘void RDKit::MolClearProp(const RDOb&, const char*) [with RDOb = ChemicalReaction]’ at /<>/Code/GraphMol/Wrap/props.hpp:295:16: /usr/include/c++/13/bits/stl_vector.h:1532:24: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1532 | { return _M_erase(begin() + (__position - cbegin())); } | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 89%] Linking CXX shared module ../../../../rdkit/Chem/rdChemReactions.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdChemReactions.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdChemReactions.so CMakeFiles/rdChemReactions.dir/Enumerate.cpp.o CMakeFiles/rdChemReactions.dir/rdChemReactions.cpp.o ../../../../lib/libRDKitMarvinParser.so.1.2023.09.3 ../../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl [ 90%] Linking CXX shared module ../../../../rdkit/Chem/rdDeprotect.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Deprotect/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdDeprotect.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdDeprotect.so CMakeFiles/rdDeprotect.dir/rdDeprotect.cpp.o CMakeFiles/rdDeprotect.dir/DeprotectWrap.cpp.o ../../../../lib/libRDKitDeprotect.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 90%] Built target rdDeprotect [ 90%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Charge.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Charge.cpp.o -MF CMakeFiles/MolStandardize.dir/Charge.cpp.o.d -o CMakeFiles/MolStandardize.dir/Charge.cpp.o -c /<>/Code/GraphMol/MolStandardize/Charge.cpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 90%] Built target rdChemReactions make -f Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 90%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/rdmolfiles.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/rdmolfiles.cpp.o -MF CMakeFiles/rdmolfiles.dir/rdmolfiles.cpp.o.d -o CMakeFiles/rdmolfiles.dir/rdmolfiles.cpp.o -c /<>/Code/GraphMol/Wrap/rdmolfiles.cpp [ 90%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Tautomer.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Tautomer.cpp.o -MF CMakeFiles/MolStandardize.dir/Tautomer.cpp.o.d -o CMakeFiles/MolStandardize.dir/Tautomer.cpp.o -c /<>/Code/GraphMol/MolStandardize/Tautomer.cpp [ 91%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Table.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Table.cpp.o -MF CMakeFiles/rdchem.dir/Table.cpp.o.d -o CMakeFiles/rdchem.dir/Table.cpp.o -c /<>/Code/GraphMol/Wrap/Table.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/c++/13/functional:64, from /usr/include/boost/function.hpp:23, from /<>/Code/GraphMol/MolStandardize/Tautomer.h:14, from /<>/Code/GraphMol/MolStandardize/Tautomer.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 91%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Fragment.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Fragment.cpp.o -MF CMakeFiles/MolStandardize.dir/Fragment.cpp.o.d -o CMakeFiles/MolStandardize.dir/Fragment.cpp.o -c /<>/Code/GraphMol/MolStandardize/Fragment.cpp [ 92%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogEntry.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogEntry.cpp.o -MF CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogEntry.cpp.o.d -o CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogEntry.cpp.o -c /<>/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogEntry.cpp In file included from /usr/include/c++/13/vector:65, from /usr/include/c++/13/functional:64, from /usr/include/boost/config/no_tr1/functional.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:15, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/GraphMol/Wrap/Table.cpp:13: /usr/include/c++/13/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::atomicData*]’: /usr/include/c++/13/bits/stl_uninitialized.h:113:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 113 | __do_uninit_copy(_InputIterator __first, _InputIterator __last, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_uninitialized.h:113:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In static member function ‘static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::atomicData*; bool _TrivialValueTypes = false]’, inlined from ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::atomicData*]’ at /usr/include/c++/13/bits/stl_uninitialized.h:185:15, inlined from ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::atomicData*; _Tp = RDKit::atomicData]’ at /usr/include/c++/13/bits/stl_uninitialized.h:373:37, inlined from ‘std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = RDKit::atomicData; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:603:31, inlined from ‘RDKit::PeriodicTable::PeriodicTable(const RDKit::PeriodicTable&)’ at /<>/Code/GraphMol/PeriodicTable.h:32:29, inlined from ‘boost::python::objects::value_holder::value_holder(PyObject*, A0) [with A0 = boost::reference_wrapper; Value = RDKit::PeriodicTable]’ at /usr/include/boost/python/object/value_holder.hpp:131:11, inlined from ‘static Holder* boost::python::objects::make_instance::construct(void*, PyObject*, boost::reference_wrapper) [with T = RDKit::PeriodicTable; Holder = boost::python::objects::value_holder]’ at /usr/include/boost/python/object/make_instance.hpp:78:16: /usr/include/c++/13/bits/stl_uninitialized.h:137:39: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 137 | { return std::__do_uninit_copy(__first, __last, __result); } | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 92%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Atom.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Atom.cpp.o -MF CMakeFiles/rdchem.dir/Atom.cpp.o.d -o CMakeFiles/rdchem.dir/Atom.cpp.o -c /<>/Code/GraphMol/Wrap/Atom.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/c++/13/functional:64, from /usr/include/boost/config/no_tr1/functional.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:15, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/GraphMol/Wrap/rdmolfiles.cpp:13: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::__cxx11::basic_string]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 92%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogParams.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogParams.cpp.o -MF CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogParams.cpp.o.d -o CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogParams.cpp.o -c /<>/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogParams.cpp [ 92%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogUtils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogUtils.cpp.o -MF CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogUtils.cpp.o.d -o CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogUtils.cpp.o -c /<>/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogUtils.cpp [ 92%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogEntry.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogEntry.cpp.o -MF CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogEntry.cpp.o.d -o CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogEntry.cpp.o -c /<>/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogEntry.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogUtils.h:14, from /<>/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogUtils.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::__cxx11::basic_string]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 92%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogParams.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogParams.cpp.o -MF CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogParams.cpp.o.d -o CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogParams.cpp.o -c /<>/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogParams.cpp [ 92%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/ForwardSDMolSupplier.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/ForwardSDMolSupplier.cpp.o -MF CMakeFiles/rdmolfiles.dir/ForwardSDMolSupplier.cpp.o.d -o CMakeFiles/rdmolfiles.dir/ForwardSDMolSupplier.cpp.o -c /<>/Code/GraphMol/Wrap/ForwardSDMolSupplier.cpp [ 92%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogUtils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogUtils.cpp.o -MF CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogUtils.cpp.o.d -o CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogUtils.cpp.o -c /<>/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogUtils.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/c++/13/functional:64, from /usr/include/boost/config/no_tr1/functional.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:15, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/GraphMol/Wrap/Atom.cpp:12: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 92%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogEntry.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogEntry.cpp.o -MF CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogEntry.cpp.o.d -o CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogEntry.cpp.o -c /<>/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogEntry.cpp [ 92%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Bond.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Bond.cpp.o -MF CMakeFiles/rdchem.dir/Bond.cpp.o.d -o CMakeFiles/rdchem.dir/Bond.cpp.o -c /<>/Code/GraphMol/Wrap/Bond.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogUtils.h:14, from /<>/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogUtils.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::__cxx11::basic_string]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 92%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogParams.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogParams.cpp.o -MF CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogParams.cpp.o.d -o CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogParams.cpp.o -c /<>/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogParams.cpp In file included from /<>/Code/GraphMol/Wrap/ForwardSDMolSupplier.cpp:22: /<>/Code/RDBoost/python_streambuf.h: In constructor ‘boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)’: /<>/Code/RDBoost/python_streambuf.h:185:56: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 185 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:185:56: note: ‘’ declared here 185 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:155:58: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 155 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:155:58: note: ‘’ declared here 155 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h: In member function ‘virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(off_type, std::ios_base::seekdir, std::ios_base::openmode)’: /<>/Code/RDBoost/python_streambuf.h:420:16: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 420 | result = off_type(bp::extract(py_tell())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/Code/RDBoost/python_streambuf.h:420:56: note: ‘’ declared here 420 | result = off_type(bp::extract(py_tell())); | ^ [ 93%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/MaeMolSupplier.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/MaeMolSupplier.cpp.o -MF CMakeFiles/rdmolfiles.dir/MaeMolSupplier.cpp.o.d -o CMakeFiles/rdmolfiles.dir/MaeMolSupplier.cpp.o -c /<>/Code/GraphMol/Wrap/MaeMolSupplier.cpp [ 93%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogUtils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogUtils.cpp.o -MF CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogUtils.cpp.o.d -o CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogUtils.cpp.o -c /<>/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogUtils.cpp [ 94%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogEntry.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogEntry.cpp.o -MF CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogEntry.cpp.o.d -o CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogEntry.cpp.o -c /<>/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogEntry.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogUtils.h:14, from /<>/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogUtils.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::__cxx11::basic_string]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 94%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogParams.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogParams.cpp.o -MF CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogParams.cpp.o.d -o CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogParams.cpp.o -c /<>/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogParams.cpp In file included from /<>/Code/GraphMol/Wrap/MaeMolSupplier.cpp:23: /<>/Code/RDBoost/python_streambuf.h: In member function ‘virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(off_type, std::ios_base::seekdir, std::ios_base::openmode)’: /<>/Code/RDBoost/python_streambuf.h:420:16: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 420 | result = off_type(bp::extract(py_tell())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/Code/RDBoost/python_streambuf.h:420:56: note: ‘’ declared here 420 | result = off_type(bp::extract(py_tell())); | ^ /<>/Code/RDBoost/python_streambuf.h: In constructor ‘boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)’: /<>/Code/RDBoost/python_streambuf.h:185:56: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 185 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:185:56: note: ‘’ declared here 185 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:155:58: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 155 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:155:58: note: ‘’ declared here 155 | off_type py_pos = bp::extract(py_tell()); | ^ In file included from /usr/include/c++/13/vector:72, from /usr/include/c++/13/functional:64, from /usr/include/boost/config/no_tr1/functional.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:15, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/GraphMol/Wrap/Bond.cpp:12: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 94%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogUtils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogUtils.cpp.o -MF CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogUtils.cpp.o.d -o CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogUtils.cpp.o -c /<>/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogUtils.cpp [ 94%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/MaeWriter.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/MaeWriter.cpp.o -MF CMakeFiles/rdmolfiles.dir/MaeWriter.cpp.o.d -o CMakeFiles/rdmolfiles.dir/MaeWriter.cpp.o -c /<>/Code/GraphMol/Wrap/MaeWriter.cpp [ 94%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Mol.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Mol.cpp.o -MF CMakeFiles/rdchem.dir/Mol.cpp.o.d -o CMakeFiles/rdchem.dir/Mol.cpp.o -c /<>/Code/GraphMol/Wrap/Mol.cpp [ 94%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Conformer.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Conformer.cpp.o -MF CMakeFiles/rdchem.dir/Conformer.cpp.o.d -o CMakeFiles/rdchem.dir/Conformer.cpp.o -c /<>/Code/GraphMol/Wrap/Conformer.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogUtils.h:14, from /<>/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogUtils.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::__cxx11::basic_string]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 94%] Linking CXX shared library ../../../lib/libRDKitMolStandardize.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolStandardize.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMolStandardize.so.1 -o ../../../lib/libRDKitMolStandardize.so.1.2023.09.3 CMakeFiles/MolStandardize.dir/MolStandardize.cpp.o CMakeFiles/MolStandardize.dir/Metal.cpp.o CMakeFiles/MolStandardize.dir/Normalize.cpp.o CMakeFiles/MolStandardize.dir/Validate.cpp.o CMakeFiles/MolStandardize.dir/Charge.cpp.o CMakeFiles/MolStandardize.dir/Tautomer.cpp.o CMakeFiles/MolStandardize.dir/Fragment.cpp.o CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogEntry.cpp.o CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogParams.cpp.o CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogUtils.cpp.o CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogEntry.cpp.o CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogParams.cpp.o CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogUtils.cpp.o CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogEntry.cpp.o CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogParams.cpp.o CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogUtils.cpp.o CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogEntry.cpp.o CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogParams.cpp.o CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogUtils.cpp.o ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolStandardize.so.1.2023.09.3 ../../../lib/libRDKitMolStandardize.so.1 ../../../lib/libRDKitMolStandardize.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 94%] Built target MolStandardize make -f Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolEnumerator /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolEnumerator /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 94%] Building CXX object Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/enumerator_catch.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolEnumerator && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/enumerator_catch.cpp.o -MF CMakeFiles/testMolEnumerator.dir/enumerator_catch.cpp.o.d -o CMakeFiles/testMolEnumerator.dir/enumerator_catch.cpp.o -c /<>/Code/GraphMol/MolEnumerator/enumerator_catch.cpp In file included from /<>/Code/GraphMol/Wrap/MaeWriter.cpp:21: /<>/Code/RDBoost/python_streambuf.h: In member function ‘virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(off_type, std::ios_base::seekdir, std::ios_base::openmode)’: /<>/Code/RDBoost/python_streambuf.h:420:16: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 420 | result = off_type(bp::extract(py_tell())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/Code/RDBoost/python_streambuf.h:420:56: note: ‘’ declared here 420 | result = off_type(bp::extract(py_tell())); | ^ /<>/Code/RDBoost/python_streambuf.h: In constructor ‘boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)’: /<>/Code/RDBoost/python_streambuf.h:185:56: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 185 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:185:56: note: ‘’ declared here 185 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:155:58: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 155 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:155:58: note: ‘’ declared here 155 | off_type py_pos = bp::extract(py_tell()); | ^ [ 94%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SDMolSupplier.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SDMolSupplier.cpp.o -MF CMakeFiles/rdmolfiles.dir/SDMolSupplier.cpp.o.d -o CMakeFiles/rdmolfiles.dir/SDMolSupplier.cpp.o -c /<>/Code/GraphMol/Wrap/SDMolSupplier.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/c++/13/functional:64, from /usr/include/boost/config/no_tr1/functional.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:15, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/GraphMol/Wrap/Conformer.cpp:12: /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(iterator) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:181:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 181 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25, inlined from ‘boost::python::objects::pointer_holder::pointer_holder(PyObject*, A0) [with A0 = unsigned int; Pointer = boost::shared_ptr; Value = RDKit::Conformer]’ at /usr/include/boost/python/object/pointer_holder.hpp:195:15, inlined from ‘static void boost::python::objects::make_holder<1>::apply::execute(PyObject*, t0) [with Holder = boost::python::objects::pointer_holder, RDKit::Conformer>; ArgList = boost::mpl::vector1]’ at /usr/include/boost/python/object/make_holder.hpp:95:18: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/Code/GraphMol/Wrap/Conformer.cpp:21: /<>/Code/RDBoost/PySequenceHolder.h: In member function ‘T PySequenceHolder::operator[](unsigned int) const [with T = double]’: /<>/Code/RDBoost/PySequenceHolder.h:68:9: warning: ‘*(const double*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 68 | T res = python::extract(d_seq[which]); | ^~~ /<>/Code/RDBoost/PySequenceHolder.h:68:23: note: ‘’ declared here 68 | T res = python::extract(d_seq[which]); | ^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void RDKit::Dict::clearVal(const std::string&)’ at /<>/Code/RDGeneral/Dict.h:320:20, inlined from ‘void RDKit::RDProps::clearComputedProps() const’ at /<>/Code/RDGeneral/RDProps.h:153:25, inlined from ‘void RDKit::MolClearComputedProps(const RDOb&) [with RDOb = Conformer]’ at /<>/Code/GraphMol/Wrap/props.hpp:300:25: /usr/include/c++/13/bits/stl_vector.h:1532:24: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1532 | { return _M_erase(begin() + (__position - cbegin())); } | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void RDKit::Dict::clearVal(const std::string&)’ at /<>/Code/RDGeneral/Dict.h:320:20, inlined from ‘void RDKit::RDProps::clearProp(const std::string&) const’ at /<>/Code/RDGeneral/RDProps.h:145:21, inlined from ‘void RDKit::MolClearProp(const RDOb&, const char*) [with RDOb = Conformer]’ at /<>/Code/GraphMol/Wrap/props.hpp:295:16: /usr/include/c++/13/bits/stl_vector.h:1532:24: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1532 | { return _M_erase(begin() + (__position - cbegin())); } | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /usr/include/c++/13/functional:64, from /usr/include/boost/config/no_tr1/functional.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:15, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/GraphMol/Wrap/SDMolSupplier.cpp:12: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {std::fpos<__mbstate_t>}; _Tp = std::fpos<__mbstate_t>; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::fpos<__mbstate_t>}; _Tp = std::fpos<__mbstate_t>; _Alloc = std::allocator >]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = std::fpos<__mbstate_t>; _Alloc = std::allocator >]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::setStreamIndices(SDMolSupplier&, boost::python::api::object)’ at /<>/Code/GraphMol/Wrap/SDMolSupplier.cpp:35:18: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 94%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/TDTMolSupplier.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/TDTMolSupplier.cpp.o -MF CMakeFiles/rdmolfiles.dir/TDTMolSupplier.cpp.o.d -o CMakeFiles/rdmolfiles.dir/TDTMolSupplier.cpp.o -c /<>/Code/GraphMol/Wrap/TDTMolSupplier.cpp [ 94%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/RingInfo.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/RingInfo.cpp.o -MF CMakeFiles/rdchem.dir/RingInfo.cpp.o.d -o CMakeFiles/rdchem.dir/RingInfo.cpp.o -c /<>/Code/GraphMol/Wrap/RingInfo.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/boost/format.hpp:17, from /<>/Code/GraphMol/MolEnumerator/enumerator_catch.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setPODVal(const std::string&, T) [with T = int]’ at /<>/Code/RDGeneral/Dict.h:285:20, inlined from ‘void RDKit::Dict::setVal(const std::string&, int)’ at /<>/Code/RDGeneral/Dict.h:294:60, inlined from ‘void RDKit::RDProps::setProp(const std::string&, T, bool) const [with T = int]’ at /<>/Code/RDGeneral/RDProps.h:86:19, inlined from ‘void CATCH2_INTERNAL_TEST_69()’ at /<>/Code/GraphMol/MolEnumerator/enumerator_catch.cpp:1659:34: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /usr/include/c++/13/functional:64, from /usr/include/boost/config/no_tr1/functional.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:15, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/GraphMol/Wrap/Mol.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 94%] Linking CXX executable testMolEnumerator cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolEnumerator && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolEnumerator.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testMolEnumerator.dir/enumerator_catch.cpp.o -o testMolEnumerator ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitMolEnumerator.so.1.2023.09.3 /usr/lib/libCatch2.a ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 94%] Built target testMolEnumerator make -f Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolEnumerator/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolEnumerator/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 94%] Building CXX object Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/rdMolEnumerator.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolEnumerator/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolEnumerator_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/rdMolEnumerator.cpp.o -MF CMakeFiles/rdMolEnumerator.dir/rdMolEnumerator.cpp.o.d -o CMakeFiles/rdMolEnumerator.dir/rdMolEnumerator.cpp.o -c /<>/Code/GraphMol/MolEnumerator/Wrap/rdMolEnumerator.cpp [ 94%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/EditableMol.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/EditableMol.cpp.o -MF CMakeFiles/rdchem.dir/EditableMol.cpp.o.d -o CMakeFiles/rdchem.dir/EditableMol.cpp.o -c /<>/Code/GraphMol/Wrap/EditableMol.cpp [ 94%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SmilesMolSupplier.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SmilesMolSupplier.cpp.o -MF CMakeFiles/rdmolfiles.dir/SmilesMolSupplier.cpp.o.d -o CMakeFiles/rdmolfiles.dir/SmilesMolSupplier.cpp.o -c /<>/Code/GraphMol/Wrap/SmilesMolSupplier.cpp [ 94%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/MonomerInfo.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/MonomerInfo.cpp.o -MF CMakeFiles/rdchem.dir/MonomerInfo.cpp.o.d -o CMakeFiles/rdchem.dir/MonomerInfo.cpp.o -c /<>/Code/GraphMol/Wrap/MonomerInfo.cpp [ 94%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/ResonanceMolSupplier.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/ResonanceMolSupplier.cpp.o -MF CMakeFiles/rdchem.dir/ResonanceMolSupplier.cpp.o.d -o CMakeFiles/rdchem.dir/ResonanceMolSupplier.cpp.o -c /<>/Code/GraphMol/Wrap/ResonanceMolSupplier.cpp [ 94%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SmilesWriter.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SmilesWriter.cpp.o -MF CMakeFiles/rdmolfiles.dir/SmilesWriter.cpp.o.d -o CMakeFiles/rdmolfiles.dir/SmilesWriter.cpp.o -c /<>/Code/GraphMol/Wrap/SmilesWriter.cpp [ 94%] Linking CXX shared module ../../../../rdkit/Chem/rdMolEnumerator.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolEnumerator/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolEnumerator.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolEnumerator.so CMakeFiles/rdMolEnumerator.dir/rdMolEnumerator.cpp.o ../../../../lib/libRDKitMolEnumerator.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 94%] Built target rdMolEnumerator make -f Code/GraphMol/MarvinParse/CMakeFiles/testMrvToMol.dir/build.make Code/GraphMol/MarvinParse/CMakeFiles/testMrvToMol.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MarvinParse /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MarvinParse /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MarvinParse/CMakeFiles/testMrvToMol.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MarvinParse/CMakeFiles/testMrvToMol.dir/build.make Code/GraphMol/MarvinParse/CMakeFiles/testMrvToMol.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 94%] Building CXX object Code/GraphMol/MarvinParse/CMakeFiles/testMrvToMol.dir/testMrvToMol.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MarvinParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/MarvinParse/CMakeFiles/testMrvToMol.dir/testMrvToMol.cpp.o -MF CMakeFiles/testMrvToMol.dir/testMrvToMol.cpp.o.d -o CMakeFiles/testMrvToMol.dir/testMrvToMol.cpp.o -c /<>/Code/GraphMol/MarvinParse/testMrvToMol.cpp [ 95%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/MolBundle.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/MolBundle.cpp.o -MF CMakeFiles/rdchem.dir/MolBundle.cpp.o.d -o CMakeFiles/rdchem.dir/MolBundle.cpp.o -c /<>/Code/GraphMol/Wrap/MolBundle.cpp In file included from /<>/Code/GraphMol/Wrap/SmilesWriter.cpp:20: /<>/Code/RDBoost/python_streambuf.h: In constructor ‘boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)’: /<>/Code/RDBoost/python_streambuf.h:185:56: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 185 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:185:56: note: ‘’ declared here 185 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:155:58: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 155 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:155:58: note: ‘’ declared here 155 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h: In member function ‘virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(off_type, std::ios_base::seekdir, std::ios_base::openmode)’: /<>/Code/RDBoost/python_streambuf.h:420:16: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 420 | result = off_type(bp::extract(py_tell())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/Code/RDBoost/python_streambuf.h:420:56: note: ‘’ declared here 420 | result = off_type(bp::extract(py_tell())); | ^ [ 95%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/StereoGroup.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/StereoGroup.cpp.o -MF CMakeFiles/rdchem.dir/StereoGroup.cpp.o.d -o CMakeFiles/rdchem.dir/StereoGroup.cpp.o -c /<>/Code/GraphMol/Wrap/StereoGroup.cpp [ 95%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SDWriter.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SDWriter.cpp.o -MF CMakeFiles/rdmolfiles.dir/SDWriter.cpp.o.d -o CMakeFiles/rdmolfiles.dir/SDWriter.cpp.o -c /<>/Code/GraphMol/Wrap/SDWriter.cpp [ 95%] Linking CXX executable testMrvToMol cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MarvinParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMrvToMol.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testMrvToMol.dir/testMrvToMol.cpp.o -o testMrvToMol ../../../lib/libRDKitMarvinParser.so.1.2023.09.3 ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 95%] Built target testMrvToMol make -f Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/build.make Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/TautomerQuery /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/TautomerQuery /<>/obj-arm-linux-gnueabihf/Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/build.make Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 95%] Building CXX object Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/TautomerQuery.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/TautomerQuery && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_TAUTOMERQUERY_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DTautomerQuery_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/TautomerQuery.cpp.o -MF CMakeFiles/TautomerQuery.dir/TautomerQuery.cpp.o.d -o CMakeFiles/TautomerQuery.dir/TautomerQuery.cpp.o -c /<>/Code/GraphMol/TautomerQuery/TautomerQuery.cpp In file included from /usr/include/boost/python/override.hpp:13, from /usr/include/boost/python/wrapper.hpp:8, from /usr/include/boost/python/object/value_holder.hpp:15, from /usr/include/boost/python/object/class_metadata.hpp:14, from /usr/include/boost/python/class.hpp:23, from /usr/include/boost/python.hpp:18, from /<>/Code/GraphMol/Wrap/StereoGroup.cpp:12: In member function ‘boost::python::converter::extract_rvalue::result_type boost::python::converter::extract_rvalue::operator()() const [with T = unsigned int]’, inlined from ‘ValueT boost::python::stl_input_iterator::dereference() const [with ValueT = unsigned int]’ at /usr/include/boost/python/stl_iterator.hpp:48:60, inlined from ‘static typename Facade::reference boost::iterators::iterator_core_access::dereference(const Facade&) [with Facade = boost::python::stl_input_iterator]’ at /usr/include/boost/iterator/iterator_facade.hpp:631:31, inlined from ‘boost::iterators::detail::iterator_facade_base::reference boost::iterators::detail::iterator_facade_base::operator*() const [with Derived = boost::python::stl_input_iterator; Value = unsigned int; CategoryOrTraversal = std::input_iterator_tag; Reference = unsigned int; Difference = int]’ at /usr/include/boost/iterator/iterator_facade.hpp:737:53, inlined from ‘RDKit::StereoGroup* RDKit::{anonymous}::createStereoGroup(RDKit::StereoGroupType, RDKit::ROMol&, boost::python::api::object, unsigned int)’ at /<>/Code/GraphMol/Wrap/StereoGroup.cpp:35:22: /usr/include/boost/python/extract.hpp:185:11: warning: ‘*(unsigned int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 185 | ); | ^ In file included from /usr/include/boost/python.hpp:66: /usr/include/boost/python/stl_iterator.hpp: In function ‘RDKit::StereoGroup* RDKit::{anonymous}::createStereoGroup(RDKit::StereoGroupType, RDKit::ROMol&, boost::python::api::object, unsigned int)’: /usr/include/boost/python/stl_iterator.hpp:48:16: note: ‘’ declared here 48 | return extract(this->impl_.current().get())(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 95%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/SubstanceGroup.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/SubstanceGroup.cpp.o -MF CMakeFiles/rdchem.dir/SubstanceGroup.cpp.o.d -o CMakeFiles/rdchem.dir/SubstanceGroup.cpp.o -c /<>/Code/GraphMol/Wrap/SubstanceGroup.cpp In file included from /<>/Code/GraphMol/Wrap/SDWriter.cpp:21: /<>/Code/RDBoost/python_streambuf.h: In constructor ‘boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)’: /<>/Code/RDBoost/python_streambuf.h:185:56: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 185 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:185:56: note: ‘’ declared here 185 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:155:58: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 155 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:155:58: note: ‘’ declared here 155 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h: In member function ‘virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(off_type, std::ios_base::seekdir, std::ios_base::openmode)’: /<>/Code/RDBoost/python_streambuf.h:420:16: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 420 | result = off_type(bp::extract(py_tell())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/Code/RDBoost/python_streambuf.h:420:56: note: ‘’ declared here 420 | result = off_type(bp::extract(py_tell())); | ^ [ 95%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/TDTWriter.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/TDTWriter.cpp.o -MF CMakeFiles/rdmolfiles.dir/TDTWriter.cpp.o.d -o CMakeFiles/rdmolfiles.dir/TDTWriter.cpp.o -c /<>/Code/GraphMol/Wrap/TDTWriter.cpp [ 95%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Chirality.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Chirality.cpp.o -MF CMakeFiles/rdchem.dir/Chirality.cpp.o.d -o CMakeFiles/rdchem.dir/Chirality.cpp.o -c /<>/Code/GraphMol/Wrap/Chirality.cpp [ 95%] Linking CXX shared library ../../../lib/libRDKitTautomerQuery.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/TautomerQuery && /usr/bin/cmake -E cmake_link_script CMakeFiles/TautomerQuery.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitTautomerQuery.so.1 -o ../../../lib/libRDKitTautomerQuery.so.1.2023.09.3 CMakeFiles/TautomerQuery.dir/TautomerQuery.cpp.o ../../../lib/libRDKitMolStandardize.so.1.2023.09.3 ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/TautomerQuery && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitTautomerQuery.so.1.2023.09.3 ../../../lib/libRDKitTautomerQuery.so.1 ../../../lib/libRDKitTautomerQuery.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 95%] Built target TautomerQuery make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolDraw2D /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 96%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/test1.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/freetype2 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/test1.cpp.o -MF CMakeFiles/moldraw2DTest1.dir/test1.cpp.o.d -o CMakeFiles/moldraw2DTest1.dir/test1.cpp.o -c /<>/Code/GraphMol/MolDraw2D/test1.cpp In file included from /usr/include/c++/13/bits/stl_algobase.h:64, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/Code/RDGeneral/types.h:21, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/MolDraw2D/test1.cpp:12: /usr/include/c++/13/bits/stl_pair.h: In instantiation of ‘constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = double&; _T2 = double&; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp>::type = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp2>::type = double]’: /<>/Code/GraphMol/MolDraw2D/test1.cpp:1592:46: required from here /usr/include/c++/13/bits/stl_pair.h:922:5: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 922 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolDraw2D /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 96%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/catch_tests.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/usr/include/freetype2 -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/catch_tests.cpp.o -MF CMakeFiles/moldraw2DTestCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/moldraw2DTestCatch.dir/catch_tests.cpp.o -c /<>/Code/GraphMol/MolDraw2D/catch_tests.cpp In file included from /<>/Code/GraphMol/Wrap/TDTWriter.cpp:21: /<>/Code/RDBoost/python_streambuf.h: In constructor ‘boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)’: /<>/Code/RDBoost/python_streambuf.h:185:56: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 185 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:185:56: note: ‘’ declared here 185 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:155:58: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 155 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:155:58: note: ‘’ declared here 155 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h: In member function ‘virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(off_type, std::ios_base::seekdir, std::ios_base::openmode)’: /<>/Code/RDBoost/python_streambuf.h:420:16: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 420 | result = off_type(bp::extract(py_tell())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/Code/RDBoost/python_streambuf.h:420:56: note: ‘’ declared here 420 | result = off_type(bp::extract(py_tell())); | ^ [ 96%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/PDBWriter.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/PDBWriter.cpp.o -MF CMakeFiles/rdmolfiles.dir/PDBWriter.cpp.o.d -o CMakeFiles/rdmolfiles.dir/PDBWriter.cpp.o -c /<>/Code/GraphMol/Wrap/PDBWriter.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/c++/13/functional:64, from /usr/include/boost/config/no_tr1/functional.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:15, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/GraphMol/Wrap/SubstanceGroup.cpp:12: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/map:62, from /<>/Code/RDGeneral/Dict.h:19, from /<>/Code/RDGeneral/types.h:28: /usr/include/c++/13/bits/stl_tree.h: In function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/stl_tree.h:2458:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 2458 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_tree.h: In function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/stl_tree.h:2458:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 In file included from /usr/include/boost/python/override.hpp:13, from /usr/include/boost/python/wrapper.hpp:8, from /usr/include/boost/python/object/value_holder.hpp:15, from /usr/include/boost/python/object/class_metadata.hpp:14, from /usr/include/boost/python/class.hpp:23, from /usr/include/boost/python.hpp:18: In member function ‘boost::python::converter::extract_rvalue::result_type boost::python::converter::extract_rvalue::operator()() const [with T = unsigned int]’, inlined from ‘boost::python::extract::operator result_type() const [with T = unsigned int]’ at /usr/include/boost/python/extract.hpp:136:23, inlined from ‘void RDKit::{anonymous}::addBracketHelper(RDKit::SubstanceGroup&, boost::python::api::object)’ at /<>/Code/GraphMol/Wrap/SubstanceGroup.cpp:65:29: /usr/include/boost/python/extract.hpp:185:11: warning: ‘*(unsigned int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 185 | ); | ^ /<>/Code/GraphMol/Wrap/SubstanceGroup.cpp: In function ‘void RDKit::{anonymous}::addBracketHelper(RDKit::SubstanceGroup&, boost::python::api::object)’: /<>/Code/GraphMol/Wrap/SubstanceGroup.cpp:65:72: note: ‘’ declared here 65 | unsigned int sz = python::extract(pts.attr("__len__")()); | ^ In file included from /usr/include/c++/13/vector:65: /usr/include/c++/13/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*]’: /usr/include/c++/13/bits/stl_uninitialized.h:113:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 113 | __do_uninit_copy(_InputIterator __first, _InputIterator __last, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_uninitialized.h:113:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In file included from /usr/include/c++/13/map:63: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:69:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:70:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:71:25: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:71:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:72:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:73:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:74:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:75:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:76:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:77:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:78:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:79:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:80:14: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In static member function ‘static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*; bool _TrivialValueTypes = false]’, inlined from ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*]’ at /usr/include/c++/13/bits/stl_uninitialized.h:185:15, inlined from ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*; _Tp = RDKit::Dict::Pair]’ at /usr/include/c++/13/bits/stl_uninitialized.h:373:37, inlined from ‘std::vector<_Tp, _Alloc>::pointer std::vector<_Tp, _Alloc>::_M_allocate_and_copy(size_type, _ForwardIterator, _ForwardIterator) [with _ForwardIterator = __gnu_cxx::__normal_iterator >; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1619:35, inlined from ‘std::vector<_Tp, _Alloc>& std::vector<_Tp, _Alloc>::operator=(const std::vector<_Tp, _Alloc>&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/vector.tcc:238:44, inlined from ‘RDKit::Dict& RDKit::Dict::operator=(const RDKit::Dict&)’ at /<>/Code/RDGeneral/Dict.h:113:21, inlined from ‘RDKit::RDProps& RDKit::RDProps::operator=(const RDKit::RDProps&)’ at /<>/Code/RDGeneral/RDProps.h:28:19, inlined from ‘RDKit::SubstanceGroup& RDKit::SubstanceGroup::operator=(const RDKit::SubstanceGroup&)’ at /<>/Code/GraphMol/SubstanceGroup.h:100:19: /usr/include/c++/13/bits/stl_uninitialized.h:137:39: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 137 | { return std::__do_uninit_copy(__first, __last, __result); } | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In static member function ‘static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*; bool _TrivialValueTypes = false]’, inlined from ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*]’ at /usr/include/c++/13/bits/stl_uninitialized.h:185:15, inlined from ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*; _Tp = RDKit::Dict::Pair]’ at /usr/include/c++/13/bits/stl_uninitialized.h:373:37, inlined from ‘std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:603:31, inlined from ‘RDKit::Dict::Dict(const RDKit::Dict&)’ at /<>/Code/RDGeneral/Dict.h:51:29, inlined from ‘RDKit::RDProps::RDProps(const RDKit::RDProps&)’ at /<>/Code/RDGeneral/RDProps.h:23:33, inlined from ‘RDKit::SubstanceGroup::SubstanceGroup(const RDKit::SubstanceGroup&)’ at /<>/Code/GraphMol/SubstanceGroup.h:99:3: /usr/include/c++/13/bits/stl_uninitialized.h:137:39: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 137 | { return std::__do_uninit_copy(__first, __last, __result); } | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_map.h: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘boost::python::converter::extract_rvalue::result_type boost::python::converter::extract_rvalue::operator()() const [with T = unsigned int]’, inlined from ‘ValueT boost::python::stl_input_iterator::dereference() const [with ValueT = unsigned int]’ at /usr/include/boost/python/stl_iterator.hpp:48:60, inlined from ‘static typename Facade::reference boost::iterators::iterator_core_access::dereference(const Facade&) [with Facade = boost::python::stl_input_iterator]’ at /usr/include/boost/iterator/iterator_facade.hpp:631:31, inlined from ‘boost::iterators::detail::iterator_facade_base::reference boost::iterators::detail::iterator_facade_base::operator*() const [with Derived = boost::python::stl_input_iterator; Value = unsigned int; CategoryOrTraversal = std::input_iterator_tag; Reference = unsigned int; Difference = int]’ at /usr/include/boost/iterator/iterator_facade.hpp:737:53, inlined from ‘void std::vector<_Tp, _Alloc>::_M_assign_aux(_InputIterator, _InputIterator, std::input_iterator_tag) [with _InputIterator = boost::python::stl_input_iterator; _Tp = unsigned int; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/vector.tcc:303:13, inlined from ‘void std::vector<_Tp, _Alloc>::assign(_InputIterator, _InputIterator) [with _InputIterator = boost::python::stl_input_iterator; = void; _Tp = unsigned int; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:826:17, inlined from ‘void pythonObjectToVect(const boost::python::api::object&, std::vector&) [with T = unsigned int]’ at /<>/Code/RDBoost/Wrap.h:149:15: /usr/include/boost/python/extract.hpp:185:11: warning: ‘*(unsigned int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 185 | ); | ^ In file included from /usr/include/boost/python.hpp:66: /usr/include/boost/python/stl_iterator.hpp: In function ‘void pythonObjectToVect(const boost::python::api::object&, std::vector&) [with T = unsigned int]’: /usr/include/boost/python/stl_iterator.hpp:48:16: note: ‘’ declared here 48 | return extract(this->impl_.current().get())(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘boost::python::converter::extract_rvalue::result_type boost::python::converter::extract_rvalue::operator()() const [with T = unsigned int]’, inlined from ‘ValueT boost::python::stl_input_iterator::dereference() const [with ValueT = unsigned int]’ at /usr/include/boost/python/stl_iterator.hpp:48:60, inlined from ‘static typename Facade::reference boost::iterators::iterator_core_access::dereference(const Facade&) [with Facade = boost::python::stl_input_iterator]’ at /usr/include/boost/iterator/iterator_facade.hpp:631:31, inlined from ‘boost::iterators::detail::iterator_facade_base::reference boost::iterators::detail::iterator_facade_base::operator*() const [with Derived = boost::python::stl_input_iterator; Value = unsigned int; CategoryOrTraversal = std::input_iterator_tag; Reference = unsigned int; Difference = int]’ at /usr/include/boost/iterator/iterator_facade.hpp:737:53, inlined from ‘void std::vector<_Tp, _Alloc>::_M_range_insert(iterator, _InputIterator, _InputIterator, std::input_iterator_tag) [with _InputIterator = boost::python::stl_input_iterator; _Tp = unsigned int; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/vector.tcc:736:22, inlined from ‘void std::vector<_Tp, _Alloc>::_M_assign_aux(_InputIterator, _InputIterator, std::input_iterator_tag) [with _InputIterator = boost::python::stl_input_iterator; _Tp = unsigned int; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/vector.tcc:307:19, inlined from ‘void std::vector<_Tp, _Alloc>::assign(_InputIterator, _InputIterator) [with _InputIterator = boost::python::stl_input_iterator; = void; _Tp = unsigned int; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:826:17, inlined from ‘void pythonObjectToVect(const boost::python::api::object&, std::vector&) [with T = unsigned int]’ at /<>/Code/RDBoost/Wrap.h:149:15: /usr/include/boost/python/extract.hpp:185:11: warning: ‘*(unsigned int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 185 | ); | ^ /usr/include/boost/python/stl_iterator.hpp: In function ‘void pythonObjectToVect(const boost::python::api::object&, std::vector&) [with T = unsigned int]’: /usr/include/boost/python/stl_iterator.hpp:48:16: note: ‘’ declared here 48 | return extract(this->impl_.current().get())(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘boost::python::converter::extract_rvalue::result_type boost::python::converter::extract_rvalue::operator()() const [with T = unsigned int]’, inlined from ‘ValueT boost::python::stl_input_iterator::dereference() const [with ValueT = unsigned int]’ at /usr/include/boost/python/stl_iterator.hpp:48:60, inlined from ‘static typename Facade::reference boost::iterators::iterator_core_access::dereference(const Facade&) [with Facade = boost::python::stl_input_iterator]’ at /usr/include/boost/iterator/iterator_facade.hpp:631:31, inlined from ‘boost::iterators::detail::iterator_facade_base::reference boost::iterators::detail::iterator_facade_base::operator*() const [with Derived = boost::python::stl_input_iterator; Value = unsigned int; CategoryOrTraversal = std::input_iterator_tag; Reference = unsigned int; Difference = int]’ at /usr/include/boost/iterator/iterator_facade.hpp:737:53, inlined from ‘void std::vector<_Tp, _Alloc>::_M_range_initialize(_InputIterator, _InputIterator, std::input_iterator_tag) [with _InputIterator = boost::python::stl_input_iterator; _Tp = unsigned int; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1670:21, inlined from ‘std::vector<_Tp, _Alloc>::vector(_InputIterator, _InputIterator, const allocator_type&) [with _InputIterator = boost::python::stl_input_iterator; = void; _Tp = unsigned int; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:708:23, inlined from ‘void std::vector<_Tp, _Alloc>::_M_range_insert(iterator, _InputIterator, _InputIterator, std::input_iterator_tag) [with _InputIterator = boost::python::stl_input_iterator; _Tp = unsigned int; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/vector.tcc:740:13, inlined from ‘void std::vector<_Tp, _Alloc>::_M_assign_aux(_InputIterator, _InputIterator, std::input_iterator_tag) [with _InputIterator = boost::python::stl_input_iterator; _Tp = unsigned int; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/vector.tcc:307:19, inlined from ‘void std::vector<_Tp, _Alloc>::assign(_InputIterator, _InputIterator) [with _InputIterator = boost::python::stl_input_iterator; = void; _Tp = unsigned int; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:826:17, inlined from ‘void pythonObjectToVect(const boost::python::api::object&, std::vector&) [with T = unsigned int]’ at /<>/Code/RDBoost/Wrap.h:149:15: /usr/include/boost/python/extract.hpp:185:11: warning: ‘*(unsigned int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 185 | ); | ^ /usr/include/boost/python/stl_iterator.hpp: In function ‘void pythonObjectToVect(const boost::python::api::object&, std::vector&) [with T = unsigned int]’: /usr/include/boost/python/stl_iterator.hpp:48:16: note: ‘’ declared here 48 | return extract(this->impl_.current().get())(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/RDGeneral/types.h:27: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::DrawColour}; _Tp = RDKit::DrawColour; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::DrawColour}; _Tp = RDKit::DrawColour; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/Code/GraphMol/Wrap/PDBWriter.cpp:20: /<>/Code/RDBoost/python_streambuf.h: In member function ‘virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(off_type, std::ios_base::seekdir, std::ios_base::openmode)’: /<>/Code/RDBoost/python_streambuf.h:420:16: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 420 | result = off_type(bp::extract(py_tell())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/Code/RDBoost/python_streambuf.h:420:56: note: ‘’ declared here 420 | result = off_type(bp::extract(py_tell())); | ^ /<>/Code/RDBoost/python_streambuf.h: In constructor ‘boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)’: /<>/Code/RDBoost/python_streambuf.h:185:56: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 185 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:185:56: note: ‘’ declared here 185 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:155:58: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 155 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:155:58: note: ‘’ declared here 155 | off_type py_pos = bp::extract(py_tell()); | ^ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignBWPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:143:13, inlined from ‘void test14BWPalette()’ at /<>/Code/GraphMol/MolDraw2D/test1.cpp:2975:22: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ [ 96%] Linking CXX shared module ../../../rdkit/Chem/rdchem.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdchem.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/Chem/rdchem.so CMakeFiles/rdchem.dir/rdchem.cpp.o CMakeFiles/rdchem.dir/Table.cpp.o CMakeFiles/rdchem.dir/Atom.cpp.o CMakeFiles/rdchem.dir/Bond.cpp.o CMakeFiles/rdchem.dir/Mol.cpp.o CMakeFiles/rdchem.dir/Conformer.cpp.o CMakeFiles/rdchem.dir/RingInfo.cpp.o CMakeFiles/rdchem.dir/EditableMol.cpp.o CMakeFiles/rdchem.dir/MonomerInfo.cpp.o CMakeFiles/rdchem.dir/ResonanceMolSupplier.cpp.o CMakeFiles/rdchem.dir/MolBundle.cpp.o CMakeFiles/rdchem.dir/StereoGroup.cpp.o CMakeFiles/rdchem.dir/SubstanceGroup.cpp.o CMakeFiles/rdchem.dir/Chirality.cpp.o ../../../lib/libRDKitMarvinParser.so.1.2023.09.3 ../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl [ 97%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/MultithreadedSmilesMolSupplier.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/MultithreadedSmilesMolSupplier.cpp.o -MF CMakeFiles/rdmolfiles.dir/MultithreadedSmilesMolSupplier.cpp.o.d -o CMakeFiles/rdmolfiles.dir/MultithreadedSmilesMolSupplier.cpp.o -c /<>/Code/GraphMol/Wrap/MultithreadedSmilesMolSupplier.cpp /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const RDKit::DrawColour&}; _Tp = RDKit::DrawColour; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 [ 97%] Built target rdchem make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolDraw2D /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/build /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 97%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/rxn_test1.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/freetype2 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/rxn_test1.cpp.o -MF CMakeFiles/moldraw2DRxnTest1.dir/rxn_test1.cpp.o.d -o CMakeFiles/moldraw2DRxnTest1.dir/rxn_test1.cpp.o -c /<>/Code/GraphMol/MolDraw2D/rxn_test1.cpp In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDKit::DrawColour; _Alloc = std::allocator]’, inlined from ‘testGithub2931()::&, RDKit::DrawColour, std::map >&)>’ at /<>/Code/GraphMol/MolDraw2D/test1.cpp:3678:31: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from /usr/include/c++/13/map:62, from /usr/include/catch2/internal/catch_reporter_spec_parser.hpp:15, from /usr/include/catch2/catch_config.hpp:17, from /usr/include/catch2/catch_all.hpp:29, from /<>/Code/GraphMol/MolDraw2D/catch_tests.cpp:10: /usr/include/c++/13/bits/stl_tree.h: In function ‘std::pair std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_get_insert_hint_unique_pos(const_iterator, const key_type&) [with _Key = int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/stl_tree.h:2210:5: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 2210 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDGeom::Point2D}; _Tp = RDGeom::Point2D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDGeom::Point2D}; _Tp = RDGeom::Point2D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_tree.h: In function ‘std::pair std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_get_insert_hint_unique_pos(const_iterator, const key_type&) [with _Key = int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/stl_tree.h:2210:5: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_tree.h: In function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/stl_tree.h:2458:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 2458 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_tree.h: In function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/stl_tree.h:2458:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = double; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void test3()’ at /<>/Code/GraphMol/MolDraw2D/test1.cpp:867:23: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = double; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void test3()’ at /<>/Code/GraphMol/MolDraw2D/test1.cpp:868:23: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/map:63: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:69:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:70:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:71:25: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:71:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:72:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:73:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:74:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:75:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:76:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:77:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:78:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:79:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:80:14: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignAvalonPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:87:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignAvalonPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:88:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignAvalonPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:89:25: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignAvalonPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:89:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignAvalonPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:90:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignAvalonPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:91:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignAvalonPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:92:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignAvalonPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:93:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignAvalonPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:94:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignAvalonPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:95:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignAvalonPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:96:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignAvalonPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:97:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignAvalonPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:98:14: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignCDKPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:109:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignCDKPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:110:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignCDKPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:111:25: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignCDKPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:111:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignCDKPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:112:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignCDKPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:113:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignCDKPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:114:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignCDKPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:115:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignCDKPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:116:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignCDKPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:117:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignCDKPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:118:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignCDKPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:119:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignCDKPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:120:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignCDKPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:121:14: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDarkModePalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:127:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDarkModePalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:128:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDarkModePalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:129:25: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDarkModePalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:129:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDarkModePalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:130:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDarkModePalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:131:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDarkModePalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:132:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDarkModePalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:133:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDarkModePalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:134:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDarkModePalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:135:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDarkModePalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:136:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDarkModePalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:137:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDarkModePalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:138:14: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_map.h: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66, from /usr/include/catch2/interfaces/catch_interfaces_config.hpp:17, from /usr/include/catch2/benchmark/catch_benchmark.hpp:20, from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, from /usr/include/catch2/catch_all.hpp:25: /usr/include/c++/13/bits/stl_vector.h: In constructor ‘std::vector<_Tp, _Alloc>::vector(std::initializer_list<_Tp>, const allocator_type&) [with _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/stl_vector.h:675:7: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 675 | vector(initializer_list __l, | ^~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /usr/include/catch2/benchmark/detail/catch_stats.hpp:16, from /usr/include/catch2/benchmark/detail/catch_estimate_clock.hpp:15, from /usr/include/catch2/benchmark/catch_benchmark.hpp:26: /usr/include/c++/13/bits/stl_algo.h: In function ‘_IIter std::find(_IIter, _IIter, const _Tp&) [with _IIter = __gnu_cxx::__normal_iterator >; _Tp = RDKit::DrawColour]’: /usr/include/c++/13/bits/stl_algo.h:3889:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 3889 | find(_InputIterator __first, _InputIterator __last, | ^~~~ /usr/include/c++/13/bits/stl_algo.h:3889:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In file included from /usr/include/c++/13/vector:72: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::DrawColour}; _Tp = RDKit::DrawColour; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::DrawColour}; _Tp = RDKit::DrawColour; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/RDGeneral/types.h:27, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/MolDraw2D/rxn_test1.cpp:12: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::DrawColour}; _Tp = RDKit::DrawColour; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::DrawColour}; _Tp = RDKit::DrawColour; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::DrawColour}; _Tp = RDKit::DrawColour; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::DrawColour; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void test3()’ at /<>/Code/GraphMol/MolDraw2D/rxn_test1.cpp:312:31: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::setMonochromeMode(MolDrawOptions&, const DrawColour&, const DrawColour&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2D.h:559:28, inlined from ‘void RDKit::setMonochromeMode(MolDraw2D&, const DrawColour&, const DrawColour&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2D.h:568:20, inlined from ‘void CATCH2_INTERNAL_TEST_165()’ at /<>/Code/GraphMol/MolDraw2D/catch_tests.cpp:3817:22: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::setMonochromeMode(MolDrawOptions&, const DrawColour&, const DrawColour&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2D.h:559:28, inlined from ‘void RDKit::setMonochromeMode(MolDraw2D&, const DrawColour&, const DrawColour&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2D.h:568:20, inlined from ‘void CATCH2_INTERNAL_TEST_165()’ at /<>/Code/GraphMol/MolDraw2D/catch_tests.cpp:3832:22: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ [ 97%] Linking CXX executable moldraw2DRxnTest1 cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/cmake -E cmake_link_script CMakeFiles/moldraw2DRxnTest1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/moldraw2DRxnTest1.dir/rxn_test1.cpp.o -o moldraw2DRxnTest1 ../../../lib/libRDKitMolDraw2D.so.1.2023.09.3 ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libcairo.so /usr/lib/arm-linux-gnueabihf/libfreetype.so In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignBWPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:143:13, inlined from ‘void CATCH2_INTERNAL_TEST_206()’ at /<>/Code/GraphMol/MolDraw2D/catch_tests.cpp:4620:20: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 97%] Built target moldraw2DRxnTest1 make -f Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolDraw2D/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 97%] Building CXX object Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/rdMolDraw2D.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolDraw2D_EXPORTS -I/<>/External -I/usr/include/freetype2 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/rdMolDraw2D.cpp.o -MF CMakeFiles/rdMolDraw2D.dir/rdMolDraw2D.cpp.o.d -o CMakeFiles/rdMolDraw2D.dir/rdMolDraw2D.cpp.o -c /<>/Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp [ 97%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/MultithreadedSDMolSupplier.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/MultithreadedSDMolSupplier.cpp.o -MF CMakeFiles/rdmolfiles.dir/MultithreadedSDMolSupplier.cpp.o.d -o CMakeFiles/rdmolfiles.dir/MultithreadedSDMolSupplier.cpp.o -c /<>/Code/GraphMol/Wrap/MultithreadedSDMolSupplier.cpp [ 97%] Linking CXX executable moldraw2DTest1 cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/cmake -E cmake_link_script CMakeFiles/moldraw2DTest1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/moldraw2DTest1.dir/test1.cpp.o -o moldraw2DTest1 ../../../lib/libRDKitMolDraw2D.so.1.2023.09.3 ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libcairo.so /usr/lib/arm-linux-gnueabihf/libfreetype.so /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const RDGeom::Point3D&}; _Tp = RDGeom::Point2D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {const RDGeom::Point3D&}; _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void CATCH2_INTERNAL_TEST_64()’ at /<>/Code/GraphMol/MolDraw2D/catch_tests.cpp:1403:25: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const RDKit::DrawColour&}; _Tp = RDKit::DrawColour; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 97%] Built target moldraw2DTest1 make -f Code/GraphMol/GeneralizedSubstruct/CMakeFiles/GeneralizedSubstruct.dir/build.make Code/GraphMol/GeneralizedSubstruct/CMakeFiles/GeneralizedSubstruct.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/GeneralizedSubstruct /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/GeneralizedSubstruct /<>/obj-arm-linux-gnueabihf/Code/GraphMol/GeneralizedSubstruct/CMakeFiles/GeneralizedSubstruct.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/GeneralizedSubstruct/CMakeFiles/GeneralizedSubstruct.dir/build.make Code/GraphMol/GeneralizedSubstruct/CMakeFiles/GeneralizedSubstruct.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDKit::DrawColour; _Alloc = std::allocator]’, inlined from ‘CATCH2_INTERNAL_TEST_332()::&, RDKit::DrawColour, const RDKit::ROMol&, std::map >&)>’ at /<>/Code/GraphMol/MolDraw2D/catch_tests.cpp:9084:35: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 97%] Building CXX object Code/GraphMol/GeneralizedSubstruct/CMakeFiles/GeneralizedSubstruct.dir/XQMol.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/GeneralizedSubstruct && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGeneralizedSubstruct_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GENERALIZEDSUBSTRUCT_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/GeneralizedSubstruct/CMakeFiles/GeneralizedSubstruct.dir/XQMol.cpp.o -MF CMakeFiles/GeneralizedSubstruct.dir/XQMol.cpp.o.d -o CMakeFiles/GeneralizedSubstruct.dir/XQMol.cpp.o -c /<>/Code/GraphMol/GeneralizedSubstruct/XQMol.cpp /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDGeom::Point2D}; _Tp = RDGeom::Point2D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDGeom::Point2D}; _Tp = RDGeom::Point2D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDKit::DrawColour; _Alloc = std::allocator]’, inlined from ‘CATCH2_INTERNAL_TEST_326()::&, RDKit::DrawColour, std::map >&)>’ at /<>/Code/GraphMol/MolDraw2D/catch_tests.cpp:8239:31: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /<>/Code/GraphMol/MolDraw2D/catch_tests.cpp: In function ‘CATCH2_INTERNAL_TEST_326()::&, RDKit::DrawColour, std::map >&)>’: /<>/Code/GraphMol/MolDraw2D/catch_tests.cpp:8238:17: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 8238 | find(ex->second.begin(), ex->second.end(), col)) { | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/Code/GraphMol/MolDraw2D/DrawMol.h:26, from /<>/Code/GraphMol/MolDraw2D/catch_tests.cpp:20: /<>/Code/GraphMol/MolDraw2D/DrawShape.h: In function ‘void __static_initialization_and_destruction_0()’: /<>/Code/GraphMol/MolDraw2D/DrawShape.h:27:32: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 27 | const DashPattern dots{2.0, 6.0}; | ^ /<>/Code/GraphMol/MolDraw2D/DrawShape.h:28:34: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 28 | const DashPattern dashes{6.0, 4.0}; | ^ /<>/Code/GraphMol/MolDraw2D/DrawShape.h:29:39: note: parameter passing for argument of type ‘std::initializer_list’ changed in GCC 7.1 29 | const DashPattern shortDashes{2.0, 2.0}; | ^ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignBWPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:143:13, inlined from ‘void CATCH2_INTERNAL_TEST_27()’ at /<>/Code/GraphMol/MolDraw2D/catch_tests.cpp:902:22: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignBWPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:143:13, inlined from ‘void CATCH2_INTERNAL_TEST_27()’ at /<>/Code/GraphMol/MolDraw2D/catch_tests.cpp:918:22: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ [ 97%] Linking CXX shared module ../../../rdkit/Chem/rdmolfiles.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdmolfiles.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/Chem/rdmolfiles.so CMakeFiles/rdmolfiles.dir/rdmolfiles.cpp.o CMakeFiles/rdmolfiles.dir/ForwardSDMolSupplier.cpp.o CMakeFiles/rdmolfiles.dir/MaeMolSupplier.cpp.o CMakeFiles/rdmolfiles.dir/MaeWriter.cpp.o CMakeFiles/rdmolfiles.dir/SDMolSupplier.cpp.o CMakeFiles/rdmolfiles.dir/TDTMolSupplier.cpp.o CMakeFiles/rdmolfiles.dir/SmilesMolSupplier.cpp.o CMakeFiles/rdmolfiles.dir/SmilesWriter.cpp.o CMakeFiles/rdmolfiles.dir/SDWriter.cpp.o CMakeFiles/rdmolfiles.dir/TDTWriter.cpp.o CMakeFiles/rdmolfiles.dir/PDBWriter.cpp.o CMakeFiles/rdmolfiles.dir/MultithreadedSmilesMolSupplier.cpp.o CMakeFiles/rdmolfiles.dir/MultithreadedSDMolSupplier.cpp.o ../../../lib/libRDKitMarvinParser.so.1.2023.09.3 ../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 -ldl /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 97%] Built target rdmolfiles make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/RGroupDecomposition /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 97%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupDecomp.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_RGROUPDECOMPOSITION_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRGroupDecomposition_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupDecomp.cpp.o -MF CMakeFiles/RGroupDecomposition.dir/RGroupDecomp.cpp.o.d -o CMakeFiles/RGroupDecomposition.dir/RGroupDecomp.cpp.o -c /<>/Code/GraphMol/RGroupDecomposition/RGroupDecomp.cpp In file included from /usr/include/c++/13/memory:69, from /usr/include/boost/iostreams/stream_buffer.hpp:15, from /usr/include/boost/iostreams/stream.hpp:21, from /<>/Code/RDGeneral/RDLog.h:18, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/GeneralizedSubstruct/XQMol.cpp:15: /usr/include/c++/13/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*]’: /usr/include/c++/13/bits/stl_uninitialized.h:113:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 113 | __do_uninit_copy(_InputIterator __first, _InputIterator __last, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_uninitialized.h:113:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In static member function ‘static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*; bool _TrivialValueTypes = false]’, inlined from ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*]’ at /usr/include/c++/13/bits/stl_uninitialized.h:185:15, inlined from ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*; _Tp = RDKit::Dict::Pair]’ at /usr/include/c++/13/bits/stl_uninitialized.h:373:37, inlined from ‘std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:603:31, inlined from ‘RDKit::Dict::Dict(const RDKit::Dict&)’ at /<>/Code/RDGeneral/Dict.h:51:29, inlined from ‘RDKit::RDProps::RDProps(const RDKit::RDProps&)’ at /<>/Code/RDGeneral/RDProps.h:23:33, inlined from ‘RDKit::MolBundle::MolBundle(const RDKit::MolBundle&)’ at /<>/Code/GraphMol/MolBundle.h:64:52, inlined from ‘std::__detail::__unique_ptr_t<_Tp> std::make_unique(_Args&& ...) [with _Tp = RDKit::MolBundle; _Args = {RDKit::MolBundle&}]’ at /usr/include/c++/13/bits/unique_ptr.h:1070:30: /usr/include/c++/13/bits/stl_uninitialized.h:137:39: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 137 | { return std::__do_uninit_copy(__first, __last, __result); } | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In static member function ‘static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*; bool _TrivialValueTypes = false]’, inlined from ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*]’ at /usr/include/c++/13/bits/stl_uninitialized.h:185:15, inlined from ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = RDKit::Dict::Pair*; _Tp = RDKit::Dict::Pair]’ at /usr/include/c++/13/bits/stl_uninitialized.h:373:37, inlined from ‘std::vector<_Tp, _Alloc>::pointer std::vector<_Tp, _Alloc>::_M_allocate_and_copy(size_type, _ForwardIterator, _ForwardIterator) [with _ForwardIterator = __gnu_cxx::__normal_iterator >; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1619:35, inlined from ‘std::vector<_Tp, _Alloc>& std::vector<_Tp, _Alloc>::operator=(const std::vector<_Tp, _Alloc>&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/vector.tcc:238:44, inlined from ‘RDKit::Dict& RDKit::Dict::operator=(const RDKit::Dict&)’ at /<>/Code/RDGeneral/Dict.h:113:21, inlined from ‘RDKit::RDProps& RDKit::RDProps::operator=(const RDKit::RDProps&)’ at /<>/Code/RDGeneral/RDProps.h:28:19, inlined from ‘RDKit::MolBundle& RDKit::MolBundle::operator=(const RDKit::MolBundle&)’ at /<>/Code/GraphMol/MolBundle.h:68:14, inlined from ‘RDKit::GeneralizedSubstruct::ExtendedQueryMol RDKit::GeneralizedSubstruct::createExtendedQueryMol(const RDKit::RWMol&, bool, bool, bool, RDKit::MolOps::AdjustQueryParameters)’ at /<>/Code/GraphMol/GeneralizedSubstruct/XQMol.cpp:95:40: /usr/include/c++/13/bits/stl_uninitialized.h:137:39: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 137 | { return std::__do_uninit_copy(__first, __last, __result); } | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 97%] Building CXX object Code/GraphMol/GeneralizedSubstruct/CMakeFiles/GeneralizedSubstruct.dir/TextIO.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/GeneralizedSubstruct && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DGeneralizedSubstruct_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GENERALIZEDSUBSTRUCT_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/GeneralizedSubstruct/CMakeFiles/GeneralizedSubstruct.dir/TextIO.cpp.o -MF CMakeFiles/GeneralizedSubstruct.dir/TextIO.cpp.o.d -o CMakeFiles/GeneralizedSubstruct.dir/TextIO.cpp.o -c /<>/Code/GraphMol/GeneralizedSubstruct/TextIO.cpp In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDKit::DrawColour; _Alloc = std::allocator]’, inlined from ‘void CATCH2_INTERNAL_TEST_332()’ at /<>/Code/GraphMol/MolDraw2D/catch_tests.cpp:9110:23: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDKit::DrawColour; _Alloc = std::allocator]’, inlined from ‘void CATCH2_INTERNAL_TEST_332()’ at /<>/Code/GraphMol/MolDraw2D/catch_tests.cpp:9111:23: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = int; _Tp = double; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void CATCH2_INTERNAL_TEST_326()’ at /<>/Code/GraphMol/MolDraw2D/catch_tests.cpp:8472:17: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = int; _Tp = double; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void CATCH2_INTERNAL_TEST_326()’ at /<>/Code/GraphMol/MolDraw2D/catch_tests.cpp:8554:17: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/map:62, from /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:16, from /usr/include/boost/python/suite/indexing/indexing_suite.hpp:12, from /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:9, from /<>/Code/RDBoost/python.h:5, from /<>/Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp:11: /usr/include/c++/13/bits/stl_tree.h: In function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/stl_tree.h:2458:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 2458 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDKit::DrawColour; _Alloc = std::allocator]’, inlined from ‘void CATCH2_INTERNAL_TEST_308()’ at /<>/Code/GraphMol/MolDraw2D/catch_tests.cpp:7587:33: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = int; _Tp = double; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void CATCH2_INTERNAL_TEST_308()’ at /<>/Code/GraphMol/MolDraw2D/catch_tests.cpp:7590:33: /usr/include/c++/13/bits/stl_map.h:513:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 513 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 514 | std::tuple(__k), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDKit::DrawColour; _Alloc = std::allocator]’, inlined from ‘void CATCH2_INTERNAL_TEST_308()’ at /<>/Code/GraphMol/MolDraw2D/catch_tests.cpp:7606:33: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /<>/Code/GraphMol/MolDraw2D/catch_tests.cpp: In function ‘void CATCH2_INTERNAL_TEST_308()’: /<>/Code/GraphMol/MolDraw2D/catch_tests.cpp:7605:19: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 7605 | find(ex->second.begin(), ex->second.end(), colours[i])) { | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/Code/GraphMol/MolDraw2D/catch_tests.cpp:7586:19: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 7586 | find(ex->second.begin(), ex->second.end(), colours[i])) { | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/map:63: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignBWPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:143:13, inlined from ‘void RDKit::useBWAtomPalette(MolDrawOptions&)’ at /<>/Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp:496:18: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:69:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:70:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:71:25: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:71:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:72:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:73:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:74:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:75:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:76:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:77:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:78:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:79:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDefaultPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:80:14: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignAvalonPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:87:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignAvalonPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:88:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignAvalonPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:89:25: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignAvalonPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:89:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignAvalonPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:90:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignAvalonPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:91:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignAvalonPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:92:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignAvalonPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:93:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignAvalonPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:94:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignAvalonPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:95:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignAvalonPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:96:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignAvalonPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:97:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignAvalonPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:98:14: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignCDKPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:109:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignCDKPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:110:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignCDKPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:111:25: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignCDKPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:111:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignCDKPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:112:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignCDKPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:113:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignCDKPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:114:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignCDKPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:115:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignCDKPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:116:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignCDKPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:117:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignCDKPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:118:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignCDKPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:119:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignCDKPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:120:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignCDKPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:121:14: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDarkModePalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:127:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDarkModePalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:128:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDarkModePalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:129:25: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDarkModePalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:129:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDarkModePalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:130:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDarkModePalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:131:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDarkModePalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:132:12: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDarkModePalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:133:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDarkModePalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:134:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDarkModePalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:135:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDarkModePalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:136:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDarkModePalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:137:13: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignDarkModePalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:138:14: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::setMonochromeMode(MolDrawOptions&, const DrawColour&, const DrawColour&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2D.h:559:28, inlined from ‘void RDKit::setMonochromeMode_helper1(MolDrawOptions&, boost::python::tuple, boost::python::tuple)’ at /<>/Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp:516:27: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::setMonochromeMode(MolDrawOptions&, const DrawColour&, const DrawColour&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2D.h:559:28, inlined from ‘void RDKit::setMonochromeMode(MolDraw2D&, const DrawColour&, const DrawColour&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2D.h:568:20, inlined from ‘void RDKit::setMonochromeMode_helper2(MolDraw2D&, boost::python::tuple, boost::python::tuple)’ at /<>/Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp:523:27: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::{anonymous}::pyDictToColourMap(boost::python::api::object, RDKit::ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp:62:46: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ /<>/Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp: In function ‘void RDKit::{anonymous}::pyDictToDoubleMap(boost::python::api::object, std::map&)’: /<>/Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp:77:57: warning: ‘*(const double*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 77 | double r = python::extract(tDict.values()[i]); | ^ /<>/Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp:77:57: note: ‘’ declared here 77 | double r = python::extract(tDict.values()[i]); | ^ In file included from /usr/include/c++/13/vector:72, from /usr/include/c++/13/functional:64, from /usr/include/boost/config/no_tr1/functional.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:15, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::DrawColour}; _Tp = RDKit::DrawColour; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::DrawColour}; _Tp = RDKit::DrawColour; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RGroupDecomposition/../RDKitBase.h:21, from /<>/Code/GraphMol/RGroupDecomposition/RGroupDecomp.h:15, from /<>/Code/GraphMol/RGroupDecomposition/RGroupDecomp.cpp:34: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDGeom::Point2D}; _Tp = RDGeom::Point2D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::_M_range_initialize(_InputIterator, _InputIterator, std::input_iterator_tag) [with _InputIterator = boost::python::stl_input_iterator; _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1670:20, inlined from ‘std::vector<_Tp, _Alloc>::vector(_InputIterator, _InputIterator, const allocator_type&) [with _InputIterator = boost::python::stl_input_iterator; = void; _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:708:23, inlined from ‘std::unique_ptr > pythonObjectToVect(const boost::python::api::object&) [with T = double]’ at /<>/Code/RDBoost/Wrap.h:140:15: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignBWPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:143:13, inlined from ‘void CATCH2_INTERNAL_TEST_299()’ at /<>/Code/GraphMol/MolDraw2D/catch_tests.cpp:7390:20: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDGeom::Point2D}; _Tp = RDGeom::Point2D; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::_M_range_initialize(_InputIterator, _InputIterator, std::input_iterator_tag) [with _InputIterator = boost::python::stl_input_iterator; _Tp = RDGeom::Point2D; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1670:20, inlined from ‘std::vector<_Tp, _Alloc>::vector(_InputIterator, _InputIterator, const allocator_type&) [with _InputIterator = boost::python::stl_input_iterator; = void; _Tp = RDGeom::Point2D; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:708:23, inlined from ‘std::unique_ptr > pythonObjectToVect(const boost::python::api::object&) [with T = RDGeom::Point2D]’ at /<>/Code/RDBoost/Wrap.h:140:15: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](key_type&&) [with _Key = int; _Tp = RDKit::DrawColour; _Compare = std::less; _Alloc = std::allocator >]’, inlined from ‘void RDKit::assignBWPalette(ColourPalette&)’ at /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h:143:13, inlined from ‘void CATCH2_INTERNAL_TEST_301()’ at /<>/Code/GraphMol/MolDraw2D/catch_tests.cpp:7471:20: /usr/include/c++/13/bits/stl_map.h:532:44: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ changed in GCC 7.1 532 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 | std::forward_as_tuple(std::move(__k)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 | std::tuple<>()); | ~~~~~~~~~~~~~~~ [ 97%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupDecompData.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_RGROUPDECOMPOSITION_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRGroupDecomposition_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupDecompData.cpp.o -MF CMakeFiles/RGroupDecomposition.dir/RGroupDecompData.cpp.o.d -o CMakeFiles/RGroupDecomposition.dir/RGroupDecompData.cpp.o -c /<>/Code/GraphMol/RGroupDecomposition/RGroupDecompData.cpp [ 97%] Linking CXX shared library ../../../lib/libRDKitGeneralizedSubstruct.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/GeneralizedSubstruct && /usr/bin/cmake -E cmake_link_script CMakeFiles/GeneralizedSubstruct.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitGeneralizedSubstruct.so.1 -o ../../../lib/libRDKitGeneralizedSubstruct.so.1.2023.09.3 CMakeFiles/GeneralizedSubstruct.dir/XQMol.cpp.o CMakeFiles/GeneralizedSubstruct.dir/TextIO.cpp.o ../../../lib/libRDKitMolEnumerator.so.1.2023.09.3 ../../../lib/libRDKitTautomerQuery.so.1.2023.09.3 ../../../lib/libRDKitMolStandardize.so.1.2023.09.3 ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/GeneralizedSubstruct && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitGeneralizedSubstruct.so.1.2023.09.3 ../../../lib/libRDKitGeneralizedSubstruct.so.1 ../../../lib/libRDKitGeneralizedSubstruct.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 97%] Built target GeneralizedSubstruct make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 97%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/test1.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/test1.cpp.o -MF CMakeFiles/molStandardizeTest.dir/test1.cpp.o.d -o CMakeFiles/molStandardizeTest.dir/test1.cpp.o -c /<>/Code/GraphMol/MolStandardize/test1.cpp [ 97%] Linking CXX executable moldraw2DTestCatch cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/cmake -E cmake_link_script CMakeFiles/moldraw2DTestCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/moldraw2DTestCatch.dir/catch_tests.cpp.o -o moldraw2DTestCatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitMolDraw2D.so.1.2023.09.3 ../../../lib/libRDKitCIPLabeler.so.1.2023.09.3 /usr/lib/libCatch2.a ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcairo.so /usr/lib/arm-linux-gnueabihf/libfreetype.so ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 97%] Built target moldraw2DTestCatch make -f Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 97%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/testNormalize.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/testNormalize.cpp.o -MF CMakeFiles/molNormalizeTest.dir/testNormalize.cpp.o.d -o CMakeFiles/molNormalizeTest.dir/testNormalize.cpp.o -c /<>/Code/GraphMol/MolStandardize/testNormalize.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/GraphMol/SmilesParse/SmartsWrite.h:15, from /<>/Code/GraphMol/RGroupDecomposition/RGroupCore.h:14, from /<>/Code/GraphMol/RGroupDecomposition/RGroupDecompData.h:14, from /<>/Code/GraphMol/RGroupDecomposition/RGroupDecompData.cpp:12: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 97%] Linking CXX shared module ../../../../rdkit/Chem/Draw/rdMolDraw2D.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolDraw2D.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/Draw/rdMolDraw2D.so CMakeFiles/rdMolDraw2D.dir/rdMolDraw2D.cpp.o ../../../../lib/libRDKitMolDraw2D.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../../lib/libRDKitMolAlign.so.1.2023.09.3 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directory '/<>/obj-arm-linux-gnueabihf' [ 97%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/testValidate.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 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-fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupData.cpp.o -MF CMakeFiles/RGroupDecomposition.dir/RGroupData.cpp.o.d -o CMakeFiles/RGroupDecomposition.dir/RGroupData.cpp.o -c /<>/Code/GraphMol/RGroupDecomposition/RGroupData.cpp [ 98%] Linking CXX executable molNormalizeTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molNormalizeTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/molNormalizeTest.dir/testNormalize.cpp.o -o molNormalizeTest ../../../lib/libRDKitMolStandardize.so.1.2023.09.3 ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 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../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 98%] Built target molValidateTest make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 98%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/test2.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/test2.cpp.o -MF CMakeFiles/molStandardizeSmallTest.dir/test2.cpp.o.d -o CMakeFiles/molStandardizeSmallTest.dir/test2.cpp.o -c /<>/Code/GraphMol/MolStandardize/test2.cpp [ 98%] Linking CXX executable molChargeTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molChargeTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/molChargeTest.dir/testCharge.cpp.o -o molChargeTest ../../../lib/libRDKitMolStandardize.so.1.2023.09.3 ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RGroupDecomposition/../RDKitBase.h:21, from /<>/Code/GraphMol/RGroupDecomposition/RGroupData.h:13, from /<>/Code/GraphMol/RGroupDecomposition/RGroupData.cpp:12: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::__cxx11::basic_string]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 98%] Built target molChargeTest make -f Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 98%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/testFragment.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/testFragment.cpp.o -MF CMakeFiles/molFragmentTest.dir/testFragment.cpp.o.d -o CMakeFiles/molFragmentTest.dir/testFragment.cpp.o -c /<>/Code/GraphMol/MolStandardize/testFragment.cpp [ 98%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupUtils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_RGROUPDECOMPOSITION_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRGroupDecomposition_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupUtils.cpp.o -MF CMakeFiles/RGroupDecomposition.dir/RGroupUtils.cpp.o.d -o CMakeFiles/RGroupDecomposition.dir/RGroupUtils.cpp.o -c /<>/Code/GraphMol/RGroupDecomposition/RGroupUtils.cpp [ 98%] Linking CXX executable molStandardizeSmallTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molStandardizeSmallTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/molStandardizeSmallTest.dir/test2.cpp.o -o molStandardizeSmallTest ../../../lib/libRDKitMolStandardize.so.1.2023.09.3 ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 98%] Built target molStandardizeSmallTest make -f 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/usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/catch_tests.cpp.o -MF CMakeFiles/molStandardizeCatchTest.dir/catch_tests.cpp.o.d -o CMakeFiles/molStandardizeCatchTest.dir/catch_tests.cpp.o -c /<>/Code/GraphMol/MolStandardize/catch_tests.cpp [ 98%] Linking CXX executable molFragmentTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molFragmentTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/molFragmentTest.dir/testFragment.cpp.o -o molFragmentTest ../../../lib/libRDKitMolStandardize.so.1.2023.09.3 ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 98%] Built target molFragmentTest make -f Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/build.make Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolStandardize/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/build.make Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 98%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/rdMolStandardize.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/rdMolStandardize.cpp.o -MF CMakeFiles/rdMolStandardize.dir/rdMolStandardize.cpp.o.d -o CMakeFiles/rdMolStandardize.dir/rdMolStandardize.cpp.o -c /<>/Code/GraphMol/MolStandardize/Wrap/rdMolStandardize.cpp [ 98%] Linking CXX executable molTautomerTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molTautomerTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/molTautomerTest.dir/testTautomer.cpp.o -o molTautomerTest ../../../lib/libRDKitMolStandardize.so.1.2023.09.3 ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/RGroupDecomposition/RGroupUtils.h:13, from /<>/Code/GraphMol/RGroupDecomposition/RGroupUtils.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 98%] Built target molTautomerTest make -f Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/build.make Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ScaffoldNetwork /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ScaffoldNetwork /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/build.make Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 98%] Building CXX object Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/ScaffoldNetwork.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ScaffoldNetwork && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SCAFFOLDNETWORK_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DScaffoldNetwork_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/ScaffoldNetwork.cpp.o -MF CMakeFiles/ScaffoldNetwork.dir/ScaffoldNetwork.cpp.o.d -o CMakeFiles/ScaffoldNetwork.dir/ScaffoldNetwork.cpp.o -c /<>/Code/GraphMol/ScaffoldNetwork/ScaffoldNetwork.cpp [ 99%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupCore.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_RGROUPDECOMPOSITION_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRGroupDecomposition_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupCore.cpp.o -MF CMakeFiles/RGroupDecomposition.dir/RGroupCore.cpp.o.d -o CMakeFiles/RGroupDecomposition.dir/RGroupCore.cpp.o -c /<>/Code/GraphMol/RGroupDecomposition/RGroupCore.cpp [ 99%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Validate.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Validate.cpp.o -MF CMakeFiles/rdMolStandardize.dir/Validate.cpp.o.d -o CMakeFiles/rdMolStandardize.dir/Validate.cpp.o -c /<>/Code/GraphMol/MolStandardize/Wrap/Validate.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/catch2/interfaces/catch_interfaces_config.hpp:17, from /usr/include/catch2/benchmark/catch_benchmark.hpp:20, from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, from /usr/include/catch2/catch_all.hpp:25, from /<>/Code/GraphMol/MolStandardize/catch_tests.cpp:10: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setVal(const std::string&, T&) [with T = std::__cxx11::basic_string]’ at /<>/Code/RDGeneral/Dict.h:270:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 99%] Linking CXX shared library ../../../lib/libRDKitScaffoldNetwork.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ScaffoldNetwork && /usr/bin/cmake -E cmake_link_script CMakeFiles/ScaffoldNetwork.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitScaffoldNetwork.so.1 -o ../../../lib/libRDKitScaffoldNetwork.so.1.2023.09.3 CMakeFiles/ScaffoldNetwork.dir/ScaffoldNetwork.cpp.o ../../../lib/libRDKitMolStandardize.so.1.2023.09.3 ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ScaffoldNetwork && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitScaffoldNetwork.so.1.2023.09.3 ../../../lib/libRDKitScaffoldNetwork.so.1 ../../../lib/libRDKitScaffoldNetwork.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 99%] Built target ScaffoldNetwork make -f Code/GraphMol/GeneralizedSubstruct/CMakeFiles/generalizedSubstructCatch.dir/build.make Code/GraphMol/GeneralizedSubstruct/CMakeFiles/generalizedSubstructCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/GeneralizedSubstruct /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/GeneralizedSubstruct /<>/obj-arm-linux-gnueabihf/Code/GraphMol/GeneralizedSubstruct/CMakeFiles/generalizedSubstructCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/GeneralizedSubstruct/CMakeFiles/generalizedSubstructCatch.dir/build.make Code/GraphMol/GeneralizedSubstruct/CMakeFiles/generalizedSubstructCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 99%] Building CXX object Code/GraphMol/GeneralizedSubstruct/CMakeFiles/generalizedSubstructCatch.dir/catch_tests.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/GeneralizedSubstruct && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/GeneralizedSubstruct/CMakeFiles/generalizedSubstructCatch.dir/catch_tests.cpp.o -MF CMakeFiles/generalizedSubstructCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/generalizedSubstructCatch.dir/catch_tests.cpp.o -c /<>/Code/GraphMol/GeneralizedSubstruct/catch_tests.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/GraphMol/SmilesParse/SmartsWrite.h:15, from /<>/Code/GraphMol/RGroupDecomposition/RGroupCore.h:14, from /<>/Code/GraphMol/RGroupDecomposition/RGroupCore.cpp:11: /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(iterator) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:181:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 181 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void RDKit::Dict::clearVal(const std::string&)’ at /<>/Code/RDGeneral/Dict.h:320:20, inlined from ‘void RDKit::RDProps::clearProp(const std::string&) const’ at /<>/Code/RDGeneral/RDProps.h:145:21: /usr/include/c++/13/bits/stl_vector.h:1532:24: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1532 | { return _M_erase(begin() + (__position - cbegin())); } | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’ at /<>/Code/GraphMol/Conformer.h:130:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’, inlined from ‘RDKit::Conformer::Conformer(unsigned int)’ at /<>/Code/GraphMol/Conformer.h:56:25: /usr/include/c++/13/bits/stl_vector.h:1034:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1034 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void RDKit::Dict::clearVal(const std::string&)’ at /<>/Code/RDGeneral/Dict.h:320:20, inlined from ‘void RDKit::RDProps::clearComputedProps() const’ at /<>/Code/RDGeneral/RDProps.h:153:25, inlined from ‘RDKit::RWMOL_SPTR RDKit::RCore::extractCoreFromMolMatch(const RDKit::ROMol&, const RDKit::MatchVectType&, const RDKit::RGroupDecompositionParameters&) const’ at /<>/Code/GraphMol/RGroupDecomposition/RGroupCore.cpp:146:39: /usr/include/c++/13/bits/stl_vector.h:1532:24: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1532 | { return _M_erase(begin() + (__position - cbegin())); } | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 99%] Linking CXX executable molStandardizeCatchTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molStandardizeCatchTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/molStandardizeCatchTest.dir/catch_tests.cpp.o -o molStandardizeCatchTest ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitMolStandardize.so.1.2023.09.3 /usr/lib/libCatch2.a ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 99%] Built target molStandardizeCatchTest make -f Code/GraphMol/GeneralizedSubstruct/Wrap/CMakeFiles/rdGeneralizedSubstruct.dir/build.make Code/GraphMol/GeneralizedSubstruct/Wrap/CMakeFiles/rdGeneralizedSubstruct.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/GeneralizedSubstruct/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/GeneralizedSubstruct/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/GeneralizedSubstruct/Wrap/CMakeFiles/rdGeneralizedSubstruct.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/GeneralizedSubstruct/Wrap/CMakeFiles/rdGeneralizedSubstruct.dir/build.make Code/GraphMol/GeneralizedSubstruct/Wrap/CMakeFiles/rdGeneralizedSubstruct.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 99%] Building CXX object Code/GraphMol/GeneralizedSubstruct/Wrap/CMakeFiles/rdGeneralizedSubstruct.dir/rdGeneralizedSubstruct.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/GeneralizedSubstruct/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdGeneralizedSubstruct_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/GeneralizedSubstruct/Wrap/CMakeFiles/rdGeneralizedSubstruct.dir/rdGeneralizedSubstruct.cpp.o -MF CMakeFiles/rdGeneralizedSubstruct.dir/rdGeneralizedSubstruct.cpp.o.d -o CMakeFiles/rdGeneralizedSubstruct.dir/rdGeneralizedSubstruct.cpp.o -c /<>/Code/GraphMol/GeneralizedSubstruct/Wrap/rdGeneralizedSubstruct.cpp [ 99%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupDecompParams.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_RGROUPDECOMPOSITION_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRGroupDecomposition_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupDecompParams.cpp.o -MF CMakeFiles/RGroupDecomposition.dir/RGroupDecompParams.cpp.o.d -o CMakeFiles/RGroupDecomposition.dir/RGroupDecompParams.cpp.o -c /<>/Code/GraphMol/RGroupDecomposition/RGroupDecompParams.cpp [ 99%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Charge.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Charge.cpp.o -MF CMakeFiles/rdMolStandardize.dir/Charge.cpp.o.d -o CMakeFiles/rdMolStandardize.dir/Charge.cpp.o -c /<>/Code/GraphMol/MolStandardize/Wrap/Charge.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RGroupDecomposition/../RDKitBase.h:21, from /<>/Code/GraphMol/RGroupDecomposition/RGroupDecompParams.h:15, from /<>/Code/GraphMol/RGroupDecomposition/RGroupDecompParams.cpp:11: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 99%] Linking CXX executable generalizedSubstructCatch cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/GeneralizedSubstruct && /usr/bin/cmake -E cmake_link_script CMakeFiles/generalizedSubstructCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/generalizedSubstructCatch.dir/catch_tests.cpp.o -o generalizedSubstructCatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitGeneralizedSubstruct.so.1.2023.09.3 /usr/lib/libCatch2.a ../../../lib/libRDKitMolEnumerator.so.1.2023.09.3 ../../../lib/libRDKitTautomerQuery.so.1.2023.09.3 ../../../lib/libRDKitMolStandardize.so.1.2023.09.3 ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 99%] Built target generalizedSubstructCatch make -f Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/build.make Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/TautomerQuery /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/TautomerQuery /<>/obj-arm-linux-gnueabihf/Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/build.make Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 99%] Building CXX object Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/catch_tests.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/TautomerQuery && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/catch_tests.cpp.o -MF CMakeFiles/tautomerQueryTestCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/tautomerQueryTestCatch.dir/catch_tests.cpp.o -c /<>/Code/GraphMol/TautomerQuery/catch_tests.cpp [ 99%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupScore.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_RGROUPDECOMPOSITION_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRGroupDecomposition_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupScore.cpp.o -MF CMakeFiles/RGroupDecomposition.dir/RGroupScore.cpp.o.d -o CMakeFiles/RGroupDecomposition.dir/RGroupScore.cpp.o -c /<>/Code/GraphMol/RGroupDecomposition/RGroupScore.cpp [ 99%] Linking CXX shared module ../../../../rdkit/Chem/rdGeneralizedSubstruct.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/GeneralizedSubstruct/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdGeneralizedSubstruct.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdGeneralizedSubstruct.so CMakeFiles/rdGeneralizedSubstruct.dir/rdGeneralizedSubstruct.cpp.o ../../../../lib/libRDKitGeneralizedSubstruct.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitMolEnumerator.so.1.2023.09.3 ../../../../lib/libRDKitTautomerQuery.so.1.2023.09.3 ../../../../lib/libRDKitMolStandardize.so.1.2023.09.3 ../../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../../lib/libRDKitAlignment.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 99%] Built target rdGeneralizedSubstruct make -f Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/build.make Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/TautomerQuery/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/TautomerQuery/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/build.make Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 99%] Building CXX object Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/rdTautomerQuery.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/TautomerQuery/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdTautomerQuery_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/rdTautomerQuery.cpp.o -MF CMakeFiles/rdTautomerQuery.dir/rdTautomerQuery.cpp.o.d -o CMakeFiles/rdTautomerQuery.dir/rdTautomerQuery.cpp.o -c /<>/Code/GraphMol/TautomerQuery/Wrap/rdTautomerQuery.cpp [ 99%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupFingerprintScore.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_RGROUPDECOMPOSITION_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRGroupDecomposition_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupFingerprintScore.cpp.o -MF CMakeFiles/RGroupDecomposition.dir/RGroupFingerprintScore.cpp.o.d -o CMakeFiles/RGroupDecomposition.dir/RGroupFingerprintScore.cpp.o -c /<>/Code/GraphMol/RGroupDecomposition/RGroupFingerprintScore.cpp [ 99%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Fragment.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Fragment.cpp.o -MF CMakeFiles/rdMolStandardize.dir/Fragment.cpp.o.d -o CMakeFiles/rdMolStandardize.dir/Fragment.cpp.o -c /<>/Code/GraphMol/MolStandardize/Wrap/Fragment.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/catch2/interfaces/catch_interfaces_config.hpp:17, from /usr/include/catch2/benchmark/catch_benchmark.hpp:20, from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, from /usr/include/catch2/catch_all.hpp:25, from /<>/Code/GraphMol/TautomerQuery/catch_tests.cpp:9: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘void RDKit::Dict::setPODVal(const std::string&, T) [with T = int]’ at /<>/Code/RDGeneral/Dict.h:285:20: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [100%] Linking CXX executable tautomerQueryTestCatch cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/TautomerQuery && /usr/bin/cmake -E cmake_link_script CMakeFiles/tautomerQueryTestCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/tautomerQueryTestCatch.dir/catch_tests.cpp.o -o tautomerQueryTestCatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitTautomerQuery.so.1.2023.09.3 /usr/lib/libCatch2.a ../../../lib/libRDKitMolStandardize.so.1.2023.09.3 ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target tautomerQueryTestCatch make -f Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SubstructLibrary /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [100%] Building CXX object Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/SubstructLibrary.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SUBSTRUCTLIBRARY_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSubstructLibrary_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/SubstructLibrary.cpp.o -MF CMakeFiles/SubstructLibrary.dir/SubstructLibrary.cpp.o.d -o CMakeFiles/SubstructLibrary.dir/SubstructLibrary.cpp.o -c /<>/Code/GraphMol/SubstructLibrary/SubstructLibrary.cpp [100%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupGa.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_RGROUPDECOMPOSITION_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRGroupDecomposition_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupGa.cpp.o -MF CMakeFiles/RGroupDecomposition.dir/RGroupGa.cpp.o.d -o CMakeFiles/RGroupDecomposition.dir/RGroupGa.cpp.o -c /<>/Code/GraphMol/RGroupDecomposition/RGroupGa.cpp In file included from /<>/Code/GraphMol/TautomerQuery/Wrap/rdTautomerQuery.cpp:15: /<>/Code/RDBoost/python_streambuf.h: In constructor ‘boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)’: /<>/Code/RDBoost/python_streambuf.h:185:56: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 185 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:185:56: note: ‘’ declared here 185 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:155:58: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 155 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:155:58: note: ‘’ declared here 155 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h: In member function ‘virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(off_type, std::ios_base::seekdir, std::ios_base::openmode)’: /<>/Code/RDBoost/python_streambuf.h:420:16: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 420 | result = off_type(bp::extract(py_tell())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/Code/RDBoost/python_streambuf.h:420:56: note: ‘’ declared here 420 | result = off_type(bp::extract(py_tell())); | ^ [100%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Normalize.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Normalize.cpp.o -MF CMakeFiles/rdMolStandardize.dir/Normalize.cpp.o.d -o CMakeFiles/rdMolStandardize.dir/Normalize.cpp.o -c /<>/Code/GraphMol/MolStandardize/Wrap/Normalize.cpp [100%] Linking CXX shared module ../../../../rdkit/Chem/rdTautomerQuery.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/TautomerQuery/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdTautomerQuery.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdTautomerQuery.so CMakeFiles/rdTautomerQuery.dir/rdTautomerQuery.cpp.o ../../../../lib/libRDKitTautomerQuery.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitMolStandardize.so.1.2023.09.3 ../../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../../lib/libRDKitGenericGroups.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target rdTautomerQuery [100%] Building CXX object Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/PatternFactory.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SUBSTRUCTLIBRARY_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSubstructLibrary_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/PatternFactory.cpp.o -MF CMakeFiles/SubstructLibrary.dir/PatternFactory.cpp.o.d -o CMakeFiles/SubstructLibrary.dir/PatternFactory.cpp.o -c /<>/Code/GraphMol/SubstructLibrary/PatternFactory.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/GraphMol/RGroupDecomposition/RGroupGa.h:14, from /<>/Code/GraphMol/RGroupDecomposition/RGroupGa.cpp:17: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::GaResult}; _Tp = RDKit::GaResult; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const RDKit::GaResult&}; _Tp = RDKit::GaResult; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::GaResult}; _Tp = RDKit::GaResult; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = RDKit::GaResult; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from ‘std::back_insert_iterator<_Container>& std::back_insert_iterator<_Container>::operator=(typename _Container::value_type&&) [with _Container = std::vector]’ at /usr/include/c++/13/bits/stl_iterator.h:747:22, inlined from ‘_OIter std::transform(_IIter, _IIter, _OIter, _UnaryOperation) [with _IIter = __gnu_cxx::__normal_iterator*, vector > >; _OIter = back_insert_iterator >; _UnaryOperation = RDKit::RGroupGa::runBatch()::&)>]’ at /usr/include/c++/13/bits/stl_algo.h:4309:12, inlined from ‘std::vector RDKit::RGroupGa::runBatch()’ at /<>/Code/GraphMol/RGroupDecomposition/RGroupGa.cpp:333:19: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = RDKit::GaResult; _Alloc = std::allocator]’, inlined from ‘std::vector RDKit::RGroupGa::runBatch()’ at /<>/Code/GraphMol/RGroupDecomposition/RGroupGa.cpp:339:24: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [100%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Metal.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Metal.cpp.o -MF CMakeFiles/rdMolStandardize.dir/Metal.cpp.o.d -o CMakeFiles/rdMolStandardize.dir/Metal.cpp.o -c /<>/Code/GraphMol/MolStandardize/Wrap/Metal.cpp [100%] Linking CXX shared library ../../../lib/libRDKitRGroupDecomposition.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition && /usr/bin/cmake -E cmake_link_script CMakeFiles/RGroupDecomposition.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitRGroupDecomposition.so.1 -o ../../../lib/libRDKitRGroupDecomposition.so.1.2023.09.3 CMakeFiles/RGroupDecomposition.dir/RGroupDecomp.cpp.o CMakeFiles/RGroupDecomposition.dir/RGroupDecompData.cpp.o CMakeFiles/RGroupDecomposition.dir/RGroupData.cpp.o CMakeFiles/RGroupDecomposition.dir/RGroupUtils.cpp.o CMakeFiles/RGroupDecomposition.dir/RGroupCore.cpp.o CMakeFiles/RGroupDecomposition.dir/RGroupDecompParams.cpp.o CMakeFiles/RGroupDecomposition.dir/RGroupScore.cpp.o CMakeFiles/RGroupDecomposition.dir/RGroupFingerprintScore.cpp.o CMakeFiles/RGroupDecomposition.dir/RGroupGa.cpp.o ../../../lib/libRDKitFMCS.so.1.2023.09.3 ../../../lib/libRDKitga.so.1.2023.09.3 ../../../lib/libRDKitMolEnumerator.so.1.2023.09.3 ../../../lib/libRDKitTautomerQuery.so.1.2023.09.3 ../../../lib/libRDKitMolStandardize.so.1.2023.09.3 ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitRGroupDecomposition.so.1.2023.09.3 ../../../lib/libRDKitRGroupDecomposition.so.1 ../../../lib/libRDKitRGroupDecomposition.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target RGroupDecomposition make -f Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/build.make Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ScaffoldNetwork /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ScaffoldNetwork /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/build.make Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [100%] Building CXX object Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/catch_tests.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ScaffoldNetwork && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/catch_tests.cpp.o -MF CMakeFiles/testScaffoldNetwork.dir/catch_tests.cpp.o.d -o CMakeFiles/testScaffoldNetwork.dir/catch_tests.cpp.o -c /<>/Code/GraphMol/ScaffoldNetwork/catch_tests.cpp make -f Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/build.make Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ScaffoldNetwork/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ScaffoldNetwork/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/build.make Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [100%] Building CXX object Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/rdScaffoldNetwork.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ScaffoldNetwork/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdScaffoldNetwork_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/rdScaffoldNetwork.cpp.o -MF CMakeFiles/rdScaffoldNetwork.dir/rdScaffoldNetwork.cpp.o.d -o CMakeFiles/rdScaffoldNetwork.dir/rdScaffoldNetwork.cpp.o -c /<>/Code/GraphMol/ScaffoldNetwork/Wrap/rdScaffoldNetwork.cpp [100%] Linking CXX shared library ../../../lib/libRDKitSubstructLibrary.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary && /usr/bin/cmake -E cmake_link_script CMakeFiles/SubstructLibrary.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitSubstructLibrary.so.1 -o ../../../lib/libRDKitSubstructLibrary.so.1.2023.09.3 CMakeFiles/SubstructLibrary.dir/SubstructLibrary.cpp.o CMakeFiles/SubstructLibrary.dir/PatternFactory.cpp.o ../../../lib/libRDKitGeneralizedSubstruct.so.1.2023.09.3 ../../../lib/libRDKitTautomerQuery.so.1.2023.09.3 ../../../lib/libRDKitMolStandardize.so.1.2023.09.3 ../../../lib/libRDKitMolEnumerator.so.1.2023.09.3 ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl /usr/lib/arm-linux-gnueabihf/libmaeparser.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSubstructLibrary.so.1.2023.09.3 ../../../lib/libRDKitSubstructLibrary.so.1 ../../../lib/libRDKitSubstructLibrary.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target SubstructLibrary make -f Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SubstructLibrary /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [100%] Building CXX object Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/substructLibraryTest.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/substructLibraryTest.cpp.o -MF CMakeFiles/substructLibraryTest.dir/substructLibraryTest.cpp.o.d -o CMakeFiles/substructLibraryTest.dir/substructLibraryTest.cpp.o -c /<>/Code/GraphMol/SubstructLibrary/substructLibraryTest.cpp [100%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Tautomer.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Tautomer.cpp.o -MF CMakeFiles/rdMolStandardize.dir/Tautomer.cpp.o.d -o CMakeFiles/rdMolStandardize.dir/Tautomer.cpp.o -c /<>/Code/GraphMol/MolStandardize/Wrap/Tautomer.cpp [100%] Linking CXX executable substructLibraryTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary && /usr/bin/cmake -E cmake_link_script CMakeFiles/substructLibraryTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/substructLibraryTest.dir/substructLibraryTest.cpp.o -o substructLibraryTest ../../../lib/libRDKitSubstructLibrary.so.1.2023.09.3 ../../../lib/libRDKitGeneralizedSubstruct.so.1.2023.09.3 ../../../lib/libRDKitTautomerQuery.so.1.2023.09.3 ../../../lib/libRDKitMolStandardize.so.1.2023.09.3 ../../../lib/libRDKitMolEnumerator.so.1.2023.09.3 ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target substructLibraryTest make -f Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryCatchTest.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryCatchTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SubstructLibrary /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryCatchTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryCatchTest.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryCatchTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [100%] Building CXX object Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryCatchTest.dir/catch_tests.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryCatchTest.dir/catch_tests.cpp.o -MF CMakeFiles/substructLibraryCatchTest.dir/catch_tests.cpp.o.d -o CMakeFiles/substructLibraryCatchTest.dir/catch_tests.cpp.o -c /<>/Code/GraphMol/SubstructLibrary/catch_tests.cpp [100%] Linking CXX shared module ../../../../rdkit/Chem/Scaffolds/rdScaffoldNetwork.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ScaffoldNetwork/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdScaffoldNetwork.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/Scaffolds/rdScaffoldNetwork.so CMakeFiles/rdScaffoldNetwork.dir/rdScaffoldNetwork.cpp.o ../../../../lib/libRDKitScaffoldNetwork.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitMolStandardize.so.1.2023.09.3 ../../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target rdScaffoldNetwork make -f Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SubstructLibrary/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [100%] Building CXX object Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/rdSubstructLibrary.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSubstructLibrary_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/rdSubstructLibrary.cpp.o -MF CMakeFiles/rdSubstructLibrary.dir/rdSubstructLibrary.cpp.o.d -o CMakeFiles/rdSubstructLibrary.dir/rdSubstructLibrary.cpp.o -c /<>/Code/GraphMol/SubstructLibrary/Wrap/rdSubstructLibrary.cpp [100%] Linking CXX executable testScaffoldNetwork cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ScaffoldNetwork && /usr/bin/cmake -E cmake_link_script CMakeFiles/testScaffoldNetwork.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testScaffoldNetwork.dir/catch_tests.cpp.o -o testScaffoldNetwork ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitScaffoldNetwork.so.1.2023.09.3 /usr/lib/libCatch2.a ../../../lib/libRDKitMolStandardize.so.1.2023.09.3 ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target testScaffoldNetwork make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/RGroupDecomposition /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [100%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/testRGroupDecomp.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/testRGroupDecomp.cpp.o -MF CMakeFiles/testRGroupDecomp.dir/testRGroupDecomp.cpp.o.d -o CMakeFiles/testRGroupDecomp.dir/testRGroupDecomp.cpp.o -c /<>/Code/GraphMol/RGroupDecomposition/testRGroupDecomp.cpp [100%] Building CXX object Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/SubstructLibraryWrap.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSubstructLibrary_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/SubstructLibraryWrap.cpp.o -MF CMakeFiles/rdSubstructLibrary.dir/SubstructLibraryWrap.cpp.o.d -o CMakeFiles/rdSubstructLibrary.dir/SubstructLibraryWrap.cpp.o -c /<>/Code/GraphMol/SubstructLibrary/Wrap/SubstructLibraryWrap.cpp In file included from /usr/include/boost/python/override.hpp:13, from /usr/include/boost/python/wrapper.hpp:8, from /usr/include/boost/python/object/value_holder.hpp:15, from /usr/include/boost/python/object/class_metadata.hpp:14, from /usr/include/boost/python/class.hpp:23, from /usr/include/boost/python/suite/indexing/indexing_suite.hpp:9, from /usr/include/boost/python/suite/indexing/map_indexing_suite.hpp:9, from /<>/Code/GraphMol/MolStandardize/Wrap/Tautomer.cpp:11: In member function ‘boost::python::converter::extract_rvalue::result_type boost::python::converter::extract_rvalue::operator()() const [with T = int]’, inlined from ‘boost::python::extract::operator result_type() const [with T = int]’ at /usr/include/boost/python/extract.hpp:136:23, inlined from ‘int {anonymous}::pyobjFunctor::operator()(const RDKit::ROMol&)’ at /<>/Code/GraphMol/MolStandardize/Wrap/Tautomer.cpp:218:20, inlined from ‘static R boost::detail::function::function_obj_invoker1::invoke(boost::detail::function::function_buffer&, T0) [with FunctionObj = {anonymous}::pyobjFunctor; R = int; T0 = const RDKit::ROMol&]’ at /usr/include/boost/function/function_template.hpp:137:22: /usr/include/boost/python/extract.hpp:185:11: warning: ‘*(int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 185 | ); | ^ /<>/Code/GraphMol/MolStandardize/Wrap/Tautomer.cpp: In static member function ‘static R boost::detail::function::function_obj_invoker1::invoke(boost::detail::function::function_buffer&, T0) [with FunctionObj = {anonymous}::pyobjFunctor; R = int; T0 = const RDKit::ROMol&]’: /<>/Code/GraphMol/MolStandardize/Wrap/Tautomer.cpp:218:54: note: ‘’ declared here 218 | return python::extract(dp_obj(boost::ref(m))); | ^ [100%] Linking CXX shared module ../../../../rdkit/Chem/MolStandardize/rdMolStandardize.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolStandardize.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/MolStandardize/rdMolStandardize.so CMakeFiles/rdMolStandardize.dir/rdMolStandardize.cpp.o CMakeFiles/rdMolStandardize.dir/Validate.cpp.o CMakeFiles/rdMolStandardize.dir/Charge.cpp.o CMakeFiles/rdMolStandardize.dir/Fragment.cpp.o CMakeFiles/rdMolStandardize.dir/Normalize.cpp.o CMakeFiles/rdMolStandardize.dir/Metal.cpp.o CMakeFiles/rdMolStandardize.dir/Tautomer.cpp.o ../../../../lib/libRDKitMolStandardize.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../../lib/libRDKitGenericGroups.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target rdMolStandardize make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecompInternals.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecompInternals.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/RGroupDecomposition /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecompInternals.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecompInternals.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecompInternals.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [100%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecompInternals.dir/testRGroupInternals.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecompInternals.dir/testRGroupInternals.cpp.o -MF CMakeFiles/testRGroupDecompInternals.dir/testRGroupInternals.cpp.o.d -o CMakeFiles/testRGroupDecompInternals.dir/testRGroupInternals.cpp.o -c /<>/Code/GraphMol/RGroupDecomposition/testRGroupInternals.cpp [100%] Linking CXX executable substructLibraryCatchTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary && /usr/bin/cmake -E cmake_link_script CMakeFiles/substructLibraryCatchTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/substructLibraryCatchTest.dir/catch_tests.cpp.o -o substructLibraryCatchTest ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitSubstructLibrary.so.1.2023.09.3 /usr/lib/libCatch2.a ../../../lib/libRDKitGeneralizedSubstruct.so.1.2023.09.3 ../../../lib/libRDKitMolEnumerator.so.1.2023.09.3 ../../../lib/libRDKitTautomerQuery.so.1.2023.09.3 ../../../lib/libRDKitMolStandardize.so.1.2023.09.3 ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target substructLibraryCatchTest make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/rgroupCatchTests.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/rgroupCatchTests.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/RGroupDecomposition /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition/CMakeFiles/rgroupCatchTests.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/rgroupCatchTests.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/rgroupCatchTests.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [100%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/rgroupCatchTests.dir/catch_rgd.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -MD -MT Code/GraphMol/RGroupDecomposition/CMakeFiles/rgroupCatchTests.dir/catch_rgd.cpp.o -MF CMakeFiles/rgroupCatchTests.dir/catch_rgd.cpp.o.d -o CMakeFiles/rgroupCatchTests.dir/catch_rgd.cpp.o -c /<>/Code/GraphMol/RGroupDecomposition/catch_rgd.cpp In file included from /usr/include/c++/13/vector:72, from /<>/Code/RDGeneral/RDLog.h:22, from /<>/Code/GraphMol/RGroupDecomposition/testRGroupDecomp.cpp:32: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [100%] Linking CXX executable testRGroupDecompInternals cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition && /usr/bin/cmake -E cmake_link_script CMakeFiles/testRGroupDecompInternals.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testRGroupDecompInternals.dir/testRGroupInternals.cpp.o -o testRGroupDecompInternals ../../../lib/libRDKitRGroupDecomposition.so.1.2023.09.3 ../../../lib/libRDKitFMCS.so.1.2023.09.3 ../../../lib/libRDKitga.so.1.2023.09.3 ../../../lib/libRDKitMolEnumerator.so.1.2023.09.3 ../../../lib/libRDKitTautomerQuery.so.1.2023.09.3 ../../../lib/libRDKitMolStandardize.so.1.2023.09.3 ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target testRGroupDecompInternals make -f Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/RGroupDecomposition/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [100%] Building CXX object Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/rdRGroupComposition.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdRGroupDecomposition_EXPORTS -I/<>/External -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++17 -fPIC -MD -MT Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/rdRGroupComposition.cpp.o -MF CMakeFiles/rdRGroupDecomposition.dir/rdRGroupComposition.cpp.o.d -o CMakeFiles/rdRGroupDecomposition.dir/rdRGroupComposition.cpp.o -c /<>/Code/GraphMol/RGroupDecomposition/Wrap/rdRGroupComposition.cpp In file included from /<>/Code/GraphMol/SubstructLibrary/Wrap/SubstructLibraryWrap.cpp:36: /<>/Code/RDBoost/python_streambuf.h: In constructor ‘boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)’: /<>/Code/RDBoost/python_streambuf.h:185:56: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 185 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:185:56: note: ‘’ declared here 185 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:155:58: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 155 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:155:58: note: ‘’ declared here 155 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h: In member function ‘virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(off_type, std::ios_base::seekdir, std::ios_base::openmode)’: /<>/Code/RDBoost/python_streambuf.h:420:16: warning: ‘*(const long long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 420 | result = off_type(bp::extract(py_tell())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/Code/RDBoost/python_streambuf.h:420:56: note: ‘’ declared here 420 | result = off_type(bp::extract(py_tell())); | ^ [100%] Linking CXX executable rgroupCatchTests cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition && /usr/bin/cmake -E cmake_link_script CMakeFiles/rgroupCatchTests.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/rgroupCatchTests.dir/catch_rgd.cpp.o -o rgroupCatchTests ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitRGroupDecomposition.so.1.2023.09.3 /usr/lib/libCatch2.a ../../../lib/libRDKitFMCS.so.1.2023.09.3 ../../../lib/libRDKitga.so.1.2023.09.3 ../../../lib/libRDKitMolEnumerator.so.1.2023.09.3 ../../../lib/libRDKitTautomerQuery.so.1.2023.09.3 ../../../lib/libRDKitMolStandardize.so.1.2023.09.3 ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target rgroupCatchTests [100%] Linking CXX executable testRGroupDecomp cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition && /usr/bin/cmake -E cmake_link_script CMakeFiles/testRGroupDecomp.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now CMakeFiles/testRGroupDecomp.dir/testRGroupDecomp.cpp.o -o testRGroupDecomp ../../../lib/libRDKitRGroupDecomposition.so.1.2023.09.3 ../../../lib/libRDKitFMCS.so.1.2023.09.3 ../../../lib/libRDKitga.so.1.2023.09.3 ../../../lib/libRDKitMolEnumerator.so.1.2023.09.3 ../../../lib/libRDKitTautomerQuery.so.1.2023.09.3 ../../../lib/libRDKitMolStandardize.so.1.2023.09.3 ../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../lib/libRDKitGenericGroups.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../lib/libRDKitDataStructs.so.1.2023.09.3 ../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target testRGroupDecomp In file included from /usr/include/boost/python/object/make_ptr_instance.hpp:8, from /usr/include/boost/python/to_python_indirect.hpp:11, from /usr/include/boost/python/converter/arg_to_python.hpp:10, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/GraphMol/RGroupDecomposition/Wrap/rdRGroupComposition.cpp:34: /usr/include/boost/python/object/make_instance.hpp: In static member function ‘static Holder* boost::python::objects::make_instance::construct(void*, PyObject*, boost::reference_wrapper) [with T = RDKit::RGroupDecompositionParameters; Holder = boost::python::objects::value_holder]’: /usr/include/boost/python/object/make_instance.hpp:73:27: note: parameter passing for argument of type ‘boost::reference_wrapper’ changed in GCC 7.1 73 | static inline Holder* construct(void* storage, PyObject* instance, reference_wrapper x) | ^~~~~~~~~ [100%] Linking CXX shared module ../../../../rdkit/Chem/rdRGroupDecomposition.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdRGroupDecomposition.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdRGroupDecomposition.so CMakeFiles/rdRGroupDecomposition.dir/rdRGroupComposition.cpp.o ../../../../lib/libRDKitRGroupDecomposition.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitFMCS.so.1.2023.09.3 ../../../../lib/libRDKitga.so.1.2023.09.3 ../../../../lib/libRDKitMolEnumerator.so.1.2023.09.3 ../../../../lib/libRDKitTautomerQuery.so.1.2023.09.3 ../../../../lib/libRDKitMolStandardize.so.1.2023.09.3 ../../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../../lib/libRDKitAlignment.so.1.2023.09.3 ../../../../lib/libRDKitGenericGroups.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target rdRGroupDecomposition [100%] Linking CXX shared module ../../../../rdkit/Chem/rdSubstructLibrary.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdSubstructLibrary.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdSubstructLibrary.so CMakeFiles/rdSubstructLibrary.dir/rdSubstructLibrary.cpp.o CMakeFiles/rdSubstructLibrary.dir/SubstructLibraryWrap.cpp.o ../../../../lib/libRDKitSubstructLibrary.so.1.2023.09.3 ../../../../lib/libRDKitRDBoost.so.1.2023.09.3 ../../../../lib/libRDKitGeneralizedSubstruct.so.1.2023.09.3 ../../../../lib/libRDKitMolEnumerator.so.1.2023.09.3 ../../../../lib/libRDKitTautomerQuery.so.1.2023.09.3 ../../../../lib/libRDKitMolStandardize.so.1.2023.09.3 ../../../../lib/libRDKitChemReactions.so.1.2023.09.3 ../../../../lib/libRDKitFilterCatalog.so.1.2023.09.3 ../../../../lib/libRDKitDescriptors.so.1.2023.09.3 ../../../../lib/libRDKitFileParsers.so.1.2023.09.3 ../../../../lib/libRDKitChemTransforms.so.1.2023.09.3 ../../../../lib/libRDKitDepictor.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libcoordgen.so ../../../../lib/libRDKitMolAlign.so.1.2023.09.3 ../../../../lib/libRDKitAlignment.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libmaeparser.so ../../../../lib/libRDKitPartialCharges.so.1.2023.09.3 ../../../../lib/libRDKitMolTransforms.so.1.2023.09.3 ../../../../lib/libRDKitEigenSolvers.so.1.2023.09.3 ../../../../lib/libRDKitFingerprints.so.1.2023.09.3 ../../../../lib/libRDKitSubgraphs.so.1.2023.09.3 ../../../../lib/libRDKitSubstructMatch.so.1.2023.09.3 ../../../../lib/libRDKitGenericGroups.so.1.2023.09.3 ../../../../lib/libRDKitSmilesParse.so.1.2023.09.3 ../../../../lib/libRDKitGraphMol.so.1.2023.09.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2023.09.3 ../../../../lib/libRDKitCatalogs.so.1.2023.09.3 ../../../../lib/libRDKitDataStructs.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so ../../../../lib/libRDKitRDGeneral.so.1.2023.09.3 /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_serialization.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so -ldl make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target rdSubstructLibrary make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' /usr/bin/cmake -E cmake_progress_start /<>/obj-arm-linux-gnueabihf/CMakeFiles 0 make[2]: Leaving directory '/<>/obj-arm-linux-gnueabihf' STATIC_LINK=0 RDKIT_LIBDIR=/<>/obj-arm-linux-gnueabihf//lib pg_buildext build /<>/Code/PgSQL/rdkit build-%v ### PostgreSQL 16 build ### make[2]: Entering directory '/<>/build-16' gcc -Wall -Wmissing-prototypes -Wpointer-arith -Wdeclaration-after-statement -Werror=vla -Wendif-labels -Wmissing-format-attribute -Wimplicit-fallthrough=3 -Wcast-function-type -Wshadow=compatible-local -Wformat-security -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-format-truncation -Wno-stringop-truncation -g -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -DSTAP_SDT_ARG_CONSTRAINT=g -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -fvisibility=hidden -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -DRDK_TOOLKIT_VERSION='"2022.09.01"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/16/server -I/usr/include/postgresql/internal -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_GNU_SOURCE -I/usr/include/libxml2 -fPIC -c -o rdkit_io.o /<>/Code/PgSQL/rdkit/rdkit_io.c gcc -Wall -Wmissing-prototypes -Wpointer-arith -Wdeclaration-after-statement -Werror=vla -Wendif-labels -Wmissing-format-attribute -Wimplicit-fallthrough=3 -Wcast-function-type -Wshadow=compatible-local -Wformat-security -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-format-truncation -Wno-stringop-truncation -g -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -DSTAP_SDT_ARG_CONSTRAINT=g -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -fvisibility=hidden -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -DRDK_TOOLKIT_VERSION='"2022.09.01"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/16/server -I/usr/include/postgresql/internal -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_GNU_SOURCE -I/usr/include/libxml2 -fPIC -c -o mol_op.o /<>/Code/PgSQL/rdkit/mol_op.c /<>/Code/PgSQL/rdkit/mol_op.c: In function ‘mol_murckoscaffold’: /<>/Code/PgSQL/rdkit/mol_op.c:406:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 406 | CROMol scaffold = MolMurckoScaffold(mol); | ^~~~~~ /<>/Code/PgSQL/rdkit/mol_op.c: In function ‘mol_nm_hash’: /<>/Code/PgSQL/rdkit/mol_op.c:426:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 426 | char *str = computeNMMolHash(mol, opts); | ^~~~ /<>/Code/PgSQL/rdkit/mol_op.c:428:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 428 | char *res = pnstrdup(str, strlen(str)); | ^~~~ /<>/Code/PgSQL/rdkit/mol_op.c:421:7: warning: unused variable ‘len’ [-Wunused-variable] 421 | int len; | ^~~ /<>/Code/PgSQL/rdkit/mol_op.c: In function ‘mol_adjust_query_properties’: /<>/Code/PgSQL/rdkit/mol_op.c:441:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 441 | char *data = PG_GETARG_CSTRING(1); | ^~~~ /<>/Code/PgSQL/rdkit/mol_op.c:447:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 447 | Mol *res = deconstructROMolWithQueryProperties(adj); | ^~~ /<>/Code/PgSQL/rdkit/mol_op.c: In function ‘mol_to_svg’: /<>/Code/PgSQL/rdkit/mol_op.c:462:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 462 | char *legend = PG_GETARG_CSTRING(1); | ^~~~ /<>/Code/PgSQL/rdkit/mol_op.c: In function ‘mol_to_xqmol’: /<>/Code/PgSQL/rdkit/mol_op.c:482:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 482 | bool doEnumeration = PG_GETARG_BOOL(1); | ^~~~ /<>/Code/PgSQL/rdkit/mol_op.c:493:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 493 | XQMol *res = deconstructXQMol(xqm); | ^~~~~ /<>/Code/PgSQL/rdkit/mol_op.c: In function ‘fmcs_smiles’: /<>/Code/PgSQL/rdkit/mol_op.c:512:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 512 | char *res = pnstrdup(str, strlen(str)); | ^~~~ /<>/Code/PgSQL/rdkit/mol_op.c: In function ‘fmcs_mol2s_transition’: /<>/Code/PgSQL/rdkit/mol_op.c:580:5: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 580 | text *ts = (text *)palloc(ts_size); // new return value | ^~~~ /<>/Code/PgSQL/rdkit/mol_op.c:600:5: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 600 | char *smiles = makeMolText(mol, &len, false, false); | ^~~~ /<>/Code/PgSQL/rdkit/mol_op.c: In function ‘fmcs_mols’: /<>/Code/PgSQL/rdkit/mol_op.c:638:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 638 | int32 ts_size = VARHDRSZ + strlen(str); | ^~~~~ /<>/Code/PgSQL/rdkit/mol_op.c: In function ‘fmcs_smiles_transition’: /<>/Code/PgSQL/rdkit/mol_op.c:544:1: warning: control reaches end of non-void function [-Wreturn-type] 544 | } | ^ /<>/Code/PgSQL/rdkit/mol_op.c: In function ‘fmcs_mol_transition’: /<>/Code/PgSQL/rdkit/mol_op.c:679:1: warning: control reaches end of non-void function [-Wreturn-type] 679 | } | ^ gcc -Wall -Wmissing-prototypes -Wpointer-arith -Wdeclaration-after-statement -Werror=vla -Wendif-labels -Wmissing-format-attribute -Wimplicit-fallthrough=3 -Wcast-function-type -Wshadow=compatible-local -Wformat-security -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-format-truncation -Wno-stringop-truncation -g -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -DSTAP_SDT_ARG_CONSTRAINT=g -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -fvisibility=hidden -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -DRDK_TOOLKIT_VERSION='"2022.09.01"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/16/server -I/usr/include/postgresql/internal -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_GNU_SOURCE -I/usr/include/libxml2 -fPIC -c -o bfp_op.o /<>/Code/PgSQL/rdkit/bfp_op.c gcc -Wall -Wmissing-prototypes -Wpointer-arith -Wdeclaration-after-statement -Werror=vla -Wendif-labels -Wmissing-format-attribute -Wimplicit-fallthrough=3 -Wcast-function-type -Wshadow=compatible-local -Wformat-security -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-format-truncation -Wno-stringop-truncation -g -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -DSTAP_SDT_ARG_CONSTRAINT=g -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -fvisibility=hidden -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -DRDK_TOOLKIT_VERSION='"2022.09.01"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/16/server -I/usr/include/postgresql/internal -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_GNU_SOURCE -I/usr/include/libxml2 -fPIC -c -o sfp_op.o /<>/Code/PgSQL/rdkit/sfp_op.c gcc -Wall -Wmissing-prototypes -Wpointer-arith -Wdeclaration-after-statement -Werror=vla -Wendif-labels -Wmissing-format-attribute -Wimplicit-fallthrough=3 -Wcast-function-type -Wshadow=compatible-local -Wformat-security -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-format-truncation -Wno-stringop-truncation -g -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -DSTAP_SDT_ARG_CONSTRAINT=g -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -fvisibility=hidden -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -DRDK_TOOLKIT_VERSION='"2022.09.01"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/16/server -I/usr/include/postgresql/internal -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_GNU_SOURCE -I/usr/include/libxml2 -fPIC -c -o rxn_op.o /<>/Code/PgSQL/rdkit/rxn_op.c /<>/Code/PgSQL/rdkit/rxn_op.c:134:3: warning: multi-line comment [-Wcomment] 134 | // /* keep compiler quiet - no extra ; */ \ | ^ /<>/Code/PgSQL/rdkit/rxn_op.c: In function ‘reaction_to_svg’: /<>/Code/PgSQL/rdkit/rxn_op.c:149:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 149 | bool highlightByReactants = PG_GETARG_BOOL(1); | ^~~~ gcc -Wall -Wmissing-prototypes -Wpointer-arith -Wdeclaration-after-statement -Werror=vla -Wendif-labels -Wmissing-format-attribute -Wimplicit-fallthrough=3 -Wcast-function-type -Wshadow=compatible-local -Wformat-security -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-format-truncation -Wno-stringop-truncation -g -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -DSTAP_SDT_ARG_CONSTRAINT=g -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -fvisibility=hidden -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -DRDK_TOOLKIT_VERSION='"2022.09.01"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/16/server -I/usr/include/postgresql/internal -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_GNU_SOURCE -I/usr/include/libxml2 -fPIC -c -o rdkit_gist.o /<>/Code/PgSQL/rdkit/rdkit_gist.c /<>/Code/PgSQL/rdkit/rdkit_gist.c: In function ‘soergeldistsign’: /<>/Code/PgSQL/rdkit/rdkit_gist.c:219:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 219 | uint8 *as = (uint8 *)VARDATA(a); | ^~~~~ /<>/Code/PgSQL/rdkit/rdkit_gist.c: In function ‘soergeldist’: /<>/Code/PgSQL/rdkit/rdkit_gist.c:238:10: warning: unused variable ‘d’ [-Wunused-variable] 238 | double d; | ^ /<>/Code/PgSQL/rdkit/rdkit_gist.c: In function ‘gmol_consistent’: /<>/Code/PgSQL/rdkit/rdkit_gist.c:484:9: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 484 | uint8 *k = (uint8 *)VARDATA(key); | ^~~~~ /<>/Code/PgSQL/rdkit/rdkit_gist.c:496:9: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 496 | uint8 *k = (uint8 *)VARDATA(key); | ^~~~~ /<>/Code/PgSQL/rdkit/rdkit_gist.c:526:9: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 526 | uint8 *k = (uint8 *)VARDATA(key); | ^~~~~ /<>/Code/PgSQL/rdkit/rdkit_gist.c: In function ‘gmol_cmp’: /<>/Code/PgSQL/rdkit/rdkit_gist.c:555:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 555 | int siglen = SIGLEN(a); | ^~~ In file included from /<>/Code/PgSQL/rdkit/rdkit.h:44, from /<>/Code/PgSQL/rdkit/rdkit_gist.c:40: /usr/include/postgresql/16/server/varatt.h:244:68: warning: pointer targets in passing argument 2 of ‘bitstringGrayCmp’ differ in signedness [-Wpointer-sign] 244 | #define VARDATA_4B(PTR) (((varattrib_4b *) (PTR))->va_4byte.va_data) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ | | | char * /usr/include/postgresql/16/server/varatt.h:278:65: note: in expansion of macro ‘VARDATA_4B’ 278 | #define VARDATA(PTR) VARDATA_4B(PTR) | ^~~~~~~~~~ /<>/Code/PgSQL/rdkit/rdkit_gist.c:558:41: note: in expansion of macro ‘VARDATA’ 558 | int retval = bitstringGrayCmp(siglen, VARDATA(a), VARDATA(b)); | ^~~~~~~ In file included from /<>/Code/PgSQL/rdkit/rdkit_gist.c:43: /<>/Code/PgSQL/rdkit/bitstring.h:60:41: note: expected ‘uint8 *’ {aka ‘unsigned char *’} but argument is of type ‘char *’ 60 | int bitstringGrayCmp(int length, uint8 *bstr1, uint8 *bstr2); | ~~~~~~~^~~~~ /usr/include/postgresql/16/server/varatt.h:244:68: warning: pointer targets in passing argument 3 of ‘bitstringGrayCmp’ differ in signedness [-Wpointer-sign] 244 | #define VARDATA_4B(PTR) (((varattrib_4b *) (PTR))->va_4byte.va_data) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ | | | char * /usr/include/postgresql/16/server/varatt.h:278:65: note: in expansion of macro ‘VARDATA_4B’ 278 | #define VARDATA(PTR) VARDATA_4B(PTR) | ^~~~~~~~~~ /<>/Code/PgSQL/rdkit/rdkit_gist.c:558:53: note: in expansion of macro ‘VARDATA’ 558 | int retval = bitstringGrayCmp(siglen, VARDATA(a), VARDATA(b)); | ^~~~~~~ /<>/Code/PgSQL/rdkit/bitstring.h:60:55: note: expected ‘uint8 *’ {aka ‘unsigned char *’} but argument is of type ‘char *’ 60 | int bitstringGrayCmp(int length, uint8 *bstr1, uint8 *bstr2); | ~~~~~~~^~~~~ /<>/Code/PgSQL/rdkit/rdkit_gist.c:558:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 558 | int retval = bitstringGrayCmp(siglen, VARDATA(a), VARDATA(b)); | ^~~ /<>/Code/PgSQL/rdkit/rdkit_gist.c: In function ‘rdkit_consistent’: /<>/Code/PgSQL/rdkit/rdkit_gist.c:643:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 643 | int siglen = SIGLEN(query); | ^~~ /<>/Code/PgSQL/rdkit/rdkit_gist.c:657:5: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 657 | uint8 *k = (uint8 *)VARDATA(key); | ^~~~~ /<>/Code/PgSQL/rdkit/rdkit_gist.c: In function ‘gsfp_consistent’: /<>/Code/PgSQL/rdkit/rdkit_gist.c:689:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 689 | int sum, overlapSum, overlapN; | ^~~ /<>/Code/PgSQL/rdkit/rdkit_gist.c:693:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 693 | int nKey = (ISALLTRUE(key)) | ^~~ /<>/Code/PgSQL/rdkit/rdkit_gist.c: In function ‘greaction_consistent’: /<>/Code/PgSQL/rdkit/rdkit_gist.c:757:9: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 757 | uint8 *k = (uint8 *)VARDATA(key); | ^~~~~ /<>/Code/PgSQL/rdkit/rdkit_gist.c:774:9: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 774 | uint8 *k = (uint8 *)VARDATA(key); | ^~~~~ /<>/Code/PgSQL/rdkit/rdkit_gist.c:800:9: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 800 | uint8 *k = (uint8 *)VARDATA(key); | ^~~~~ /<>/Code/PgSQL/rdkit/rdkit_gist.c: At top level: /<>/Code/PgSQL/rdkit/rdkit_gist.c:631:13: warning: ‘rdkit_consistent’ defined but not used [-Wunused-function] 631 | static bool rdkit_consistent(GISTENTRY *entry, StrategyNumber strategy, | ^~~~~~~~~~~~~~~~ /<>/Code/PgSQL/rdkit/rdkit_gist.c:237:12: warning: ‘soergeldist’ defined but not used [-Wunused-function] 237 | static int soergeldist(bytea *a, bytea *b) { | ^~~~~~~~~~~ gcc -Wall -Wmissing-prototypes -Wpointer-arith -Wdeclaration-after-statement -Werror=vla -Wendif-labels -Wmissing-format-attribute -Wimplicit-fallthrough=3 -Wcast-function-type -Wshadow=compatible-local -Wformat-security -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-format-truncation -Wno-stringop-truncation -g -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -DSTAP_SDT_ARG_CONSTRAINT=g -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -fvisibility=hidden -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -DRDK_TOOLKIT_VERSION='"2022.09.01"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/16/server -I/usr/include/postgresql/internal -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_GNU_SOURCE -I/usr/include/libxml2 -fPIC -c -o bfp_gist.o /<>/Code/PgSQL/rdkit/bfp_gist.c /<>/Code/PgSQL/rdkit/bfp_gist.c: In function ‘gbfp_cmp’: /<>/Code/PgSQL/rdkit/bfp_gist.c:659:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 659 | GBfp *gbfp2 = (GBfp *)PG_DETOAST_DATUM(y); | ^~~~ /<>/Code/PgSQL/rdkit/bfp_gist.c:662:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 662 | int siglen = GBFP_LEAF_SIGLEN(gbfp1); | ^~~ /<>/Code/PgSQL/rdkit/bfp_gist.c:665:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 665 | int retval = bitstringGrayCmp(siglen, GET_LEAF_DATA(gbfp1)->fp, GET_LEAF_DATA(gbfp2)->fp); | ^~~ /<>/Code/PgSQL/rdkit/bfp_gist.c: In function ‘merge_key’: /<>/Code/PgSQL/rdkit/bfp_gist.c:689:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 689 | int siglen = GBFP_INNER_SIGLEN(result); | ^~~ gcc -Wall -Wmissing-prototypes -Wpointer-arith -Wdeclaration-after-statement -Werror=vla -Wendif-labels -Wmissing-format-attribute -Wimplicit-fallthrough=3 -Wcast-function-type -Wshadow=compatible-local -Wformat-security -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-format-truncation -Wno-stringop-truncation -g -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -DSTAP_SDT_ARG_CONSTRAINT=g -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -fvisibility=hidden -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -DRDK_TOOLKIT_VERSION='"2022.09.01"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/16/server -I/usr/include/postgresql/internal -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_GNU_SOURCE -I/usr/include/libxml2 -fPIC -c -o bfp_gin.o /<>/Code/PgSQL/rdkit/bfp_gin.c gcc -Wall -Wmissing-prototypes -Wpointer-arith -Wdeclaration-after-statement -Werror=vla -Wendif-labels -Wmissing-format-attribute -Wimplicit-fallthrough=3 -Wcast-function-type -Wshadow=compatible-local -Wformat-security -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-format-truncation -Wno-stringop-truncation -g -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -DSTAP_SDT_ARG_CONSTRAINT=g -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -fvisibility=hidden -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -DRDK_TOOLKIT_VERSION='"2022.09.01"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/16/server -I/usr/include/postgresql/internal -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_GNU_SOURCE -I/usr/include/libxml2 -fPIC -c -o low_gist.o /<>/Code/PgSQL/rdkit/low_gist.c gcc -Wall -Wmissing-prototypes -Wpointer-arith -Wdeclaration-after-statement -Werror=vla -Wendif-labels -Wmissing-format-attribute -Wimplicit-fallthrough=3 -Wcast-function-type -Wshadow=compatible-local -Wformat-security -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-format-truncation -Wno-stringop-truncation -g -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -DSTAP_SDT_ARG_CONSTRAINT=g -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -fvisibility=hidden -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -DRDK_TOOLKIT_VERSION='"2022.09.01"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/16/server -I/usr/include/postgresql/internal -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_GNU_SOURCE -I/usr/include/libxml2 -fPIC -c -o guc.o /<>/Code/PgSQL/rdkit/guc.c gcc -Wall -Wmissing-prototypes -Wpointer-arith -Wdeclaration-after-statement -Werror=vla -Wendif-labels -Wmissing-format-attribute -Wimplicit-fallthrough=3 -Wcast-function-type -Wshadow=compatible-local -Wformat-security -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-format-truncation -Wno-stringop-truncation -g -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -DSTAP_SDT_ARG_CONSTRAINT=g -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -fvisibility=hidden -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -DRDK_TOOLKIT_VERSION='"2022.09.01"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/16/server -I/usr/include/postgresql/internal -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_GNU_SOURCE -I/usr/include/libxml2 -fPIC -c -o cache.o /<>/Code/PgSQL/rdkit/cache.c g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wno-unused-function -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -DRDK_TOOLKIT_VERSION='"2022.09.01"' -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -DRDK_TOOLKIT_VERSION='"2022.09.01"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/16/server -I/usr/include/postgresql/internal -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_GNU_SOURCE -I/usr/include/libxml2 -fPIC -c -o adapter.o /<>/Code/PgSQL/rdkit/adapter.cpp gcc -Wall -Wmissing-prototypes -Wpointer-arith -Wdeclaration-after-statement -Werror=vla -Wendif-labels -Wmissing-format-attribute -Wimplicit-fallthrough=3 -Wcast-function-type -Wshadow=compatible-local -Wformat-security -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-format-truncation -Wno-stringop-truncation -g -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -DSTAP_SDT_ARG_CONSTRAINT=g -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -fvisibility=hidden -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -DRDK_TOOLKIT_VERSION='"2022.09.01"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/16/server -I/usr/include/postgresql/internal -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_GNU_SOURCE -I/usr/include/libxml2 -fPIC -c -o bitstring.o /<>/Code/PgSQL/rdkit/bitstring.c /<>/Code/PgSQL/rdkit/bitstring.c: In function ‘bitstringUnion’: /<>/Code/PgSQL/rdkit/bitstring.c:64:7: warning: unused variable ‘i’ [-Wunused-variable] 64 | int i; | ^ /<>/Code/PgSQL/rdkit/bitstring.c: In function ‘bitstringIntersection’: /<>/Code/PgSQL/rdkit/bitstring.c:96:7: warning: unused variable ‘i’ [-Wunused-variable] 96 | int i; | ^ g++ -Wall -Wmissing-prototypes -Wpointer-arith -Wdeclaration-after-statement -Werror=vla -Wendif-labels -Wmissing-format-attribute -Wimplicit-fallthrough=3 -Wcast-function-type -Wshadow=compatible-local -Wformat-security -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-format-truncation -Wno-stringop-truncation -g -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -DSTAP_SDT_ARG_CONSTRAINT=g -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -fvisibility=hidden -shared -o rdkit.so rdkit_io.o mol_op.o bfp_op.o sfp_op.o rxn_op.o rdkit_gist.o bfp_gist.o bfp_gin.o low_gist.o guc.o cache.o adapter.o bitstring.o -L/usr/lib/arm-linux-gnueabihf -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -L/usr/lib/llvm-17/lib -Wl,--as-needed -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/rdkit-202309.3-3build1 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -fvisibility=hidden -L/<>/obj-arm-linux-gnueabihf//lib -lRDKitGeneralizedSubstruct -lRDKitMolEnumerator -lRDKitTautomerQuery -lRDKitMolDraw2D -lRDKitMolTransforms -lRDKitMolHash -lRDKitFMCS -lRDKitChemReactions -lRDKitChemTransforms -lRDKitFileParsers -lRDKitSmilesParse -lRDKitFingerprints -lRDKitSubgraphs -lRDKitDescriptors -lRDKitPartialCharges -lRDKitSubstructMatch -lRDKitGraphMol -lRDKitEigenSolvers -lRDKitDataStructs -lRDKitDepictor -lRDKitRDGeometryLib -lRDKitRDGeneral -pthread sed -e's/@RDKIT_PG_MOL_GIST_SORTSUPPORT@/FUNCTION 11 gmol_sortsupport (internal),/' \ -e's/@RDKIT_PG_QMOL_GIST_SORTSUPPORT@/FUNCTION 11 gmol_sortsupport (internal),/' \ -e's/@RDKIT_PG_BFP_GIST_SORTSUPPORT@/FUNCTION 11 gbfp_sortsupport (internal),/' \ /<>/Code/PgSQL/rdkit/rdkit.sql.in > rdkit--4.4.0.sql /usr/bin/clang-17 -Wno-ignored-attributes -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-unused-command-line-argument -Wno-compound-token-split-by-macro -O2 -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -DRDK_TOOLKIT_VERSION='"2022.09.01"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/16/server -I/usr/include/postgresql/internal -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_GNU_SOURCE -I/usr/include/libxml2 -flto=thin -emit-llvm -c -o rdkit_io.bc /<>/Code/PgSQL/rdkit/rdkit_io.c /usr/bin/clang-17 -Wno-ignored-attributes -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-unused-command-line-argument -Wno-compound-token-split-by-macro -O2 -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -DRDK_TOOLKIT_VERSION='"2022.09.01"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/16/server -I/usr/include/postgresql/internal -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_GNU_SOURCE -I/usr/include/libxml2 -flto=thin -emit-llvm -c -o mol_op.bc /<>/Code/PgSQL/rdkit/mol_op.c /<>/Code/PgSQL/rdkit/mol_op.c:544:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] 544 | } | ^ /<>/Code/PgSQL/rdkit/mol_op.c:679:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] 679 | } | ^ 2 warnings generated. /usr/bin/clang-17 -Wno-ignored-attributes -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-unused-command-line-argument -Wno-compound-token-split-by-macro -O2 -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -DRDK_TOOLKIT_VERSION='"2022.09.01"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/16/server -I/usr/include/postgresql/internal -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_GNU_SOURCE -I/usr/include/libxml2 -flto=thin -emit-llvm -c -o bfp_op.bc /<>/Code/PgSQL/rdkit/bfp_op.c /usr/bin/clang-17 -Wno-ignored-attributes -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-unused-command-line-argument -Wno-compound-token-split-by-macro -O2 -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -DRDK_TOOLKIT_VERSION='"2022.09.01"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/16/server -I/usr/include/postgresql/internal -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_GNU_SOURCE -I/usr/include/libxml2 -flto=thin -emit-llvm -c -o sfp_op.bc /<>/Code/PgSQL/rdkit/sfp_op.c /usr/bin/clang-17 -Wno-ignored-attributes -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-unused-command-line-argument -Wno-compound-token-split-by-macro -O2 -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -DRDK_TOOLKIT_VERSION='"2022.09.01"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/16/server -I/usr/include/postgresql/internal -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_GNU_SOURCE -I/usr/include/libxml2 -flto=thin -emit-llvm -c -o rxn_op.bc /<>/Code/PgSQL/rdkit/rxn_op.c /<>/Code/PgSQL/rdkit/rxn_op.c:100:37: warning: passing arguments to 'ReactionSubstructFP' without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype] 100 | PG_RETURN_BOOL(ReactionSubstructFP(rxn, rxn2)); | ^ /<>/Code/PgSQL/rdkit/rxn_op.c:115:37: warning: passing arguments to 'ReactionSubstructFP' without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype] 115 | PG_RETURN_BOOL(ReactionSubstructFP(rxn2, rxn)); | ^ 2 warnings generated. /usr/bin/clang-17 -Wno-ignored-attributes -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-unused-command-line-argument -Wno-compound-token-split-by-macro -O2 -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -DRDK_TOOLKIT_VERSION='"2022.09.01"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/16/server -I/usr/include/postgresql/internal -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_GNU_SOURCE -I/usr/include/libxml2 -flto=thin -emit-llvm -c -o rdkit_gist.bc /<>/Code/PgSQL/rdkit/rdkit_gist.c /<>/Code/PgSQL/rdkit/rdkit_gist.c:558:41: warning: passing 'char[]' to parameter of type 'uint8 *' (aka 'unsigned char *') converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign] 558 | int retval = bitstringGrayCmp(siglen, VARDATA(a), VARDATA(b)); | ^~~~~~~~~~ /usr/include/postgresql/16/server/varatt.h:278:27: note: expanded from macro 'VARDATA' 278 | #define VARDATA(PTR) VARDATA_4B(PTR) | ^~~~~~~~~~~~~~~ /usr/include/postgresql/16/server/varatt.h:244:26: note: expanded from macro 'VARDATA_4B' 244 | #define VARDATA_4B(PTR) (((varattrib_4b *) (PTR))->va_4byte.va_data) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/Code/PgSQL/rdkit/bitstring.h:60:41: note: passing argument to parameter 'bstr1' here 60 | int bitstringGrayCmp(int length, uint8 *bstr1, uint8 *bstr2); | ^ /<>/Code/PgSQL/rdkit/rdkit_gist.c:558:53: warning: passing 'char[]' to parameter of type 'uint8 *' (aka 'unsigned char *') converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign] 558 | int retval = bitstringGrayCmp(siglen, VARDATA(a), VARDATA(b)); | ^~~~~~~~~~ /usr/include/postgresql/16/server/varatt.h:278:27: note: expanded from macro 'VARDATA' 278 | #define VARDATA(PTR) VARDATA_4B(PTR) | ^~~~~~~~~~~~~~~ /usr/include/postgresql/16/server/varatt.h:244:26: note: expanded from macro 'VARDATA_4B' 244 | #define VARDATA_4B(PTR) (((varattrib_4b *) (PTR))->va_4byte.va_data) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/Code/PgSQL/rdkit/bitstring.h:60:55: note: passing argument to parameter 'bstr2' here 60 | int bitstringGrayCmp(int length, uint8 *bstr1, uint8 *bstr2); | ^ 2 warnings generated. /usr/bin/clang-17 -Wno-ignored-attributes -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-unused-command-line-argument -Wno-compound-token-split-by-macro -O2 -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -DRDK_TOOLKIT_VERSION='"2022.09.01"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/16/server -I/usr/include/postgresql/internal -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_GNU_SOURCE -I/usr/include/libxml2 -flto=thin -emit-llvm -c -o bfp_gist.bc /<>/Code/PgSQL/rdkit/bfp_gist.c /usr/bin/clang-17 -Wno-ignored-attributes -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-unused-command-line-argument -Wno-compound-token-split-by-macro -O2 -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -DRDK_TOOLKIT_VERSION='"2022.09.01"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/16/server -I/usr/include/postgresql/internal -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_GNU_SOURCE -I/usr/include/libxml2 -flto=thin -emit-llvm -c -o bfp_gin.bc /<>/Code/PgSQL/rdkit/bfp_gin.c /usr/bin/clang-17 -Wno-ignored-attributes -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-unused-command-line-argument -Wno-compound-token-split-by-macro -O2 -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -DRDK_TOOLKIT_VERSION='"2022.09.01"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/16/server -I/usr/include/postgresql/internal -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_GNU_SOURCE -I/usr/include/libxml2 -flto=thin -emit-llvm -c -o low_gist.bc /<>/Code/PgSQL/rdkit/low_gist.c /usr/bin/clang-17 -Wno-ignored-attributes -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-unused-command-line-argument -Wno-compound-token-split-by-macro -O2 -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -DRDK_TOOLKIT_VERSION='"2022.09.01"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/16/server -I/usr/include/postgresql/internal -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_GNU_SOURCE -I/usr/include/libxml2 -flto=thin -emit-llvm -c -o guc.bc /<>/Code/PgSQL/rdkit/guc.c /usr/bin/clang-17 -Wno-ignored-attributes -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-unused-command-line-argument -Wno-compound-token-split-by-macro -O2 -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -DRDK_TOOLKIT_VERSION='"2022.09.01"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/16/server -I/usr/include/postgresql/internal -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_GNU_SOURCE -I/usr/include/libxml2 -flto=thin -emit-llvm -c -o cache.bc /<>/Code/PgSQL/rdkit/cache.c /usr/bin/clang-17 -std=c++17 -xc++ -Wno-ignored-attributes -fno-strict-aliasing -fwrapv -fexcess-precision=standard -O2 -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -DRDK_TOOLKIT_VERSION='"2022.09.01"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/16/server -I/usr/include/postgresql/internal -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_GNU_SOURCE -I/usr/include/libxml2 -emit-llvm -c -o adapter.bc /<>/Code/PgSQL/rdkit/adapter.cpp /usr/lib/llvm-17/bin/opt -module-summary -f adapter.bc -o adapter.bc /usr/bin/clang-17 -Wno-ignored-attributes -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-unused-command-line-argument -Wno-compound-token-split-by-macro -O2 -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -DRDK_TOOLKIT_VERSION='"2022.09.01"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/16/server -I/usr/include/postgresql/internal -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -D_GNU_SOURCE -I/usr/include/libxml2 -flto=thin -emit-llvm -c -o bitstring.bc /<>/Code/PgSQL/rdkit/bitstring.c make[2]: Leaving directory '/<>/build-16' ### End 16 build ### (cd /<>/Code; doxygen doxygen/doxygen.config) warning: Tag 'TCL_SUBST' at line 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Searching for files in directory /<>/Code/GraphMol Searching for files in directory /<>/Code/GraphMol/MolEnumerator Searching for files in directory /<>/Code/GraphMol/TautomerQuery Searching for files in directory /<>/Code/GraphMol/Substruct Searching for files in directory /<>/Code/GraphMol/CIPLabeler Searching for files in directory /<>/Code/GraphMol/CIPLabeler/rules Searching for files in directory /<>/Code/GraphMol/CIPLabeler/configs Searching for files in directory /<>/Code/GraphMol/SLNParse Searching for files in directory /<>/Code/GraphMol/FragCatalog Searching for files in directory /<>/Code/GraphMol/FMCS Searching for files in directory /<>/Code/GraphMol/FMCS/Test Searching for files in directory /<>/Code/GraphMol/SubstructLibrary Searching for files in directory /<>/Code/GraphMol/MolHash Searching for files in directory /<>/Code/GraphMol/Fingerprints Searching for files in directory /<>/Code/GraphMol/ChemReactions Searching for files in directory 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Parsing file /<>/Code/GraphMol/Abbreviations/Abbreviations.h... Preprocessing /<>/Code/GraphMol/Atom.h... Parsing file /<>/Code/GraphMol/Atom.h... Preprocessing /<>/Code/GraphMol/atomic_data.h... Parsing file /<>/Code/GraphMol/atomic_data.h... Preprocessing /<>/Code/GraphMol/AtomIterators.h... Parsing file /<>/Code/GraphMol/AtomIterators.h... Preprocessing /<>/Code/GraphMol/Bond.h... Parsing file /<>/Code/GraphMol/Bond.h... Preprocessing /<>/Code/GraphMol/BondIterators.h... Parsing file /<>/Code/GraphMol/BondIterators.h... Preprocessing /<>/Code/GraphMol/Canon.h... Parsing file /<>/Code/GraphMol/Canon.h... Preprocessing /<>/Code/GraphMol/ChemReactions/Enumerate/CartesianProduct.h... Parsing file /<>/Code/GraphMol/ChemReactions/Enumerate/CartesianProduct.h... Preprocessing /<>/Code/GraphMol/ChemReactions/Enumerate/Enumerate.h... Parsing file /<>/Code/GraphMol/ChemReactions/Enumerate/Enumerate.h... Preprocessing /<>/Code/GraphMol/ChemReactions/Enumerate/EnumerateBase.h... 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Preprocessing /<>/Code/GraphMol/Descriptors/ConnectivityDescriptors.h... Parsing file /<>/Code/GraphMol/Descriptors/ConnectivityDescriptors.h... Preprocessing /<>/Code/GraphMol/Descriptors/CoulombMat.h... Parsing file /<>/Code/GraphMol/Descriptors/CoulombMat.h... Preprocessing /<>/Code/GraphMol/Descriptors/Crippen.h... Parsing file /<>/Code/GraphMol/Descriptors/Crippen.h... Preprocessing /<>/Code/GraphMol/Descriptors/Data3Ddescriptors.h... Parsing file /<>/Code/GraphMol/Descriptors/Data3Ddescriptors.h... Preprocessing /<>/Code/GraphMol/Descriptors/EEM.h... Parsing file /<>/Code/GraphMol/Descriptors/EEM.h... Preprocessing /<>/Code/GraphMol/Descriptors/GETAWAY.h... Parsing file /<>/Code/GraphMol/Descriptors/GETAWAY.h... Preprocessing /<>/Code/GraphMol/Descriptors/Lipinski.h... Parsing file /<>/Code/GraphMol/Descriptors/Lipinski.h... Preprocessing /<>/Code/GraphMol/Descriptors/MolData3Ddescriptors.h... Parsing file /<>/Code/GraphMol/Descriptors/MolData3Ddescriptors.h... Preprocessing /<>/Code/GraphMol/Descriptors/MolDescriptors.h... Parsing file /<>/Code/GraphMol/Descriptors/MolDescriptors.h... Preprocessing /<>/Code/GraphMol/Descriptors/MolDescriptors3D.h... Parsing file /<>/Code/GraphMol/Descriptors/MolDescriptors3D.h... Preprocessing /<>/Code/GraphMol/Descriptors/MolSurf.h... Parsing file /<>/Code/GraphMol/Descriptors/MolSurf.h... Preprocessing /<>/Code/GraphMol/Descriptors/MORSE.h... Parsing file /<>/Code/GraphMol/Descriptors/MORSE.h... Preprocessing /<>/Code/GraphMol/Descriptors/MQN.h... Parsing file /<>/Code/GraphMol/Descriptors/MQN.h... Preprocessing /<>/Code/GraphMol/Descriptors/OxidationNumbers.h... Parsing file /<>/Code/GraphMol/Descriptors/OxidationNumbers.h... Preprocessing /<>/Code/GraphMol/Descriptors/PBF.h... Parsing file /<>/Code/GraphMol/Descriptors/PBF.h... Preprocessing /<>/Code/GraphMol/Descriptors/PMI.h... Parsing file /<>/Code/GraphMol/Descriptors/PMI.h... Preprocessing /<>/Code/GraphMol/Descriptors/Property.h... Parsing file /<>/Code/GraphMol/Descriptors/Property.h... Preprocessing /<>/Code/GraphMol/Descriptors/RDF.h... Parsing file /<>/Code/GraphMol/Descriptors/RDF.h... Preprocessing /<>/Code/GraphMol/Descriptors/RegisterDescriptor.h... Parsing file /<>/Code/GraphMol/Descriptors/RegisterDescriptor.h... Preprocessing /<>/Code/GraphMol/Descriptors/USRDescriptor.h... Parsing file /<>/Code/GraphMol/Descriptors/USRDescriptor.h... Preprocessing /<>/Code/GraphMol/Descriptors/WHIM.h... Parsing file /<>/Code/GraphMol/Descriptors/WHIM.h... Preprocessing /<>/Code/GraphMol/details.h... Parsing file /<>/Code/GraphMol/details.h... Preprocessing /<>/Code/GraphMol/DetermineBonds/DetermineBonds.h... Parsing file /<>/Code/GraphMol/DetermineBonds/DetermineBonds.h... Preprocessing /<>/Code/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.h... Parsing file /<>/Code/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.h... Preprocessing /<>/Code/GraphMol/DistGeomHelpers/Embedder.h... Parsing file /<>/Code/GraphMol/DistGeomHelpers/Embedder.h... Preprocessing /<>/Code/GraphMol/FileParsers/CDXMLParser.h... Parsing file /<>/Code/GraphMol/FileParsers/CDXMLParser.h... Preprocessing /<>/Code/GraphMol/FileParsers/FileParsers.h... Parsing file /<>/Code/GraphMol/FileParsers/FileParsers.h... Preprocessing /<>/Code/GraphMol/FileParsers/FileParserUtils.h... Parsing file /<>/Code/GraphMol/FileParsers/FileParserUtils.h... Preprocessing /<>/Code/GraphMol/FileParsers/GeneralFileReader.h... Parsing file /<>/Code/GraphMol/FileParsers/GeneralFileReader.h... Preprocessing /<>/Code/GraphMol/FileParsers/MolFileStereochem.h... Parsing file /<>/Code/GraphMol/FileParsers/MolFileStereochem.h... Preprocessing /<>/Code/GraphMol/FileParsers/MolSGroupParsing.h... Parsing file /<>/Code/GraphMol/FileParsers/MolSGroupParsing.h... Preprocessing /<>/Code/GraphMol/FileParsers/MolSGroupWriting.h... Parsing file /<>/Code/GraphMol/FileParsers/MolSGroupWriting.h... Preprocessing /<>/Code/GraphMol/FileParsers/MolSupplier.h... Parsing file /<>/Code/GraphMol/FileParsers/MolSupplier.h... Preprocessing /<>/Code/GraphMol/FileParsers/MolWriters.h... Parsing file /<>/Code/GraphMol/FileParsers/MolWriters.h... Preprocessing /<>/Code/GraphMol/FileParsers/MultithreadedMolSupplier.h... Parsing file /<>/Code/GraphMol/FileParsers/MultithreadedMolSupplier.h... Preprocessing /<>/Code/GraphMol/FileParsers/MultithreadedSDMolSupplier.h... Parsing file /<>/Code/GraphMol/FileParsers/MultithreadedSDMolSupplier.h... Preprocessing /<>/Code/GraphMol/FileParsers/MultithreadedSmilesMolSupplier.h... Parsing file /<>/Code/GraphMol/FileParsers/MultithreadedSmilesMolSupplier.h... Preprocessing /<>/Code/GraphMol/FileParsers/PNGParser.h... Parsing file /<>/Code/GraphMol/FileParsers/PNGParser.h... Preprocessing /<>/Code/GraphMol/FileParsers/ProximityBonds.h... Parsing file /<>/Code/GraphMol/FileParsers/ProximityBonds.h... Preprocessing /<>/Code/GraphMol/FileParsers/SequenceParsers.h... Parsing file /<>/Code/GraphMol/FileParsers/SequenceParsers.h... Preprocessing /<>/Code/GraphMol/FileParsers/SequenceWriters.h... Parsing file /<>/Code/GraphMol/FileParsers/SequenceWriters.h... Preprocessing /<>/Code/GraphMol/FilterCatalog/FilterCatalog.h... Parsing file /<>/Code/GraphMol/FilterCatalog/FilterCatalog.h... Preprocessing /<>/Code/GraphMol/FilterCatalog/FilterCatalogEntry.h... Parsing file /<>/Code/GraphMol/FilterCatalog/FilterCatalogEntry.h... Preprocessing /<>/Code/GraphMol/FilterCatalog/FilterMatcherBase.h... Parsing file /<>/Code/GraphMol/FilterCatalog/FilterMatcherBase.h... Preprocessing /<>/Code/GraphMol/FilterCatalog/FilterMatchers.h... Parsing file /<>/Code/GraphMol/FilterCatalog/FilterMatchers.h... Preprocessing /<>/Code/GraphMol/FilterCatalog/Filters.h... Parsing file /<>/Code/GraphMol/FilterCatalog/Filters.h... Preprocessing /<>/Code/GraphMol/FilterCatalog/FunctionalGroupHierarchy.h... Parsing file /<>/Code/GraphMol/FilterCatalog/FunctionalGroupHierarchy.h... Preprocessing /<>/Code/GraphMol/Fingerprints/AtomPairGenerator.h... Parsing file /<>/Code/GraphMol/Fingerprints/AtomPairGenerator.h... Preprocessing /<>/Code/GraphMol/Fingerprints/AtomPairs.h... Parsing file /<>/Code/GraphMol/Fingerprints/AtomPairs.h... Preprocessing /<>/Code/GraphMol/Fingerprints/FingerprintGenerator.h... Parsing file /<>/Code/GraphMol/Fingerprints/FingerprintGenerator.h... Preprocessing /<>/Code/GraphMol/Fingerprints/Fingerprints.h... Parsing file /<>/Code/GraphMol/Fingerprints/Fingerprints.h... Preprocessing /<>/Code/GraphMol/Fingerprints/FingerprintUtil.h... Parsing file /<>/Code/GraphMol/Fingerprints/FingerprintUtil.h... Preprocessing /<>/Code/GraphMol/Fingerprints/MACCS.h... Parsing file /<>/Code/GraphMol/Fingerprints/MACCS.h... Preprocessing /<>/Code/GraphMol/Fingerprints/MHFP.h... Parsing file /<>/Code/GraphMol/Fingerprints/MHFP.h... Preprocessing /<>/Code/GraphMol/Fingerprints/MorganFingerprints.h... Parsing file /<>/Code/GraphMol/Fingerprints/MorganFingerprints.h... Preprocessing /<>/Code/GraphMol/Fingerprints/MorganGenerator.h... Parsing file /<>/Code/GraphMol/Fingerprints/MorganGenerator.h... Preprocessing /<>/Code/GraphMol/Fingerprints/RDKitFPGenerator.h... Parsing file /<>/Code/GraphMol/Fingerprints/RDKitFPGenerator.h... Preprocessing /<>/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.h... Parsing file /<>/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.h... Preprocessing /<>/Code/GraphMol/FMCS/Composition2N.h... Parsing file /<>/Code/GraphMol/FMCS/Composition2N.h... Preprocessing /<>/Code/GraphMol/FMCS/DebugTrace.h... Parsing file /<>/Code/GraphMol/FMCS/DebugTrace.h... Preprocessing /<>/Code/GraphMol/FMCS/DuplicatedSeedCache.h... Parsing file /<>/Code/GraphMol/FMCS/DuplicatedSeedCache.h... Preprocessing /<>/Code/GraphMol/FMCS/FMCS.h... Parsing file /<>/Code/GraphMol/FMCS/FMCS.h... Preprocessing /<>/Code/GraphMol/FMCS/Graph.h... Parsing file /<>/Code/GraphMol/FMCS/Graph.h... Preprocessing /<>/Code/GraphMol/FMCS/MatchTable.h... Parsing file /<>/Code/GraphMol/FMCS/MatchTable.h... Preprocessing /<>/Code/GraphMol/FMCS/MaximumCommonSubgraph.h... Parsing file /<>/Code/GraphMol/FMCS/MaximumCommonSubgraph.h... Preprocessing /<>/Code/GraphMol/FMCS/Seed.h... Parsing file /<>/Code/GraphMol/FMCS/Seed.h... Preprocessing /<>/Code/GraphMol/FMCS/SeedSet.h... Parsing file /<>/Code/GraphMol/FMCS/SeedSet.h... Preprocessing /<>/Code/GraphMol/FMCS/SubstructMatchCustom.h... Parsing file /<>/Code/GraphMol/FMCS/SubstructMatchCustom.h... Preprocessing /<>/Code/GraphMol/FMCS/SubstructureCache.h... Parsing file /<>/Code/GraphMol/FMCS/SubstructureCache.h... Preprocessing /<>/Code/GraphMol/FMCS/Target.h... Parsing file /<>/Code/GraphMol/FMCS/Target.h... Preprocessing /<>/Code/GraphMol/FMCS/TargetMatch.h... Parsing file /<>/Code/GraphMol/FMCS/TargetMatch.h... Preprocessing /<>/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionAngleM6.h... Parsing file /<>/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionAngleM6.h... Preprocessing /<>/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionPreferences.h... Parsing file /<>/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionPreferences.h... Preprocessing /<>/Code/GraphMol/ForceFieldHelpers/FFConvenience.h... Parsing file /<>/Code/GraphMol/ForceFieldHelpers/FFConvenience.h... Preprocessing /<>/Code/GraphMol/ForceFieldHelpers/MMFF/AtomTyper.h... Parsing file /<>/Code/GraphMol/ForceFieldHelpers/MMFF/AtomTyper.h... Preprocessing /<>/Code/GraphMol/ForceFieldHelpers/MMFF/Builder.h... Parsing file /<>/Code/GraphMol/ForceFieldHelpers/MMFF/Builder.h... Preprocessing /<>/Code/GraphMol/ForceFieldHelpers/MMFF/MMFF.h... Parsing file /<>/Code/GraphMol/ForceFieldHelpers/MMFF/MMFF.h... Preprocessing /<>/Code/GraphMol/ForceFieldHelpers/UFF/AtomTyper.h... Parsing file /<>/Code/GraphMol/ForceFieldHelpers/UFF/AtomTyper.h... Preprocessing /<>/Code/GraphMol/ForceFieldHelpers/UFF/Builder.h... Parsing file /<>/Code/GraphMol/ForceFieldHelpers/UFF/Builder.h... Preprocessing /<>/Code/GraphMol/ForceFieldHelpers/UFF/UFF.h... Parsing file /<>/Code/GraphMol/ForceFieldHelpers/UFF/UFF.h... Preprocessing /<>/Code/GraphMol/FragCatalog/FragCatalogEntry.h... Parsing file /<>/Code/GraphMol/FragCatalog/FragCatalogEntry.h... Preprocessing /<>/Code/GraphMol/FragCatalog/FragCatalogUtils.h... Parsing file /<>/Code/GraphMol/FragCatalog/FragCatalogUtils.h... Preprocessing /<>/Code/GraphMol/FragCatalog/FragCatGenerator.h... Parsing file /<>/Code/GraphMol/FragCatalog/FragCatGenerator.h... Preprocessing /<>/Code/GraphMol/FragCatalog/FragCatParams.h... Parsing file /<>/Code/GraphMol/FragCatalog/FragCatParams.h... Preprocessing /<>/Code/GraphMol/FragCatalog/FragFPGenerator.h... Parsing file /<>/Code/GraphMol/FragCatalog/FragFPGenerator.h... Preprocessing /<>/Code/GraphMol/GeneralizedSubstruct/XQMol.h... Parsing file /<>/Code/GraphMol/GeneralizedSubstruct/XQMol.h... Preprocessing /<>/Code/GraphMol/GenericGroups/GenericGroups.h... Parsing file /<>/Code/GraphMol/GenericGroups/GenericGroups.h... Preprocessing /<>/Code/GraphMol/GraphMol.h... Parsing file /<>/Code/GraphMol/GraphMol.h... Preprocessing /<>/Code/GraphMol/MarvinParse/MarvinDefs.h... Parsing file /<>/Code/GraphMol/MarvinParse/MarvinDefs.h... Preprocessing /<>/Code/GraphMol/MarvinParse/MarvinParser.h... Parsing file /<>/Code/GraphMol/MarvinParse/MarvinParser.h... Preprocessing /<>/Code/GraphMol/MMPA/MMPA.h... Parsing file /<>/Code/GraphMol/MMPA/MMPA.h... Preprocessing /<>/Code/GraphMol/MolAlign/AlignMolecules.h... Parsing file /<>/Code/GraphMol/MolAlign/AlignMolecules.h... Preprocessing /<>/Code/GraphMol/MolAlign/O3AAlignMolecules.h... Parsing file /<>/Code/GraphMol/MolAlign/O3AAlignMolecules.h... Preprocessing /<>/Code/GraphMol/MolBundle.h... Parsing file /<>/Code/GraphMol/MolBundle.h... Preprocessing /<>/Code/GraphMol/MolCatalog/MolCatalog.h... Parsing file /<>/Code/GraphMol/MolCatalog/MolCatalog.h... Preprocessing /<>/Code/GraphMol/MolCatalog/MolCatalogEntry.h... Parsing file /<>/Code/GraphMol/MolCatalog/MolCatalogEntry.h... Preprocessing /<>/Code/GraphMol/MolCatalog/MolCatalogParams.h... Parsing file /<>/Code/GraphMol/MolCatalog/MolCatalogParams.h... Preprocessing /<>/Code/GraphMol/MolChemicalFeatures/FeatureParser.h... Parsing file /<>/Code/GraphMol/MolChemicalFeatures/FeatureParser.h... Preprocessing /<>/Code/GraphMol/MolChemicalFeatures/MolChemicalFeature.h... Parsing file /<>/Code/GraphMol/MolChemicalFeatures/MolChemicalFeature.h... Preprocessing /<>/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureDef.h... Parsing file /<>/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureDef.h... Preprocessing /<>/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureFactory.h... Parsing file /<>/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureFactory.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/AtomSymbol.h... Parsing file /<>/Code/GraphMol/MolDraw2D/AtomSymbol.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/DrawAnnotation.h... Parsing file /<>/Code/GraphMol/MolDraw2D/DrawAnnotation.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/DrawMol.h... Parsing file /<>/Code/GraphMol/MolDraw2D/DrawMol.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/DrawMolMCH.h... Parsing file /<>/Code/GraphMol/MolDraw2D/DrawMolMCH.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/DrawMolMCHCircleAndLine.h... Parsing file /<>/Code/GraphMol/MolDraw2D/DrawMolMCHCircleAndLine.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/DrawMolMCHLasso.h... Parsing file /<>/Code/GraphMol/MolDraw2D/DrawMolMCHLasso.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/DrawShape.h... Parsing file /<>/Code/GraphMol/MolDraw2D/DrawShape.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/DrawText.h... Parsing file /<>/Code/GraphMol/MolDraw2D/DrawText.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/DrawTextCairo.h... Parsing file /<>/Code/GraphMol/MolDraw2D/DrawTextCairo.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/DrawTextFT.h... Parsing file /<>/Code/GraphMol/MolDraw2D/DrawTextFT.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/DrawTextFTCairo.h... Parsi/<>/Code/GraphMol/MolDraw2D/MolDraw2D.h:233: warning: unbalanced grouping commands ng file /<>/Code/GraphMol/MolDraw2D/DrawTextFTCairo.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/DrawTextFTJS.h... Parsing file /<>/Code/GraphMol/MolDraw2D/DrawTextFTJS.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/DrawTextFTSVG.h... Parsing file /<>/Code/GraphMol/MolDraw2D/DrawTextFTSVG.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/DrawTextJS.h... Parsing file /<>/Code/GraphMol/MolDraw2D/DrawTextJS.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/DrawTextNotFT.h... Parsing file /<>/Code/GraphMol/MolDraw2D/DrawTextNotFT.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/DrawTextSVG.h... Parsing file /<>/Code/GraphMol/MolDraw2D/DrawTextSVG.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/Fonts/roboto_regular.h... Parsing file /<>/Code/GraphMol/MolDraw2D/Fonts/roboto_regular.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/Fonts/telex_regular.h... Parsing file /<>/Code/GraphMol/MolDraw2D/Fonts/telex_regular.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/MolDraw2D.h... Parsing file /<>/Code/GraphMol/MolDraw2D/MolDraw2D.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/MolDraw2DCairo.h... Parsing file /<>/Code/GraphMol/MolDraw2D/MolDraw2DCairo.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/MolDraw2DDetails.h... Parsing file /<>/Code/GraphMol/MolDraw2D/MolDraw2DDetails.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h... Parsing file /<>/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/MolDraw2DJS.h... Parsing file /<>/Code/GraphMol/MolDraw2D/MolDraw2DJS.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/MolDraw2DSVG.h... Parsing file /<>/Code/GraphMol/MolDraw2D/MolDraw2DSVG.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/MolDraw2DUtils.h... Parsing file /<>/Code/GraphMol/MolDraw2D/MolDraw2DUtils.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/MolDraw2Dwx.h... Parsing file /<>/Code/GraphMol/MolDraw2D/MolDraw2Dwx.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/Qt/DrawTextFTQt.h... Parsing file /<>/Code/GraphMol/MolDraw2D/Qt/DrawTextFTQt.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/Qt/DrawTextQt.h... Parsing file /<>/Code/GraphMol/MolDraw2D/Qt/DrawTextQt.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/Qt/MolDraw2DQt.h... Parsing file /<>/Code/GraphMol/MolDraw2D/Qt/MolDraw2DQt.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/StringRect.h... Parsing file /<>/Code/GraphMol/MolDraw2D/StringRect.h... Preprocessing /<>/Code/GraphMol/MolEnumerator/LinkNode.h... Parsing file /<>/Code/GraphMol/MolEnumerator/LinkNode.h... Preprocessing /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h... Parsing file /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h... Preprocessing /<>/Code/GraphMol/MolHash/mf.h... Parsing file /<>/Code/GraphMol/MolHas/<>/Code/GraphMol/MolOps.h:440: warning: unbalanced grouping commands /<>/Code/GraphMol/MolOps.h:692: warning: unbalanced grouping commands h/mf.h... Preprocessing /<>/Code/GraphMol/MolHash/MolHash.h... Parsing file /<>/Code/GraphMol/MolHash/MolHash.h... Preprocessing /<>/Code/GraphMol/MolHash/nmmolhash.h... Parsing file /<>/Code/GraphMol/MolHash/nmmolhash.h... Preprocessing /<>/Code/GraphMol/MolInterchange/details.h... Parsing file /<>/Code/GraphMol/MolInterchange/details.h... Preprocessing /<>/Code/GraphMol/MolInterchange/MolInterchange.h... Parsing file /<>/Code/GraphMol/MolInterchange/MolInterchange.h... Preprocessing /<>/Code/GraphMol/MolOps.h... Parsing file /<>/Code/GraphMol/MolOps.h... Preprocessing /<>/Code/GraphMol/MolPickler.h... Parsing file /<>/Code/GraphMol/MolPickler.h... Preprocessing /<>/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogEntry.h... Parsing file /<>/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogEntry.h... Preprocessing /<>/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogParams.h... Parsing file /<>/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogParams.h... Preprocessing /<>/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogUtils.h... Parsing file /<>/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogUtils.h... Preprocessing /<>/Code/GraphMol/MolStandardize/Charge.h... Parsing file /<>/Code/GraphMol/MolStandardize/Charge.h... Preprocessing /<>/Code/GraphMol/MolStandardize/Fragment.h... Parsing file /<>/Code/GraphMol/MolStandardize/Fragment.h... Preprocessing /<>/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogEntry.h... Parsing file /<>/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogEntry.h... Preprocessing /<>/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogParams.h... Parsing file /<>/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogParams.h... Preprocessing /<>/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogUtils.h... Parsing file /<>/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogUtils.h... Preprocessing /<>/Code/GraphMol/MolStandardize/Metal.h... Parsing file /<>/Code/GraphMol/MolStandardize/Metal.h... Preprocessing /<>/Code/GraphMol/MolStandardize/MolStandardize.h... Parsing file /<>/Code/GraphMol/MolStandardize/MolStandardize.h... Preprocessing /<>/Code/GraphMol/MolStandardize/Normalize.h... Parsing file /<>/Code/GraphMol/MolStandardize/Normalize.h... Preprocessing /<>/Code/GraphMol/MolStandardize/Tautomer.h... Parsing file /<>/Code/GraphMol/MolStandardize/Tautomer.h... Preprocessing /<>/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogEntry.h... Parsing file /<>/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogEntry.h... Preprocessing /<>/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogParams.h... Parsing file /<>/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogParams.h... Preprocessing /<>/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogUtils.h... Parsing file /<>/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogUtils.h... Preprocessing /<>/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogEntry.h... Parsing file /<>/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogEntry.h... Preprocessing /<>/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogParams.h... Parsing file /<>/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogParams.h... Preprocessing /<>/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogUtils.h... Parsing file /<>/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogUtils.h... Preprocessing /<>/Code/GraphMol/MolStandardize/Validate.h... Parsing file /<>/Code/GraphMol/MolStandardize/Validate.h... Preprocessing /<>/Code/GraphMol/MolTransforms/MolTransforms.h... Parsing file /<>/Code/GraphMol/MolTransforms/MolTransforms.h... Preprocessing /<>/Code/GraphMol/MonomerInfo.h... Parsing file /<>/Code/GraphMol/MonomerInfo.h... Preprocessing /<>/Code/GraphMol/new_canon.h... Parsing file /<>/Code/GraphMol/new_canon.h... Preprocessing /<>/Code/GraphMol/PartialCharges/GasteigerCharges.h... Parsing file /<>/Code/GraphMol/PartialCharges/GasteigerCharges.h... Preprocessing /<>/Code/GraphMol/PartialCharges/GasteigerParams.h... Parsing file /<>/Code/GraphMol/PartialCharges/GasteigerParams.h... Preprocessing /<>/Code/GraphMol/PeriodicTable.h... Parsing file /<>/Code/GraphMol/PeriodicTable.h... Preprocessing /<>/Code/GraphMol/QueryAtom.h... Parsing file /<>/Code/GraphMol/QueryAtom.h... Preprocessing /<>/Code/GraphMol/QueryBond.h... Parsing file /<>/Code/GraphMol/QueryBond.h... Preprocessing /<>/Code/GraphMol/QueryOps.h... Parsing file /<>/Code/GraphMol/QueryOps.h... Preprocessing /<>/Code/GraphMol/RascalMCES/PartitionSet.h... Parsing file /<>/Code/GraphMol/RascalMCES/PartitionSet.h... Preprocessing /<>/Code/GraphMol/RascalMCES/RascalClusterOptions.h... Parsing file /<>/Code/GraphMol/RascalMCES/RascalClusterOptions.h... Preprocessing /<>/Code/GraphMol/RascalMCES/RascalDetails.h... Parsing file /<>/Code/GraphMol/RascalMCES/RascalDetails.h... Preprocessing /<>/Code/GraphMol/RascalMCES/RascalMCES.h... Parsing file /<>/Code/GraphMol/RascalMCES/RascalMCES.h... Preprocessing /<>/Code/GraphMol/RascalMCES/RascalOptions.h... Parsing file /<>/Code/GraphMol/RascalMCES/RascalOptions.h... Preprocessing /<>/Code/GraphMol/RascalMCES/RascalResult.h... Parsing file /<>/Code/GraphMol/RascalMCES/RascalResult.h... Preprocessing /<>/Code/GraphMol/RDKitBase.h... Parsing file /<>/Code/GraphMol/RDKitBase.h... Preprocessing /<>/Code/GraphMol/RDKitQueries.h... Parsing file /<>/Code/GraphMol/RDKitQueries.h... Preprocessing /build/rdkit-GzXaY/<>/Code/GraphMol/ROMol.h:416: warning: unbalanced grouping commands o/rdkit-202309.3/Code/GraphMol/ReducedGraphs/ReducedGraphs.h... Parsing file /<>/Code/GraphMol/ReducedGraphs/ReducedGraphs.h... Preprocessing /<>/Code/GraphMol/Resonance.h... Parsing file /<>/Code/GraphMol/Resonance.h... Preprocessing /<>/Code/GraphMol/RGroupDecomposition/RGroupCore.h... Parsing file /<>/Code/GraphMol/RGroupDecomposition/RGroupCore.h... Preprocessing /<>/Code/GraphMol/RGroupDecomposition/RGroupData.h... Parsing file /<>/Code/GraphMol/RGroupDecomposition/RGroupData.h... Preprocessing /<>/Code/GraphMol/RGroupDecomposition/RGroupDecomp.h... Parsing file /<>/Code/GraphMol/RGroupDecomposition/RGroupDecomp.h... Preprocessing /<>/Code/GraphMol/RGroupDecomposition/RGroupDecompData.h... Parsing file /<>/Code/GraphMol/RGroupDecomposition/RGroupDecompData.h... Preprocessing /<>/Code/GraphMol/RGroupDecomposition/RGroupDecompParams.h... Parsing file /<>/Code/GraphMol/RGroupDecomposition/RGroupDecompParams.h... Preprocessing /<>/Code/GraphMol/RGroupDecomposition/RGroupFingerprintScore.h... Parsing file /<>/Code/GraphMol/RGroupDecomposition/RGroupFingerprintScore.h... Preprocessing /<>/Code/GraphMol/RGroupDecomposition/RGroupGa.h... Parsing file /<>/Code/GraphMol/RGroupDecomposition/RGroupGa.h... Preprocessing /<>/Code/GraphMol/RGroupDecomposition/RGroupMatch.h... Parsing file /<>/Code/GraphMol/RGroupDecomposition/RGroupMatch.h... Preprocessing /<>/Code/GraphMol/RGroupDecomposition/RGroupScore.h... Parsing file /<>/Code/GraphMol/RGroupDecomposition/RGroupScore.h... Preprocessing /<>/Code/GraphMol/RGroupDecomposition/RGroupUtils.h... Parsing file /<>/Code/GraphMol/RGroupDecomposition/RGroupUtils.h... Preprocessing /<>/Code/GraphMol/RingInfo.h... Parsing file /<>/Code/GraphMol/RingInfo.h... Preprocessing /<>/Code/GraphMol/Rings.h... Parsing file /<>/Code/GraphMol/Rings.h... Preprocessing /<>/Code/GraphMol/ROMol.h... Parsing file /<>/Code/GraphMol/ROMol.h... Preprocessing /<>/Code/GraphMol/RWMol.h... Parsing file /<>/Code/GraphMol/RWMol.h... Preprocessing /<>/Code/GraphMol/SanitException.h... Parsing file /<>/Code/GraphMol/SanitException.h... Preprocessing /<>/Code/GraphMol/ScaffoldNetwork/detail.h... Parsing file /<>/Code/GraphMol/ScaffoldNetwork/detail.h... Preprocessing /<>/Code/GraphMol/ScaffoldNetwork/ScaffoldNetwork.h... Parsing file /<>/Code/GraphMol/ScaffoldNetwork/ScaffoldNetwork.h... Preprocessing /<>/Code/GraphMol/ShapeHelpers/ShapeEncoder.h... Parsing file /<>/Code/GraphMol/ShapeHelpers/ShapeEncoder.h... Preprocessing /<>/Code/GraphMol/ShapeHelpers/ShapeUtils.h... Parsing file /<>/Code/GraphMol/ShapeHelpers/ShapeUtils.h... Preprocessing /<>/Code/GraphMol/SLNParse/SLNAttribs.h... Parsing file /<>/Code/GraphMol/SLNParse/SLNAttribs.h... Preprocessing /<>/Code/GraphMol/SLNParse/SLNParse.h... Parsing file /<>/Code/GraphMol/SLNParse/SLNParse.h... Preprocessing /<>/Code/GraphMol/SLNParse/SLNParseOps.h... Parsing file /<>/Code/GraphMol/SLNParse/SLNParseOps.h... Preprocessing /<>/Code/GraphMol/SmilesParse/primes.h... Parsing file /<>/Code/GraphMol/SmilesParse/primes.h... Preprocessing /<>/Code/GraphMol/SmilesParse/SmartsWrite.h... Parsing file /<>/Code/GraphMol/SmilesParse/SmartsWrite.h... Preprocessing /<>/Code/GraphMol/SmilesParse/SmilesParse.h... Parsing file /<>/Code/GraphMol/SmilesParse/SmilesParse.h... Preprocessing /<>/Code/GraphMol/SmilesParse/SmilesParseOps.h... Parsing file /<>/Code/GraphMol/SmilesParse/SmilesParseOps.h... Preprocessing /<>/Code/GraphMol/SmilesParse/SmilesWrite.h... Parsing file /<>/Code/GraphMol/SmilesParse/SmilesWrite.h... Preprocessing /<>/Code/GraphMol/StereoGroup.h... Parsing file /<>/Code/GraphMol/StereoGroup.h... Preprocessing /<>/Code/GraphMol/StructChecker/Pattern.h... Parsing file /<>/Code/GraphMol/StructChecker/Pattern.h... Preprocessing /<>/Code/GraphMol/StructChecker/ReCharge.h... Parsing file /<>/Code/GraphMol/StructChecker/ReCharge.h... Preprocessing /<>/Code/GraphMol/StructChecker/Stereo.h... Parsing file /<>/Code/GraphMol/StructChecker/Stereo.h... Preprocessing /<>/Code/GraphMol/StructChecker/StripSmallFragments.h... Parsing file /<>/Code/GraphMol/StructChecker/StripSmallFragments.h... Preprocessing /<>/Code/GraphMol/StructChecker/StructChecker.h... Parsing file /<>/Code/GraphMol/StructChecker/StructChecker.h... Preprocessing /<>/Code/GraphMol/StructChecker/StructCheckerOptions.h... Parsing file /<>/Code/GraphMol/StructChecker/StructCheckerOptions.h... Preprocessing /<>/Code/GraphMol/StructChecker/Tautomer.h... Parsing file /<>/Code/GraphMol/StructChecker/Tautomer.h... Preprocessing /<>/Code/GraphMol/StructChecker/Utilites.h... Parsing file /<>/Code/GraphMol/StructChecker/Utilites.h... Preprocessing /<>/Code/GraphMol/Subgraphs/Subgraphs.h... Parsing file /<>/Code/GraphMol/Subgraphs/Subgraphs.h... Preprocessing /<>/Code/GraphMol/Subgraphs/SubgraphUtils.h... Parsing file /<>/Code/GraphMol/Subgraphs/SubgraphUtils.h... Preprocessing /<>/Code/GraphMol/SubstanceGroup.h... Parsing file /<>/Code/GraphMol/SubstanceGroup.h... Preprocessing /<>/Code/GraphMol/Substruct/SubstructMatch.h... Parsing file /<>/Code/GraphMol/Substruct/SubstructMatch.h... Preprocessing /<>/Code/GraphMol/Substruct/SubstructUtils.h... Parsing file /<>/Code/GraphMol/Substruct/SubstructUtils.h... Preprocessing /<>/Code/GraphMol/SubstructLibrary/PatternFactory.h... Parsing file /<>/Code/GraphMol/SubstructLibrary/PatternFactory.h... Preprocessing /<>/Code/GraphMol/SubstructLibrary/SubstructLibrary.h... Parsing file /<>/Code/GraphMol/SubstructLibrary/SubstructLibrary.h... Preprocessing /<>/Code/GraphMol/SubstructLibrary/SubstructLibrarySerialization.h... Parsing file /<>/Code/GraphMol/SubstructLibrary/SubstructLibrarySerialization.h... Preprocessing /<>/Code/GraphMol/TautomerQuery/TautomerQuery.h... Parsing file /<>/Code/GraphMol/TautomerQuery/TautomerQuery.h... Preprocessing /<>/Code/GraphMol/Trajectory/Snapshot.h... Parsing file /<>/Code/GraphMol/Trajectory/Snapshot.h... Preprocessing /<>/Code/GraphMol/Trajectory/Trajectory.h... Parsing file /<>/Code/GraphMol/Trajectory/Trajectory.h... Preprocessing /<>/Code/Catalogs/Catalog.h... Parsing file /<>/Code/Catalogs/Catalog.h... Preprocessing /<>/Code/Catalogs/CatalogEntry.h... Parsing file /<>/Code/Catalogs/CatalogEntry.h... Preprocessing /<>/Code/Catalogs/CatalogParams.h... Parsing file /<>/Code/Catalogs/CatalogParams.h... Preprocessing /<>/Code/DataStructs/base64.h... Parsing file /<>/Code/DataStructs/base64.h... Preprocessing /<>/Code/DataStructs/BitOps.h... Parsing file /<>/Code/DataStructs/BitOps.h... Preprocessing /<>/Code/DataStructs/BitVect.h... Parsing file /<>/Code/DataStructs/BitVect.h... Preprocessing /<>/Code/DataStructs/BitVects.h... Parsing file /<>/Code/DataStructs/BitVects.h... Preprocessing /<>/Code/DataStructs/BitVectUtils.h... Parsing file /<>/Code/DataStructs/BitVectUtils.h... Preprocessing /<>/Code/DataStructs/DatastructsException.h... Parsing file /<>/Code/DataStructs/DatastructsException.h... Preprocessing /<>/Code/DataStructs/DatastructsStreamOps.h... Parsing file /<>/Code/DataStructs/DatastructsStreamOps.h... Preprocessing /<>/Code/DataStructs/DiscreteDistMat.h... Parsing file /<>/Code/DataStructs/DiscreteDistMat.h... Preprocessing /<>/Code/DataStructs/DiscreteValueVect.h... Parsing file /<>/Code/DataStructs/DiscreteValueVect.h... Preprocessing /<>/Code/DataStructs/ExplicitBitVect.h... Parsing file /<>/Code/DataStructs/ExplicitBitVect.h... Preprocessing /<>/Code/DataStructs/FPBReader.h... Parsing file /<>/Code/DataStructs/FPBReader.h... Preprocessing /<>/Code/DataStructs/MultiFPBReader.h... Parsing file /<>/Code/DataStructs/MultiFPBReader.h... Preprocessing /<>/Code/DataStructs/SparseBitVect.h... Parsing file /<>/Code/DataStructs/SparseBitVect.h... Preprocessing /<>/Code/DataStructs/SparseIntVect.h... Parsing file /<>/Code/DataStructs/SparseIntVect.h... Preprocessing /<>/Code/Query/AndQuery.h... Parsing file /<>/Code/Query/AndQuery.h... Preprocessing /<>/Code/Query/EqualityQuery.h... Parsing file /<>/Code/Query/EqualityQuery.h... Preprocessing /<>/Code/Query/GreaterEqualQuery.h... Parsing file /<>/Code/Query/GreaterEqualQuery.h... Preprocessing /<>/Code/Query/GreaterQuery.h... Parsing file /<>/Code/Query/GreaterQuery.h... Preprocessing /<>/Code/Query/LessEqualQuery.h... Parsing file /<>/Code/Query/LessEqualQuery.h... Preprocessing /<>/Code/Query/LessQuery.h... Parsing file /<>/Code/Query/LessQuery.h... Preprocessing /<>/Code/Query/NullQueryAlgebra.h... Parsing file /<>/Code/Query/NullQueryAlgebra.h... Preprocessing /<>/Code/Query/OrQuery.h... Parsing file /<>/Code/Query/OrQuery.h... Preprocessing /<>/Code/Query/Query.h... Parsing file /<>/Code/Query/Query.h... Preprocessing /<>/Code/Query/QueryObjects.h... Parsing file /<>/Code/Query/QueryObjects.h... Preprocessing /<>/Code/Query/RangeQuery.h... Parsing file /<>/Code/Query/RangeQuery.h... Preprocessing /<>/Code/Query/SetQuery.h... Parsing file /<>/Code/Query/SetQuery.h... Preprocessing /<>/Code/Query/XOrQuery.h... Parsing file /<>/Code/Query/XOrQuery.h... Preprocessing /<>/Code/ML/InfoTheory/CorrMatGenerator.h... Parsing file /<>/Code/ML/InfoTheory/CorrMatGenerator.h... Preprocessing /<>/Code/ML/InfoTheory/InfoBitRanker.h... Parsing file /<>/Code/ML/InfoTheory/InfoBitRanker.h... Preprocessing /<>/Code/ML/InfoTheory/InfoGainFuncs.h... Parsing file /<>/Code/ML/InfoTheory/InfoGainFuncs.h... Preprocessing /<>/Code/DataManip/MetricMatrixCalc/MetricFuncs.h... Parsing file /<>/Code/DataManip/MetricMatrixCalc/MetricFuncs.h... Preprocessing /<>/Code/DataManip/MetricMatrixCalc/MetricMatrixCalc.h... Parsing file /<>/Code/DataManip/MetricMatrixCalc/MetricMatrixCalc.h... Preprocessing /<>/Code/SimDivPickers/DistPicker.h... Parsing file /<>/Code/SimDivPickers/DistPicker.h... Preprocessing /<>/Code/SimDivPickers/HierarchicalClusterPicker.h... Parsing file /<>/Code/SimDivPickers/HierarchicalClusterPicker.h... Preprocessing /<>/Code/SimDivPickers/LeaderPicker.h... Parsing file /<>/Code/SimDivPickers/LeaderPicker.h... Preprocessing /<>/Code/SimDivPickers/MaxMinPicker.h... Parsing file /<>/Code/SimDivPickers/MaxMinPicker.h... Preprocessing /<>/Code/RDGeneral/BadFileException.h... Parsing file /<>/Code/RDGeneral/BadFileException.h... Preprocessing /<>/Code/RDGeneral/BoostEndInclude.h... Parsing file /<>/Code/RDGeneral/BoostEndInclude.h... Preprocessing /<>/Code/RDGeneral/BoostStartInclude.h... Parsing file /<>/Code/RDGeneral/BoostStartInclude.h... Preprocessing /<>/Code/RDGeneral/ConcurrentQueue.h... Parsing file /<>/Code/RDGeneral/ConcurrentQueue.h... Preprocessing /<>/Code/RDGeneral/Dict.h... Parsing file /<>/Code/RDGeneral/Dict.h... Preprocessing /<>/Code/RDGeneral/Exceptions.h... Parsing file /<>/Code/RDGeneral/Exceptions.h... Preprocessing /<>/Code/RDGeneral/export.h... Parsing file /<>/Code/RDGeneral/export.h... Preprocessing /<>/Code/RDGeneral/FileParseException.h... Parsing file /<>/Code/RDGeneral/FileParseException.h... Preprocessing /<>/Code/RDGeneral/hanoiSort.h... Parsing file /<>/Code/RDGeneral/hanoiSort.h... Preprocessing /<>/Code/RDGeneral/Invariant.h... Parsing file /<>/Code/RDGeneral/Invariant.h... Preprocessing /<>/Code/RDGeneral/LocaleSwitcher.h... Parsing file /<>/Code/RDGeneral/LocaleSwitcher.h... Preprocessing /<>/Code/RDGeneral/Ranking.h... Parsing file /<>/Code/RDGeneral/Ranking.h... Preprocessing /<>/Code/RDGeneral/RDAny.h... Parsing file /<>/Code/RDGeneral/RDAny.h... Preprocessing /<>/Code/RDGeneral/RDConfig.h... Parsing file /<>/Code/RDGeneral/RDConfig.h... Preprocessing /<>/Code/RDGeneral/RDExportMacros.h... Parsing file /<>/Code/RDGeneral/RDExportMacros.h... Preprocessing /<>/Code/RDGeneral/RDLog.h... Parsing file /<>/Code/RDGeneral/RDLog.h... Preprocessing /<>/Code/RDGeneral/RDProps.h... Parsing file /<>/Code/RDGeneral/RDProps.h... Preprocessing /<>/Code/RDGeneral/RDThreads.h... Parsing file /<>/Code/RDGeneral/RDThreads.h... Preprocessing /<>/Code/RDGeneral/RDValue-doublemagic.h... Parsing file /<>/Code/RDGeneral/RDValue-doublemagic.h... Preprocessing /<>/Code/RDGeneral/RDValue-taggedunion.h... Parsing file /<>/Code/RDGeneral/RDValue-taggedunion.h... Preprocessing /<>/Code/RDGeneral/RDValue.h... Parsing file /<>/Code/RDGeneral/RDValue.h... Preprocessing /<>/Code/RDGeneral/StreamOps.h... Parsing file /<>/Code/RDGeneral/StreamOps.h... Preprocessing /<>/Code/RDGeneral/types.h... Parsing file /<>/Code/RDGeneral/types.h... Preprocessing /<>/Code/RDGeneral/utils.h... Parsing file /<>/Code/RDGeneral/utils.h... Preprocessing /<>/Code/RDGeneral/versions.h... Parsing file /<>/Code/RDGeneral/versions.h... Preprocessing /<>/Code/RDBoost/boost_numpy.h... Parsing file /<>/Code/RDBoost/boost_numpy.h... Preprocessing /<>/Code/RDBoost/import_array.h... Parsing file /<>/Code/RDBoost/import_array.h... Preprocessing /<>/Code/RDBoost/pyint_api.h... Parsing file /<>/Code/RDBoost/pyint_api.h... Preprocessing /<>/Code/RDBoost/PySequenceHolder.h... Parsing file /<>/Code/RDBoost/PySequenceHolder.h... Preprocessing /<>/Code/RDBoost/python.h... Parsing file /<>/Code/RDBoost/python.h... Preprocessing /<>/Code/RDBoost/python_streambuf.h... Parsing file /<>/Code/RDBoost/python_streambuf.h... Preprocessing /<>/Code/DistGeom/BoundsMatrix.h... Parsing file /<>/Code/DistGeom/BoundsMatrix.h... Preprocessing /<>/Code/DistGeom/ChiralSet.h... Parsing file /<>/Code/DistGeom/ChiralSet.h... Preprocessing /<>/Code/DistGeom/ChiralViolationContrib.h... Parsing file /<>/Code/DistGeom/ChiralViolationContrib.h... Preprocessing /<>/Code/DistGeom/DistGeomUtils.h... Parsing file /<>/Code/DistGeom/DistGeomUtils.h... Preprocessing /<>/Code/DistGeom/DistViolationContrib.h... Parsing file /<>/Code/DistGeom/DistViolationContrib.h... Preprocessing /<>/Code/DistGeom/FourthDimContrib.h... Parsing file /<>/Code/DistGeom/FourthDimContrib.h... Preprocessing /<>/Code/DistGeom/TriangleSmooth.h... Parsing file /<>/Code/DistGeom/TriangleSmooth.h... Preprocessing /<>/Code/ForceField/Contrib.h... Parsing file /<>/Code/ForceField/Contrib.h... Preprocessing /<>/Code/ForceField/ForceField.h... Parsing file /<>/Code/ForceField/ForceField.h... Preprocessing /<>/Code/ForceField/MMFF/AngleBend.h... Parsing file /<>/Code/ForceField/MMFF/AngleBend.h... Preprocessing /<>/Code/ForceField/MMFF/AngleConstraint.h... Parsing file /<>/Code/ForceField/MMFF/AngleConstraint.h... Preprocessing /<>/Code/ForceField/MMFF/BondStretch.h... Parsing file /<>/Code/ForceField/MMFF/BondStretch.h... Preprocessing /<>/Code/ForceField/MMFF/Contribs.h... Parsing file /<>/Code/ForceField/MMFF/Contribs.h... Preprocessing /<>/Code/ForceField/MMFF/DistanceConstraint.h... Parsing file /<>/Code/ForceField/MMFF/DistanceConstraint.h... Preprocessing /<>/Code/ForceField/MMFF/Nonbonded.h... Parsing file /<>/Code/ForceField/MMFF/Nonbonded.h... Preprocessing /<>/Code/ForceField/MMFF/OopBend.h... Parsing file /<>/Code/ForceField/MMFF/OopBend.h... Preprocessing /<>/Code/ForceField/MMFF/Params.h... Parsing file /<>/Code/ForceField/MMFF/Params.h... Preprocessing /<>/Code/ForceField/MMFF/PositionConstraint.h... Parsing file /<>/Code/ForceField/MMFF/PositionConstraint.h... Preprocessing /<>/Code/ForceField/MMFF/StretchBend.h... Parsing file /<>/Code/ForceField/MMFF/StretchBend.h... Preprocessing /<>/Code/ForceField/MMFF/TorsionAngle.h... Parsing file /<>/Code/ForceField/MMFF/TorsionAngle.h... Preprocessing /<>/Code/ForceField/MMFF/TorsionConstraint.h... Parsing file /<>/Code/ForceField/MMFF/TorsionConstraint.h... Preprocessing /<>/Code/ForceField/UFF/AngleBend.h... Parsing file /<>/Code/ForceField/UFF/AngleBend.h... Preprocessing /<>/Code/ForceField/UFF/AngleConstraint.h... Parsing file /<>/Code/ForceField/UFF/AngleConstraint.h... Preprocessing /<>/Code/ForceField/UFF/BondStretch.h... Parsing file /<>/Code/ForceField/UFF/BondStretch.h... Preprocessing /<>/Code/ForceField/UFF/Contribs.h... Parsing file /<>/Code/ForceField/UFF/Contribs.h... Preprocessing /<>/Code/ForceField/UFF/DistanceConstraint.h... Parsing file /<>/Code/ForceField/UFF/DistanceConstraint.h... Preprocessing /<>/Code/ForceField/UFF/Inversion.h... Parsing file /<>/Code/ForceField/UFF/Inversion.h... Preprocessing /<>/Code/ForceField/UFF/Nonbonded.h... Parsing file /<>/Code/ForceField/UFF/Nonbonded.h... Preprocessing /<>/Code/ForceField/UFF/Params.h... Parsing file /<>/Code/ForceField/UFF/Params.h... Preprocessing /<>/Code/ForceField/UFF/PositionConstraint.h... Parsing file /<>/Code/ForceField/UFF/PositionConstraint.h... Preprocessing /<>/Code/ForceField/UFF/TorsionAngle.h... Parsing file /<>/Code/ForceField/UFF/TorsionAngle.h... Preprocessing /<>/Code/ForceField/UFF/TorsionConstraint.h... Parsing file /<>/Code/ForceField/UFF/TorsionConstraint.h... Preprocessing /<>/Code/Numerics/Alignment/AlignPoints.h... Parsing file /<>/Code/Numerics/Alignment/AlignPoints.h... Preprocessing /<>/Code/Numerics/Conrec.h... Parsing file /<>/Code/Numerics/Conrec.h... Preprocessing /<>/Code/Numerics/EigenSolvers/PowerEigenSolver.h... Parsing file /<>/Code/Numerics/EigenSolvers/PowerEigenSolver.h... Preprocessing /<>/Code/Numerics/Matrix.h... Parsing file /<>/Code/Numerics/Matrix.h... Preprocessing /<>/Code/Numerics/Optimizer/BFGSOpt.h... Parsing file /<>/Code/Numerics/Optimizer/BFGSOpt.h... Preprocessing /<>/Code/Numerics/SquareMatrix.h... Parsing file /<>/Code/Numerics/SquareMatrix.h... Preprocessing /<>/Code/Numerics/SymmMatrix.h... Parsing file /<>/Code/Numerics/SymmMatrix.h... Preprocessing /<>/Code/Numerics/Vector.h... Parsing file /<>/Code/Numerics/Vector.h... Preprocessing /<>/Code/Geometry/Grid3D.h... Parsing file /<>/Code/Geometry/Grid3D.h... Preprocessing /<>/Code/Geometry/GridUtils.h... Parsing file /<>/Code/Geometry/GridUtils.h... Preprocessing /<>/Code/Geometry/point.h... Parsing file /<>/Code/Geometry/point.h... Preprocessing /<>/Code/Geometry/Transform.h... Parsing file /<>/Code/Geometry/Transform.h... Preprocessing /<>/Code/Geometry/Transform2D.h... Parsing file /<>/Code/Geometry/Transform2D.h... Preprocessing /<>/Code/Geometry/Transform3D.h... Parsing file /<>/Code/Geometry/Transform3D.h... Preprocessing /<>/Code/Geometry/UniformGrid3D.h... Parsing file /<>/Code/Geometry/UniformGrid3D.h... Preprocessing /<>/Code/Geometry/Utils.h... Parsing file /<>/Code/Geometry/Utils.h... Preprocessing /<>/Code/Features/Feature.h... Parsing file /<>/Code/Features/Feature.h... Preprocessing /<>/Code/ChemicalFeatures/ChemicalFeature.h... Parsin/<>/Code/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.h:62: warning: documented symbol 'for experimental torsion angle RDKit::DGeomHelpers::preferences' was not declared or defined. /<>/Code/GraphMol/MolOps.h:1082: warning: documented symbol 'modifies molecule in RDKit::MolOps::place' was not declared or defined. /<>/Code/GraphMol/MolOps.h:1098: warning: documented symbol 'modifies molecule in RDKit::MolOps::place' was not declared or defined. /<>/Code/GraphMol/RGroupDecomposition/RGroupUtils.h:93: warning: no matching file member found for RDKIT_RGROUPDECOMPOSITION_EXPORT std::string RDKit::toJSON(const std::map &rgr, const std::string &prefix="") Possible candidates: 'RDKIT_RGROUPDECOMPOSITION_EXPORT std::string toJSON(const RGroupRow &rgr, const std::string &prefix="")' at line 81 of file /<>/Code/GraphMol/RGroupDecomposition/RGroupUtils.h 'RDKIT_RGROUPDECOMPOSITION_EXPORT std::string toJSON(const RGroupRows &rgr, const std::string &prefix="")' at line 85 of file /<>/Code/GraphMol/RGroupDecomposition/RGroupUtils.h 'RDKIT_RGROUPDECOMPOSITION_EXPORT std::string toJSON(const RGroupColumn &rgr, const std::string &prefix="")' at line 89 of file /<>/Code/GraphMol/RGroupDecomposition/RGroupUtils.h /<>/Code/GraphMol/QueryOps.h:525: warning: Found unknown command '\overloadquery' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:84: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:139: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:213: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:80: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:135: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:209: warning: Found unknown command '\override' /<>/Code/GraphMol/QueryOps.h:534: warning: Found unknown command '\overloadquery' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:77: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:132: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:206: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:87: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:142: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:216: warning: Found unknown command '\override' g file /<>/Code/ChemicalFeatures/ChemicalFeature.h... Preprocessing /<>/Code/ChemicalFeatures/FreeChemicalFeature.h... Parsing file /<>/Code/ChemicalFeatures/FreeChemicalFeature.h... Building macro definition list... Building group list... Building directory list... Building namespace list... Building file list... Building class list... Building concept list... Computing nesting relations for classes... Associating documentation with classes... Associating documentation with concepts... Associating documentation with modules... Building example list... Searching for enumerations... Searching for documented typedefs... Searching for members imported via using declarations... Searching for included using directives... Searching for documented variables... Building interface member list... Building member list... Searching for friends... Searching for documented defines... Computing class inheritance relations... Computing class usage relations... Flushing cached template relations that have become invalid... Computing class relations... Add enum values to enums... Searching for member function documentation... Creating members for template instances... Building page list... Search for main page... Computing page relations... Determining the scope of groups... Computing module relations... Sorting lists... Determining which enums are documented Computing member relations... Building full member lists recursively... Adding members to member groups. Computing member references... Inheriting documentation... Generating disk names... Adding source references... Adding xrefitems... Sorting member lists... Setting anonymous enum type... Computing dependencies between directories... Generating citations page... Counting members... Counting data structures... Resolving user defined references... Finding anchors and sections in the documentation... Transferring function references... Combining using relations... Adding members to index pages... Correcting members for VHDL... Computing tooltip texts... Generating style sheet... Generating search indices... Generating example documentation... Generating file sources... Generating code for file Catalog.h... Generating code for file CatalogEntry.h... Generating code for file CatalogParams.h... Generating code for file ChemicalFeature.h... Generating code for file FreeChemicalFeature.h... Generating code for file MetricFuncs.h... Generating code for file MetricMatrixCalc.h... Generating code for file base64.h... Generating code for file BitOps.h... Generating code for file BitVect.h... Generating code for file BitVects.h... Generating code for file BitVectUtils.h... Generating code for file DatastructsException.h... Generating code for file DatastructsStreamOps.h... Generating code for file DiscreteDistMat.h... Generating code for file DiscreteValueVect.h... Generating code for file ExplicitBitVect.h... Generating code for file FPBReader.h... Generating code for file MultiFPBReader.h... Generating code for file SparseBitVect.h... Generating code for file SparseIntVect.h... Generating code for file BoundsMatrix.h... Generating code for file ChiralSet.h... Generating code for file ChiralViolationContrib.h... Generating code for file DistGeomUtils.h... Generating code for file DistViolationContrib.h... Generating code for file FourthDimContrib.h... Generating code for file TriangleSmooth.h... Generating code for file Feature.h... Generating code for file Contrib.h... Generating code for file ForceField.h... Generating code for file AngleBend.h... Generating code for file AngleBend.h... Generating code for file AngleConstraint.h... Generating code for file AngleConstraint.h... Generating code for file BondStretch.h... Generating code for file BondStretch.h... Generating code for file Contribs.h... Generating code for file Contribs.h... Generating code for file DistanceConstraint.h... Generating code for file DistanceConstraint.h... Generating code for file Nonbonded.h... Generating code for file Nonbonded.h... Generating code for file OopBend.h... Generating code for file Params.h... Generating code for file Params.h... Generating code for file PositionConstraint.h... Generating code for file PositionConstraint.h... Generating code for file StretchBend.h... Generating code for file TorsionAngle.h... Generating code for file TorsionAngle.h... Generating code for file TorsionConstraint.h... Generating code for file TorsionConstraint.h... Generating code for file Inversion.h... Generating code for file Grid3D.h... Generating code for file GridUtils.h... Generating code for file point.h... Generating code for file Transform.h... Generating code for file Transform2D.h... Generating code for file Transform3D.h... Generating code for file UniformGrid3D.h... Generating code for file Utils.h... Generating code for file Abbreviations.h... Generating code for file Atom.h... Generating code for file atomic_data.h... Generating code for file AtomIterators.h... Generating code for file Bond.h... Generating code for file BondIterators.h... Generating code for file Canon.h... Generating code for file CartesianProduct.h... Generating code for file Enumerate.h... Generating code for file EnumerateBase.h... Generating code for file EnumerateTypes.h... Generating code for file EnumerationPickler.h... Generating code for file EnumerationStrategyBase.h... Generating code for file EvenSamplePairs.h... Generating code for file RandomSample.h... Generating code for file RandomSampleAllBBs.h... Generating code for file PreprocessRxn.h... Generating code for file Reaction.h... Generating code for file ReactionFingerprints.h... Generating code for file ReactionParser.h... Generating code for file ReactionPickler.h... Generating code for file ReactionRunner.h... Generating code for file ReactionUtils.h... Generating code for file SanitizeRxn.h... Generating code for file ChemTransforms.h... Generating code for file MolFragmenter.h... Generating code for file Chirality.h... Generating code for file CIPLabeler.h... Generating code for file CIPMol.h... Generating code for file Configuration.h... Generating code for file Sp2Bond.h... Generating code for file Tetrahedral.h... Generating code for file Descriptor.h... Generating code for file Digraph.h... Generating code for file Edge.h... Generating code for file Mancude.h... Generating code for file Node.h... Generating code for file Priority.h... Generating code for file Pairlist.h... Generating code for file Rule1a.h... Generating code for file Rule1b.h... Generating code for file Rule2.h... Generating code for file Rule3.h... Generating code for file Rule4a.h... Generating code for file Rule4b.h... Generating code for file Rule4c.h... Generating code for file Rule5.h... Generating code for file Rule5New.h... Generating code for file Rule6.h... Generating code for file Rules.h... Generating code for file SequenceRule.h... Generating code for file Sort.h... Generating code for file TooManyNodesException.h... Generating code for file Conformer.h... Generating code for file DepictUtils.h... Generating code for file EmbeddedFrag.h... Generating code for file RDDepictor.h... Generating code for file Templates.h... Generating code for file TemplateSmiles.h... Generating code for file Deprotect.h... Generating code for file AtomFeat.h... Generating code for file AUTOCORR2D.h... Generating code for file AUTOCORR3D.h... Generating code for file BCUT.h... Generating code for file ConnectivityDescriptors.h... Generating code for file CoulombMat.h... Generating code for file Crippen.h... Generating code for file Data3Ddescriptors.h... Generating code for file EEM.h... Generating code for file GETAWAY.h... Generating code for file Lipinski.h... Generating code for file MolData3Ddescriptors.h... Generating code for file MolDescriptors.h... Generating code for file MolDescriptors3D.h... Generating code for file MolSurf.h... Generating code for file MORSE.h... Generating code for file MQN.h... Generating code for file OxidationNumbers.h... Generating code for file PBF.h... Generating code for file PMI.h... Generating code for file Property.h... Generating code for file RDF.h... Generating code for file RegisterDescriptor.h... Generating code for file USRDescriptor.h... Generating code for file WHIM.h... Generating code for file details.h... Generating code for file details.h... Generating code for file DetermineBonds.h... Generating code for file BoundsMatrixBuilder.h... Generating code for file Embedder.h... Generating code for file CDXMLParser.h... Generating code for file FileParsers.h... Generating code for file FileParserUtils.h... Generating code for file GeneralFileReader.h... Generating code for file MolFileStereochem.h... Generating code for file MolSGroupParsing.h... Generating code for file MolSGroupWriting.h... Generating code for file MolSupplier.h... Generating code for file MolWriters.h... Generating code for file MultithreadedMolSupplier.h... Generating code for file MultithreadedSDMolSupplier.h... Generating code for file MultithreadedSmilesMolSupplier.h... Generating code for file PNGParser.h... Generating code for file ProximityBonds.h... Generating code for file SequenceParsers.h... Generating code for file SequenceWriters.h... Generating code for file FilterCatalog.h... Generating code for file FilterCatalogEntry.h... Generating code for file FilterMatcherBase.h... Generating code for file FilterMatchers.h... Generating code for file Filters.h... Generating code for file FunctionalGroupHierarchy.h... Generating code for file AtomPairGenerator.h... Generating code for file AtomPairs.h... Generating code for file FingerprintGenerator.h... Generating code for file Fingerprints.h... Generating code for file FingerprintUtil.h... Generating code for file MACCS.h... Generating code for file MHFP.h... Generating code for file MorganFingerprints.h... Generating code for file MorganGenerator.h... Generating code for file RDKitFPGenerator.h... Generating code for file TopologicalTorsionGenerator.h... Generating code for file Composition2N.h... Generating code for file DebugTrace.h... Generating code for file DuplicatedSeedCache.h... Generating code for file FMCS.h... Generating code for file Graph.h... Generating code for file MatchTable.h... Generating code for file MaximumCommonSubgraph.h... Generating code for file Seed.h... Generating code for file SeedSet.h... Generating code for file SubstructMatchCustom.h... Generating code for file SubstructureCache.h... Generating code for file Target.h... Generating code for file TargetMatch.h... Generating code for file TorsionAngleM6.h... Generating code for file TorsionPreferences.h... Generating code for file FFConvenience.h... Generating code for file AtomTyper.h... Generating code for file AtomTyper.h... Generating code for file Builder.h... Generating code for file Builder.h... Generating code for file MMFF.h... Generating code for file UFF.h... Generating code for file FragCatalogEntry.h... Generating code for file FragCatalogUtils.h... Generating code for file FragCatGenerator.h... Generating code for file FragCatParams.h... Generating code for file FragFPGenerator.h... Generating code for file XQMol.h... Generating code for file GenericGroups.h... Generating code for file GraphMol.h... Generating code for file MarvinDefs.h... Generating code for file MarvinParser.h... Generating code for file MMPA.h... Generating code for file AlignMolecules.h... Generating code for file O3AAlignMolecules.h... Generating code for file MolBundle.h... Generating code for file MolCatalog.h... Generating code for file MolCatalogEntry.h... Generating code for file MolCatalogParams.h... Generating code for file FeatureParser.h... Generating code for file MolChemicalFeature.h... Generating code for file MolChemicalFeatureDef.h... Generating code for file MolChemicalFeatureFactory.h... Generating code for file AtomSymbol.h... Generating code for file DrawAnnotation.h... Generating code for file DrawMol.h... Generating code for file DrawMolMCH.h... Generating code for file DrawMolMCHCircleAndLine.h... Generating code for file DrawMolMCHLasso.h... Generating code for file DrawShape.h... Generating code for file DrawText.h... Generating code for file DrawTextCairo.h... Generating code for file DrawTextFT.h... Generating code for file DrawTextFTCairo.h... Generating code for file DrawTextFTJS.h... Generating code for file DrawTextFTSVG.h... Generating code for file DrawTextJS.h... Generating code for file DrawTextNotFT.h... Generating code for file DrawTextSVG.h... Generating code for file roboto_regular.h... Generating code for file telex_regular.h... Generating code for file MolDraw2D.h... Generating code for file MolDraw2DCairo.h... Generating code for file MolDraw2DDetails.h... Generating code for file MolDraw2DHelpers.h... Generating code for file MolDraw2DJS.h... Generating code for file MolDraw2DSVG.h... Generating code for file MolDraw2DUtils.h... Generating code for file MolDraw2Dwx.h... Generating code for file DrawTextFTQt.h... Generating code for file DrawTextQt.h... Generating code for file MolDraw2DQt.h... Generating code for file StringRect.h... Generating code for file LinkNode.h... Generating code for file MolEnumerator.h... Generating code for file mf.h... Generating code for file MolHash.h... Generating code for file nmmolhash.h... Generating code for file MolInterchange.h... Generating code for file MolOps.h... Generating code for file MolPickler.h... Generating code for file AcidBaseCatalogEntry.h... Generating code for file AcidBaseCatalogParams.h... Generating code for file AcidBaseCatalogUtils.h... Generating code for file Charge.h... Generating code for file Fragment.h... Generating code for file FragmentCatalogEntry.h... Generating code for file FragmentCatalogParams.h... Generating code for file FragmentCatalogUtils.h... Generating code for file Metal.h... Generating code for file MolStandardize.h... Generating code for file Normalize.h... Generating code for file Tautomer.h... Generating code for file Tautomer.h... Generating code for file TautomerCatalogEntry.h... Generating code for file TautomerCatalogParams.h... Generating code for file TautomerCatalogUtils.h... Generating code for file TransformCatalogEntry.h... Generating code for file TransformCatalogParams.h... Generating code for file TransformCatalogUtils.h... Generating code for file Validate.h... Generating code for file MolTransforms.h... Generating code for file MonomerInfo.h... Generating code for file new_canon.h... Generating code for file GasteigerCharges.h... Generating code for file GasteigerParams.h... Generating code for file PeriodicTable.h... Generating code for file QueryAtom.h... Generating code for file QueryBond.h... Generating code for file QueryOps.h... Generating code for file PartitionSet.h... Generating code for file RascalClusterOptions.h... Generating code for file RascalDetails.h... Generating code for file RascalMCES.h... Generating code for file RascalOptions.h... Generating code for file RascalResult.h... Generating code for file RDKitBase.h... Generating code for file RDKitQueries.h... Generating code for file ReducedGraphs.h... Generating code for file Resonance.h... Generating code for file RGroupCore.h... Generating code for file RGroupData.h... Generating code for file RGroupDecomp.h... Generating code for file RGroupDecompData.h... Generating code for file RGroupDecompParams.h... Generating code for file RGroupFingerprintScore.h... Generating code for file RGroupGa.h... Generating code for file RGroupMatch.h... Generating code for file RGroupScore.h... Generating code for file RGroupUtils.h... Generating code for file RingInfo.h... Generating code for file Rings.h... Generating code for file ROMol.h... Generating code for file RWMol.h... Generating code for file SanitException.h... Generating code for file detail.h... Generating code for file ScaffoldNetwork.h... Generating code for file ShapeEncoder.h... Generating code for file ShapeUtils.h... Generating code for file SLNAttribs.h... Generating code for file SLNParse.h... Generating code for file SLNParseOps.h... Generating code for file primes.h... Generating code for file SmartsWrite.h... Generating code for file SmilesParse.h... Gene/<>/Code/DataStructs/BitOps.h:188: warning: found at different nesting level (7) than expected (4) /<>/Code/DataStructs/BitOps.h:189: warning: end of comment block while expecting command rating code for file SmilesParseOps.h... Generating code for file SmilesWrite.h... Generating code for file StereoGroup.h... Generating code for file Pattern.h... Generating code for file ReCharge.h... Generating code for file Stereo.h... Generating code for file StripSmallFragments.h... Generating code for file StructChecker.h... Generating code for file StructCheckerOptions.h... Generating code for file Utilites.h... Generating code for file Subgraphs.h... Generating code for file SubgraphUtils.h... Generating code for file SubstanceGroup.h... Generating code for file SubstructMatch.h... Generating code for file SubstructUtils.h... Generating code for file PatternFactory.h... Generating code for file SubstructLibrary.h... Generating code for file SubstructLibrarySerialization.h... Generating code for file TautomerQuery.h... Generating code for file Snapshot.h... Generating code for file Trajectory.h... Generating code for file CorrMatGenerator.h... Generating code for file InfoBitRanker.h... Generating code for file InfoGainFuncs.h... Generating code for file AlignPoints.h... Generating code for file Conrec.h... Generating code for file PowerEigenSolver.h... Generating code for file Matrix.h... Generating code for file BFGSOpt.h... Generating code for file SquareMatrix.h... Generating code for file SymmMatrix.h... Generating code for file Vector.h... Generating code for file AndQuery.h... Generating code for file EqualityQuery.h... Generating code for file GreaterEqualQuery.h... Generating code for file GreaterQuery.h... Generating code for file LessEqualQuery.h... Generating code for file LessQuery.h... Generating code for file NullQueryAlgebra.h... Generating code for file OrQuery.h... Generating code for file Query.h... Generating code for file QueryObjects.h... Generating code for file RangeQuery.h... Generating code for file SetQuery.h... Generating code for file XOrQuery.h... Generating code for file boost_numpy.h... Generating code for file import_array.h... Generating code for file pyint_api.h... Generating code for file PySequenceHolder.h... Generating code for file python.h... Generating code for file python_streambuf.h... Generating code for file BadFileException.h... Generating code for file BoostEndInclude.h... Generating code for file BoostStartInclude.h... Generating code for file ConcurrentQueue.h... Generating code for file Dict.h... Generating code for file Exceptions.h... Generating code for file export.h... Generating code for file FileParseException.h... Generating code for file hanoiSort.h... Generating code for file Invariant.h... Generating code for file LocaleSwitcher.h... Generating code for file Ranking.h... Generating code for file RDAny.h... Generating code for file RDConfig.h... Generating code for file RDExportMacros.h... Generating code for file RDLog.h... Generating code for file RDProps.h... Generating code for file RDThreads.h... Generating code for file RDValue-doublemagic.h... Generating code for file RDValue-taggedunion.h... Generating code for file RDValue.h... Generating code for file StreamOps.h... Generating code for file types.h... Generating code for file utils.h... Generating code for file versions.h... Generating code for file DistPicker.h... Generating code for file HierarchicalClusterPicker.h... Generating code for file LeaderPicker.h... Generating code for file MaxMinPicker.h... Generating file documentation... Generating docs for file Catalog.h... Generating docs for file CatalogEntry.h... Generating docs for file CatalogParams.h... Generating docs for file ChemicalFeature.h... Generating docs for file FreeChemicalFeature.h... Generating docs for file MetricFuncs.h... Generating docs for file MetricMatrixCalc.h... Generating docs for file base64.h... Generating docs for file BitOps.h... Generating docs for file BitVect.h... Generating docs for file BitVects.h... Generating docs for file BitVectUtils.h... Generating docs for file DatastructsException.h... Generating docs for file DatastructsStreamOps.h... Generating docs for file DiscreteDistMat.h... Generating docs for file DiscreteValueVect.h... Generating docs for file ExplicitBitVect.h... Generating docs for file FPBReader.h... Generating docs for file MultiFPBReader.h... Generating docs for file SparseBitVect.h... Generating docs for file SparseIntVect.h... Generating docs for file BoundsMatrix.h... Generating docs for file ChiralSet.h... Generating docs for file ChiralViolationContrib.h... Generating docs for file DistGeomUtils.h... Generating docs for file DistViolationContrib.h... Generating docs for file FourthDimContrib.h... Generating docs for file TriangleSmooth.h... Generating docs for file Feature.h... Generating docs for file Contrib.h... Generating docs for file ForceField.h... Generating docs for file AngleBend.h... Generating docs for file AngleBend.h... Generating docs for file AngleConstraint.h... Generating docs for file AngleConstraint.h... Generating docs for file BondStretch.h... Generating docs for file BondStretch.h... Generating docs for file Contribs.h... Generating docs for file Contribs.h... Generating docs for file DistanceConstraint.h... Generating docs for file DistanceConstraint.h... Generating docs for file Nonbonded.h... Generating docs for file Nonbonded.h... Generating docs for file OopBend.h... Generating docs for file Params.h... Generating docs for file Params.h... Generating docs for file PositionConstraint.h... Generating docs for file PositionConstraint.h... Generating docs for file StretchBend.h... Generating docs for file TorsionAngle.h... Generating docs for file TorsionAngle.h... Generating docs for file TorsionConstraint.h... Generating docs for file TorsionConstraint.h... Generating docs for file Inversion.h... Generating docs for file Grid3D.h... Generating docs for file GridUtils.h... Generating docs for file point.h... Generating docs for file Transform.h... Generating docs for file Transform2D.h... Generating docs for file Transform3D.h... Generating docs for file UniformGrid3D.h... Generating docs for file Utils.h... Generating docs for file Abbreviations.h... Generating docs for file Atom.h... Generating docs for file atomic_data.h... Generating docs for file AtomIterators.h... Generating docs for file Bond.h... Generating docs for file BondIterators.h... Generating docs for file Canon.h... Generating docs for file CartesianProduct.h... Generating docs for file Enumerate.h... Generating docs for file EnumerateBase.h... Generating docs for file EnumerateTypes.h... Generating docs for file EnumerationPickler.h... Generating docs for file EnumerationStrategyBase.h... Generating docs for file EvenSamplePairs.h... Generating docs for file RandomSample.h... Generating docs for file RandomSampleAllBBs.h... Generating docs for file PreprocessRxn.h... Generating docs for file Reaction.h... Generating docs for file ReactionFingerprints.h... Generating docs for file ReactionParser.h... Generating docs for file ReactionPickler.h... Generating docs for file ReactionRunner.h... Generating docs for file ReactionUtils.h... Generating docs for file SanitizeRxn.h... Generating docs for file ChemTransforms.h... Generating docs for file MolFragmenter.h... Generating docs for file Chirality.h... Generating docs for file CIPLabeler.h... Generating docs for file CIPMol.h... Generating docs for file Configuration.h... Generating docs for file Sp2Bond.h... Generating docs for file Tetrahedral.h... Generating docs for file Descriptor.h... Generating docs for file Digraph.h... Generating docs for file Edge.h... Generating docs for file Mancude.h... Generating docs for file Node.h... Generating docs for file Priority.h... Generating docs for file Pairlist.h... Generating docs for file Rule1a.h... Generating docs for file Rule1b.h... Generating docs for file Rule2.h... Generating docs for file Rule3.h... Generating docs for file Rule4a.h... Generating docs for file Rule4b.h... Generating docs for file Rule4c.h... Generating docs for file Rule5.h... Generating docs for file Rule5New.h... Generating docs for file Rule6.h... Generating docs for file Rules.h... Generating docs for file SequenceRule.h... Generating docs for file Sort.h... Generating docs for file TooManyNodesException.h... Generating docs for file Conformer.h... Generating docs for file DepictUtils.h... Generating docs for file EmbeddedFrag.h... Generating docs for file RDDepictor.h... Generating docs for file Templates.h... Generating docs for file TemplateSmiles.h... Generating docs for file Deprotect.h... Generating docs for file AtomFeat.h... Generating docs for file AUTOCORR2D.h... Generating docs for file AUTOCORR3D.h... Generating docs for file BCUT.h... Generating docs for file ConnectivityDescriptors.h... Generating docs for file CoulombMat.h... Generating docs for file Crippen.h... Generating docs for file Data3Ddescriptors.h... Generating docs for file EEM.h... Generating docs for file GETAWAY.h... Generating docs for file Lipinski.h... Generating docs for file MolData3Ddescriptors.h... Generating docs for file MolDescriptors.h... Generating docs for file MolDescriptors3D.h... Generating docs for file MolSurf.h... Generating docs for file MORSE.h... Generating docs for file MQN.h... Generating docs for file OxidationNumbers.h... Generating docs for file PBF.h... Generating docs for file PMI.h... Generating docs for file Property.h... Generating docs for file RDF.h... Generating docs for file RegisterDescriptor.h... Generating docs for file USRDescriptor.h... Generating docs for file WHIM.h... Generating docs for file details.h... Generating docs for file details.h... Generating docs for file DetermineBonds.h... Generating docs for file BoundsMatrixBuilder.h... Generating docs for file Embedder.h... Generating docs for file CDXMLParser.h... Generating docs for file FileParsers.h... Generating docs for file FileParserUtils.h... Generating docs for file GeneralFileReader.h... Generating docs for file MolFileStereochem.h... Generating docs for file MolSGroupParsing.h... Generating docs for file MolSGroupWriting.h... Generating docs for file MolSupplier.h... Generating docs for file MolWriters.h... Generating docs for file MultithreadedMolSupplier.h... Generating docs for file MultithreadedSDMolSupplier.h... Generating docs for file MultithreadedSmilesMolSupplier.h... Generating docs for file PNGParser.h... Generating docs for file ProximityBonds.h... Generating docs for file SequenceParsers.h... Generating docs for file SequenceWriters.h... Generating docs for file FilterCatalog.h... Generating docs for file FilterCatalogEntry.h... Generating docs for file FilterMatcherBase.h... Generating docs for file FilterMatchers.h... Generating docs for file Filters.h... Generating docs for file FunctionalGroupHierarchy.h... Generating docs for file AtomPairGenerator.h... Generating docs for file AtomPairs.h... Generating docs for file FingerprintGenerator.h... Generating docs for file Fingerprints.h... Generating docs for file FingerprintUtil.h... Generating docs for file MACCS.h... Generating docs for file MHFP.h... Generating docs for file MorganFingerprints.h... Generating docs for file MorganGenerator.h... Generating docs for file RDKitFPGenerator.h... Generating docs for file TopologicalTorsionGenerator.h... Generating docs for file Composition2N.h... Generating docs for file DebugTrace.h... Generating docs for file DuplicatedSeedCache.h... Generating docs for file FMCS.h... Generating docs for file Graph.h... Generating docs for file MatchTable.h... Generating docs for file MaximumCommonSubgraph.h... Generating docs for file Seed.h... Generating docs for file SeedSet.h... Generating docs for file SubstructMatchCustom.h... Generating docs for file SubstructureCache.h... Generating docs for file Target.h... Generating docs for file TargetMatch.h... Generating docs for file TorsionAngleM6.h... Generating docs for file TorsionPreferences.h... Generating docs for file FFConvenience.h... Generating docs for file AtomTyper.h... Generating docs for file AtomTyper.h... Generating docs for file Builder.h... Generating docs for file Builder.h... Generating docs for file MMFF.h... Generating docs for file UFF.h... Generating docs for file FragCatalogEntry.h... Generating d/<>/Code/GraphMol/QueryOps.h:525: warning: Found unknown command '\overloadquery' /<>/Code/GraphMol/QueryOps.h:534: warning: Found unknown command '\overloadquery' ocs for file FragCatalogUtils.h... Generating docs for file FragCatGenerator.h... Generating docs for file FragCatParams.h... Generating docs for file FragFPGenerator.h... Generating docs for file XQMol.h... Generating docs for file GenericGroups.h... Generating docs for file GraphMol.h... Generating docs for file MarvinDefs.h... Generating docs for file MarvinParser.h... Generating docs for file MMPA.h... Generating docs for file AlignMolecules.h... Generating docs for file O3AAlignMolecules.h... Generating docs for file MolBundle.h... Generating docs for file MolCatalog.h... Generating docs for file MolCatalogEntry.h... Generating docs for file MolCatalogParams.h... Generating docs for file FeatureParser.h... Generating docs for file MolChemicalFeature.h... Generating docs for file MolChemicalFeatureDef.h... Generating docs for file MolChemicalFeatureFactory.h... Generating docs for file AtomSymbol.h... Generating docs for file DrawAnnotation.h... Generating docs for file DrawMol.h... Generating docs for file DrawMolMCH.h... Generating docs for file DrawMolMCHCircleAndLine.h... Generating docs for file DrawMolMCHLasso.h... Generating docs for file DrawShape.h... Generating docs for file DrawText.h... Generating docs for file DrawTextCairo.h... Generating docs for file DrawTextFT.h... Generating docs for file DrawTextFTCairo.h... Generating docs for file DrawTextFTJS.h... Generating docs for file DrawTextFTSVG.h... 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Generating docs for file SmilesWrite.h... Generating docs for file StereoGroup.h... Generating docs for file Pattern.h... Generating docs for file ReCharge.h... Generating docs for file Stereo.h... Generating docs for file StripSmallFragments.h... Generating docs for file StructChecker.h... Generating docs for file StructCheckerOptions.h... Generating docs for file Utilites.h... Generating docs for file Subgraphs.h... Generating docs for file SubgraphUtils.h... Generating docs for file SubstanceGroup.h... Generating docs for file SubstructMatch.h... Generating docs for file SubstructUtils.h... Generating docs for file PatternFactory.h... Generating docs for file SubstructLibrary.h... Generating docs for file SubstructLibrarySerialization.h... Generating docs for file TautomerQuery.h... Generating docs for file Snapshot.h... Generating docs for file Trajectory.h... Generating docs for file CorrMatGenerator.h... Generating docs for file InfoBitRanker.h... Generating docs for file InfoGainFuncs.h... Generating docs for file AlignPoints.h... Generating docs for file Conrec.h... Generating docs for file PowerEigenSolver.h... Generating docs for file Matrix.h... Generating docs for file BFGSOpt.h... Generating docs for file SquareMatrix.h... Generating docs for file SymmMatrix.h... Generating docs for file Vector.h... Generating docs for file AndQuery.h... Generating docs for file EqualityQuery.h... Generating docs for file GreaterEqualQuery.h... Generating docs for file GreaterQuery.h... Generating docs for file LessEqualQuery.h... Generating docs for file LessQuery.h... Generating docs for file NullQueryAlgebra.h... Generating docs for file OrQuery.h... Generating docs for file Query.h... Generating docs for file QueryObjects.h... Generating docs for file RangeQuery.h... Generating docs for file SetQuery.h... Generating docs for file XOrQuery.h... Generating docs for file boost_numpy.h... Generating docs for file import_array.h... Generating docs for file pyint_api.h... Generating docs for file PySequenceHolder.h... Generating docs for file python.h... Generating docs for file python_streambuf.h... Generating docs for file BadFileException.h... Generating docs for file BoostEndInclude.h... Generating docs for file BoostStartInclude.h... Generating docs for file ConcurrentQueue.h... Generating docs for file Dict.h... Generating docs for file Exceptions.h... Generating docs for file export.h... Generating docs for file FileParseException.h... Generating docs for file hanoiSort.h... Generating docs for file Invariant.h... Generating docs for file LocaleSwitcher.h... Generating docs for file Ranking.h... Generating docs for file RDAny.h... Generating docs for file RDConfig.h... Generating docs for file RDExportMacros.h... Generating docs for file RDLog.h... Generating docs for file RDProps.h... Generating docs for file RDTh/<>/Code/DistGeom/DistGeomUtils.h:95: warning: The following parameter of DistGeom::constructForceField(const BoundsMatrix &mmat, RDGeom::PointPtrVect &positions, const VECT_CHIRALSET &csets, double weightChiral=1.0, double weightFourthDim=0.1, std::map< std::pair< int, int >, double > *extraWeights=nullptr, double basinSizeTol=5.0, boost::dynamic_bitset<> *fixedPts=nullptr) is not documented: parameter 'fixedPts' /<>/Code/ForceField/ForceField.h:159: warning: argument 'snapshotFreq' of command @param is not found in the argument list of ForceFields::ForceField::minimize(unsigned int maxIts=200, double forceTol=1e-4, double energyTol=1e-6) /<>/Code/ForceField/ForceField.h:159: warning: argument 'snapshotVect' of command @param is not found in the argument list of ForceFields::ForceField::minimize(unsigned int maxIts=200, double forceTol=1e-4, double energyTol=1e-6) /<>/Code/ForceField/ForceField.h:144: warning: The following parameters of ForceFields::ForceField::minimize(unsigned int snapshotFreq, RDKit::SnapshotVect *snapshotVect, unsigned int maxIts=200, double forceTol=1e-4, double energyTol=1e-6) are not documented: parameter 'snapshotFreq' parameter 'snapshotVect' /<>/Code/ForceField/MMFF/AngleBend.h:31: warning: argument 'angleType' of command @param is not found in the argument list of ForceFields::MMFF::AngleBendContrib::AngleBendContrib(ForceField *owner, unsigned int idx1, unsigned int idx2, unsigned int idx3, const MMFFAngle *mmffAngleParams, const MMFFProp *mmffPropParamsCentralAtom) /<>/Code/ForceField/MMFF/AngleBend.h:31: warning: The following parameters of ForceFields::MMFF::AngleBendContrib::AngleBendContrib(ForceField *owner, unsigned int idx1, unsigned int idx2, unsigned int idx3, const MMFFAngle *mmffAngleParams, const MMFFProp *mmffPropParamsCentralAtom) are not documented: parameter 'mmffAngleParams' parameter 'mmffPropParamsCentralAtom' /<>/Code/ForceField/MMFF/AngleConstraint.h:28: warning: argument 'minAngle' of command @param is not found in the argument list of ForceFields::MMFF::AngleConstraintContrib::AngleConstraintContrib(ForceField *owner, unsigned int idx1, unsigned int idx2, unsigned int idx3, double minAngleDeg, double maxAngleDeg, double forceConst) /<>/Code/ForceField/MMFF/AngleConstraint.h:28: warning: argument 'maxAngle' of command @param is not found in the argument list of ForceFields::MMFF::AngleConstraintContrib::AngleConstraintContrib(ForceField *owner, unsigned int idx1, unsigned int idx2, unsigned int idx3, double minAngleDeg, double maxAngleDeg, double forceConst) /<>/Code/ForceField/MMFF/AngleConstraint.h:28: warning: The following parameters of ForceFields::MMFF::AngleConstraintContrib::AngleConstraintContrib(ForceField *owner, unsigned int idx1, unsigned int idx2, unsigned int idx3, double minAngleDeg, double maxAngleDeg, double forceConst) are not documented: parameter 'minAngleDeg' parameter 'maxAngleDeg' /<>/Code/ForceField/MMFF/BondStretch.h:28: warning: argument 'bondType' of command @param is not found in the argument list of ForceFields::MMFF::BondStretchContrib::BondStretchContrib(ForceField *owner, const unsigned int idx1, const unsigned int idx2, const MMFFBond *mmffBondParams) /<>/Code/ForceField/MMFF/BondStretch.h:28: warning: argument 'end1Params' of command @param is not found in the argument list of ForceFields::MMFF::BondStretchContrib::BondStretchContrib(ForceField *owner, const unsigned int idx1, const unsigned int idx2, const MMFFBond *mmffBondParams) /<>/Code/ForceField/MMFF/BondStretch.h:28: warning: argument 'end2Params' of command @param is not found in the argument list of ForceFields::MMFF::BondStretchContrib::BondStretchContrib(ForceField *owner, const unsigned int idx1, const unsigned int idx2, const MMFFBond *mmffBondParams) /<>/Code/ForceField/MMFF/BondStretch.h:28: warning: The following parameter of ForceFields::MMFF::BondStretchContrib::BondStretchContrib(ForceField *owner, const unsigned int idx1, const unsigned int idx2, const MMFFBond *mmffBondParams) is not documented: parameter 'mmffBondParams' /<>/Code/ForceField/MMFF/Nonbonded.h:54: warning: The following parameters of ForceFields::MMFF::EleContrib::EleContrib(ForceField *owner, unsigned int idx1, unsigned int idx2, double chargeTerm, std::uint8_t dielModel, bool is1_4) are not documented: parameter 'chargeTerm' parameter 'dielModel' parameter 'is1_4' reads.h... Generating docs for file RDValue-doublemagic.h... Generating docs for file RDValue-taggedunion.h... Generating docs for file RDValue.h... Generating docs for file StreamOps.h... Generating docs for file types.h... Generating docs for file utils.h... Generating docs for file versions.h... Generating docs for file DistPicker.h... Generating docs for file HierarchicalClusterPicker.h... Generating docs for file LeaderPicker.h... Generating docs for file MaxMinPicker.h... Generating page documentation... Generating docs for page deprecated... Generating group documentation... Generating class documentation... Generating docs for compound BitVect... Generating docs for compound Data3Ddescriptors... Generating docs for compound DatastructsException... Generating docs for compound ExplicitBitVect... Generating docs for compound IndexErrorException... Generating docs for compound KeyErrorException... Generating docs for compound MolData3Ddescriptors... Generating docs for compound PySequenceHolder... Generating docs for compound SparseBitVect... Generating docs for compound ValueErrorException... Generating concept documentation... Generating module documentation... Generating namespace documentation... Generating docs for namespace BFGSOpt Generating docs for namespace boost Generating docs for namespace boost::logging Generating docs for compound boost::logging::rdLogger... Generating docs for namespace boost_adaptbx Generating docs for namespace boost_adaptbx::python Generating docs for compound boost_adaptbx::python::ostream... Generating docs for compound boost_adaptbx::python::streambuf... Generating docs for nested compound boost_adaptbx::python::streambuf::istream... Generating docs for nested compound boost_adaptbx::python::streambuf::ostream... Generating docs for compound boost_adaptbx::python::streambuf_capsule... Generating docs for namespace ChemicalFeatures Generating docs for compound ChemicalFeatures::ChemicalFeature... Generating docs for compound ChemicalFeatures::FreeChemicalFeature... Generating docs for namespace conrec Generating docs for compound conrec::ConrecSegment... Generating docs for compound conrec::tplHash... Generating docs for namespace DistGeom Generating docs for compound DistGeom::BoundsMatrix... Generating docs for compound DistGeom::ChiralSet... Generating docs for compound DistGeom::ChiralViolationContrib... Generating docs for compound DistGeom::DistViolationContrib... Generating docs for compound DistGeom::FourthDimContrib... Generating docs for namespace ForceFields Generating docs for compound ForceFields::ForceField... Generating docs for compound ForceFields::ForceFieldContrib... Generating docs for namespace ForceFields::CrystalFF Generating docs for compound ForceFields::CrystalFF::CrystalFFDetails... Generating docs for compound ForceFields::CrystalFF::ExpTorsionAngle... Generating docs for compound ForceFields::CrystalFF::TorsionAngleContribM6... Generating docs for namespace ForceFields::MMFF Generating docs for compound ForceFields::MMFF::AngleBendContrib... Generating docs for compound ForceFields::MMFF::AngleConstraintContrib... Generating docs for compound ForceFields::MMFF::BondStretchContrib... Generating docs for compound ForceFields::MMFF::DistanceConstraintContrib... Generating docs for compound ForceFields::MMFF::EleContrib... Generating docs for compound ForceFields::MMFF::MMFFAngle... Generating docs for compound ForceFields::MMFF::MMFFAngleCollection... Generating docs for compound ForceFields::MMFF::MMFFAromCollection... Generating docs for compound ForceFields::MMFF::MMFFBndkCollection... Generating docs for compound ForceFields::MMFF::MMFFBond... Generating docs for compound ForceFields::MMFF::MMFFBondCollection... Generating docs for compound ForceFields::MMFF::MMFFChg... Generating docs for compound ForceFields::MMFF::MMFFChgCollection... Generating docs for compound ForceFields::MMFF::MMFFCovRadPauEle... Generating docs for compound ForceFields::MMFF::MMFFCovRadPauEleCollection... Generating docs for compound ForceFields::MMFF::MMFFDef... Generating/<>/Code/ForceField/MMFF/PositionConstraint.h:29: warning: argument 'minDispl' of command @param is not found in the argument list of ForceFields::MMFF::PositionConstraintContrib::PositionConstraintContrib(ForceField *owner, unsigned int idx, double maxDispl, double forceConst) /<>/Code/ForceField/MMFF/StretchBend.h:32: warning: argument 'angleType' of command @param is not found in the argument list of ForceFields::MMFF::StretchBendContrib::StretchBendContrib(ForceField *owner, const unsigned int idx1, const unsigned int idx2, const unsigned int idx3, const MMFFStbn *mmffStbnParams, const MMFFAngle *mmffAngleParams, const MMFFBond *mmffBondParams1, const MMFFBond *mmffBondParams2) /<>/Code/ForceField/MMFF/StretchBend.h:32: warning: The following parameters of ForceFields::MMFF::StretchBendContrib::StretchBendContrib(ForceField *owner, const unsigned int idx1, const unsigned int idx2, const unsigned int idx3, const MMFFStbn *mmffStbnParams, const MMFFAngle *mmffAngleParams, const MMFFBond *mmffBondParams1, const MMFFBond *mmffBondParams2) are not documented: parameter 'mmffStbnParams' parameter 'mmffAngleParams' parameter 'mmffBondParams1' parameter 'mmffBondParams2' /<>/Code/ForceField/MMFF/TorsionAngle.h:31: warning: argument 'torsionType' of command @param is not found in the argument list of ForceFields::MMFF::TorsionAngleContrib::TorsionAngleContrib(ForceField *owner, unsigned int idx1, unsigned int idx2, unsigned int idx3, unsigned int idx4, const MMFFTor *mmffTorParams) /<>/Code/ForceField/MMFF/TorsionAngle.h:31: warning: The following parameter of ForceFields::MMFF::TorsionAngleContrib::TorsionAngleContrib(ForceField *owner, unsigned int idx1, unsigned int idx2, unsigned int idx3, unsigned int idx4, const MMFFTor *mmffTorParams) is not documented: parameter 'mmffTorParams' /<>/Code/ForceField/MMFF/Nonbonded.h:30: warning: The following parameter of ForceFields::MMFF::VdWContrib::VdWContrib(ForceField *owner, unsigned int idx1, unsigned int idx2, const MMFFVdWRijstarEps *mmffVdWConstants) is not documented: parameter 'mmffVdWConstants' /<>/Code/ForceField/UFF/AngleConstraint.h:28: warning: argument 'minAngle' of command @param is not found in the argument list of ForceFields::UFF::AngleConstraintContrib::AngleConstraintContrib(ForceField *owner, unsigned int idx1, unsigned int idx2, unsigned int idx3, double minAngleDeg, double maxAngleDeg, double forceConst) /<>/Code/ForceField/UFF/AngleConstraint.h:28: warning: argument 'maxAngle' of command @param is not found in the argument list of ForceFields::UFF::AngleConstraintContrib::AngleConstraintContrib(ForceField *owner, unsigned int idx1, unsigned int idx2, unsigned int idx3, double minAngleDeg, double maxAngleDeg, double forceConst) /<>/Code/ForceField/UFF/AngleConstraint.h:28: warning: The following parameters of ForceFields::UFF::AngleConstraintContrib::AngleConstraintContrib(ForceField *owner, unsigned int idx1, unsigned int idx2, unsigned int idx3, double minAngleDeg, double maxAngleDeg, double forceConst) are not documented: parameter 'minAngleDeg' parameter 'maxAngleDeg' /<>/Code/ForceField/UFF/Inversion.h:27: warning: The following parameter of ForceFields::UFF::InversionContrib::InversionContrib(ForceField *owner, unsigned int idx1, unsigned int idx2, unsigned int idx3, unsigned int idx4, int at2AtomicNum, bool isCBoundToO, double oobForceScalingFactor=1.0) is not documented: parameter 'oobForceScalingFactor' /<>/Code/ForceField/UFF/PositionConstraint.h:29: warning: argument 'minDispl' of command @param is not found in the argument list of ForceFields::UFF::PositionConstraintContrib::PositionConstraintContrib(ForceField *owner, unsigned int idx, double maxDispl, double forceConst) docs for compound ForceFields::MMFF::MMFFDefCollection... Generating docs for compound ForceFields::MMFF::MMFFDfsbCollection... Generating docs for compound ForceFields::MMFF::MMFFHerschbachLaurie... Generating docs for compound ForceFields::MMFF::MMFFHerschbachLaurieCollection... Generating docs for compound ForceFields::MMFF::MMFFOop... Generating docs for compound ForceFields::MMFF::MMFFOopCollection... Generating docs for compound ForceFields::MMFF::MMFFPBCI... Generating docs for compound ForceFields::MMFF::MMFFPBCICollection... Generating docs for compound ForceFields::MMFF::MMFFProp... Generating docs for compound ForceFields::MMFF::MMFFPropCollection... Generating docs for compound ForceFields::MMFF::MMFFStbn... Generating docs for compound ForceFields::MMFF::MMFFStbnCollection... Generating docs for compound ForceFields::MMFF::MMFFTor... Generating docs for compound ForceFields::MMFF::MMFFTorCollection... Generating docs for compound ForceFields::MMFF::MMFFVdW... Generating docs for compound ForceFields::MMFF::MMFFVdWCollection... Generating docs for compound ForceFields::MMFF::MMFFVdWRijstarEps... Generating docs for compound ForceFields::MMFF::OopBendContrib... Generating docs for compound ForceFields::MMFF::PositionConstraintContrib... Generating docs for compound ForceFields::MMFF::StretchBendContrib... Generating docs for compound ForceFields::MMFF::TorsionAngleContrib... Generating docs for compound ForceFields::MMFF::TorsionConstraintContrib... Generating docs for compound ForceFields::MMFF::VdWContrib... Generating docs for namespace ForceFields::MMFF::Utils Generating docs for namespace ForceFields::UFF Generating docs for compound ForceFields::UFF::AngleBendContrib... Generating docs for compound ForceFields::UFF::AngleConstraintContrib... Generating docs for compound ForceFields::UFF::AtomicParams... Generating docs for compound ForceFields::UFF::BondStretchContrib... Generating docs for compound ForceFields::UFF::DistanceConstraintContrib... Generating docs for compound ForceFields::UFF::InversionContrib... Generating docs for compound ForceFields::UFF::ParamCollection... Generating docs for compound ForceFields::UFF::PositionConstraintContrib... Generating docs for compound ForceFields::UFF::TorsionAngleContrib... Generating docs for compound ForceFields::UFF::TorsionConstraintContrib... Generating docs for compound ForceFields::UFF::UFFAngle... Generating docs for compound ForceFields::UFF::UFFBond... Generating docs for compound ForceFields::UFF::UFFInv... Generating docs for compound ForceFields::UFF::UFFTor... Generating docs for compound ForceFields::UFF::UFFVdW... Generating docs for compound ForceFields::UFF::vdWContrib... Generating docs for namespace ForceFields::UFF::Params Generating docs for namespace ForceFields::UFF::Utils Generating docs for namespace Invar Generating docs for compound Invar::Invariant... Generating docs for namespace MolTransforms Generating docs for namespace Queries Generating docs for compound Queries::AndQuery... Generating docs for compound Queries::EqualityQuery... Generating docs for compound Queries::GreaterEqualQuery... Generating docs for compound Queries::GreaterQuery... Generating docs for compound Queries::Int2Type... Generating docs for compound Queries::LessEqualQuery... Generating docs for compound Queries::LessQuery... Generating docs for compound Queries::OrQuery... Generating docs for compound Queries::Query... Generating docs for compound Queries::RangeQuery... Generating docs for compound Queries::SetQuery... Generating docs for compound Queries::XOrQuery... Generating docs for namespace Rankers Generating docs for namespace RDCatalog Generating docs for compound RDCatalog::Catalog... Generating docs for compound RDCatalog::CatalogEntry... Generating docs for compound RDCatalog::CatalogParams... Generating docs for compound RDCatalog::HierarchCatalog... Generating docs for nested compound RDCatalog::HierarchCatalog::vertex_entry_t... Generating docs for namespace RDDataManip Generating docs for compound RDDataManip::MetricMatrixCalc... Generatin/<>/Code/GraphMol/Depictor/RDDepictor.h:393: warning: argument 'refPattern' of command @param is not found in the argument list of RDDepict::generateDepictionMatching3DStructure(RDKit::ROMol &mol, const RDKit::ROMol &reference, int confId=-1, RDKit::ROMol *referencePattern=nullptr, bool acceptFailure=false, bool forceRDKit=false) /<>/Code/GraphMol/Depictor/RDDepictor.h:393: warning: The following parameter of RDDepict::generateDepictionMatching3DStructure(RDKit::ROMol &mol, const RDKit::ROMol &reference, int confId=-1, RDKit::ROMol *referencePattern=nullptr, bool acceptFailure=false, bool forceRDKit=false) is not documented: parameter 'referencePattern' /<>/Code/GraphMol/QueryOps.h:525: warning: Found unknown command '\overloadquery' /<>/Code/GraphMol/QueryOps.h:534: warning: Found unknown command '\overloadquery' /<>/Code/GraphMol/SubstanceGroup.h:267: warning: The following parameter of RDKit::addSubstanceGroup(ROMol &mol, SubstanceGroup sgroup) is not documented: parameter 'mol' /<>/Code/GraphMol/FileParsers/CDXMLParser.h:42: warning: argument 'fileName' of command @param is not found in the argument list of RDKit::CDXMLFileToMols(const std::string &filename, bool sanitize=true, bool removeHs=true) /<>/Code/GraphMol/FileParsers/CDXMLParser.h:42: warning: The following parameter of RDKit::CDXMLFileToMols(const std::string &filename, bool sanitize=true, bool removeHs=true) is not documented: parameter 'filename' /<>/Code/GraphMol/FileParsers/SequenceParsers.h:105: warning: argument 'seq' of command @param is not found in the argument list of RDKit::HELMToMol(const char *helm, bool sanitize=true) /<>/Code/GraphMol/FileParsers/SequenceParsers.h:105: warning: The following parameter of RDKit::HELMToMol(const char *helm, bool sanitize=true) is not documented: parameter 'helm' /<>/Code/GraphMol/Fingerprints/Fingerprints.h:69: warning: The following parameter of RDKit::LayeredFingerprintMol(const ROMol &mol, unsigned int layerFlags=0xFFFFFFFF, unsigned int minPath=1, unsigned int maxPath=7, unsigned int fpSize=2048, std::vector< unsigned int > *atomCounts=nullptr, ExplicitBitVect *setOnlyBits=nullptr, bool branchedPaths=true, const std::vector< std::uint32_t > *fromAtoms=nullptr) is not documented: parameter 'fromAtoms' /<>/Code/GraphMol/QueryOps.h:525: warning: Found unknown command '\overloadquery' /<>/Code/GraphMol/QueryOps.h:534: warning: Found unknown command '\overloadquery' /<>/Code/GraphMol/FileParsers/FileParsers.h:51: warning: argument 'line' from the argument list of RDKit::MolDataStreamToMol has multiple @param documentation sections /<>/Code/GraphMol/SmilesParse/SmilesWrite.h:167: warning: argument 'doRandom' of command @param is not found in the argument list of RDKit::MolFragmentToSmiles(const ROMol &mol, const std::vector< int > &atomsToUse, const std::vector< int > *bondsToUse=nullptr, const std::vector< std::string > *atomSymbols=nullptr, const std::vector< std::string > *bondSymbols=nullptr, bool doIsomericSmiles=true, bool doKekule=false, int rootedAtAtom=-1, bool canonical=true, bool allBondsExplicit=false, bool allHsExplicit=false) /<>/Code/GraphMol/SmilesParse/SmilesWrite.h:216: warning: The following parameter of RDKit::MolToCXSmiles(const ROMol &mol, bool doIsomericSmiles=true, bool doKekule=false, int rootedAtAtom=-1, bool canonical=true, bool allBondsExplicit=false, bool allHsExplicit=false, bool doRandom=false) is not documented: parameter 'doRandom' /<>/Code/GraphMol/FileParsers/FileParsers.h:341: warning: argument 'fName' of command @param is not found in the argument list of RDKit::MolToPDBFile(const ROMol &mol, const std::string &fname, int confId=-1, unsigned int flavor=0) /<>/Code/GraphMol/FileParsers/FileParsers.h:341: warning: The following parameter of RDKit::MolToPDBFile(const ROMol &mol, const std::string &fname, int confId=-1, unsigned int flavor=0) is not documented: parameter 'fname' /<>/Code/GraphMol/SmilesParse/SmilesWrite.h:107: warning: The following parameter of RDKit::MolToSmiles(const ROMol &mol, bool doIsomericSmiles=true, bool doKekule=false, int rootedAtAtom=-1, bool canonical=true, bool allBondsExplicit=false, bool allHsExplicit=false, bool doRandom=false) is not documented: parameter 'doRandom' /<>/Code/GraphMol/Fingerprints/Fingerprints.h:120: warning: The following parameter of RDKit::PatternFingerprintMol(const ROMol &mol, unsigned int fpSize=2048, std::vector< unsigned int > *atomCounts=nullptr, ExplicitBitVect *setOnlyBits=nullptr, bool tautomericFingerprint=false) is not documented: parameter 'tautomericFingerprint' /<>/Code/GraphMol/Fingerprints/Fingerprints.h:27: warning: argument 'useBondOrders' of command @param is not found in the argument list of RDKit::RDKFingerprintMol(const ROMol &mol, unsigned int minPath=1, unsigned int maxPath=7, unsigned int fpSize=2048, unsigned int nBitsPerHash=2, bool useHs=true, double tgtDensity=0.0, unsigned int minSize=128, bool branchedPaths=true, bool useBondOrder=true, std::vector< std::uint32_t > *atomInvariants=nullptr, const std::vector< std::uint32_t > *fromAtoms=nullptr, std::vector< std::vector< std::uint32_t > > *atomBits=nullptr, std::map< std::uint32_t, std::vector< std::vector< int > > > *bitInfo=nullptr) /<>/Code/GraphMol/Fingerprints/Fingerprints.h:27: warning: The following parameters of RDKit::RDKFingerprintMol(const ROMol &mol, unsigned int minPath=1, unsigned int maxPath=7, unsigned int fpSize=2048, unsigned int nBitsPerHash=2, bool useHs=true, double tgtDensity=0.0, unsigned int minSize=128, bool branchedPaths=true, bool useBondOrder=true, std::vector< std::uint32_t > *atomInvariants=nullptr, const std::vector< std::uint32_t > *fromAtoms=nullptr, std::vector< std::vector< std::uint32_t > > *atomBits=nullptr, std::map< std::uint32_t, std::vector< std::vector< int > > > *bitInfo=nullptr) are not documented: parameter 'useBondOrder' parameter 'bitInfo' /<>/Code/GraphMol/ChemReactions/ReactionRunner.h:94: warning: The following parameter of RDKit::reduceProductToSideChains(const ROMOL_SPTR &product, bool addDummyAtoms=true) is not documented: parameter 'product' /<>/Code/GraphMol/ChemTransforms/ChemTransforms.h:114: warning: argument 'useChirality' of command @param is not found in the argument list of RDKit::replaceCore(const ROMol &mol, const ROMol &core, const MatchVectType &matchVect, bool replaceDummies=true, bool labelByIndex=false, bool requireDummyMatch=false) /<>/Code/GraphMol/ChemReactions/ReactionRunner.h:66: warning: argument 'reactantTemplateIdx' of command @param is not found in the argument list of RDKit::run_Reactant(const ChemicalReaction &rxn, const ROMOL_SPTR &reactant, unsigned int reactantIdx) /<>/Code/GraphMol/ChemReactions/ReactionRunner.h:66: warning: The following parameters of RDKit::run_Reactant(const ChemicalReaction &rxn, const ROMOL_SPTR &reactant, unsigned int reactantIdx) are not documented: parameter 'rxn' parameter 'reactantIdx' /<>/Code/GraphMol/Substruct/SubstructMatch.h:81: warning: argument 'matchParams' of command @param is not found in the argument list of RDKit::SubstructMatch(const ROMol &mol, const ROMol &query, const SubstructMatchParameters ¶ms=SubstructMatchParameters()) /<>/Code/GraphMol/Substruct/SubstructMatch.h:81: warning: The following parameter of RDKit::SubstructMatch(const ROMol &mol, const ROMol &query, const SubstructMatchParameters ¶ms=SubstructMatchParameters()) is not documented: parameter 'params' /<>/Code/GraphMol/Substruct/SubstructMatch.h:94: warning: argument 'matchParams' of command @param is not found in the argument list of RDKit::SubstructMatch(ResonanceMolSupplier &resMolSuppl, const ROMol &query, const SubstructMatchParameters ¶ms=SubstructMatchParameters()) /<>/Code/GraphMol/Substruct/SubstructMatch.h:94: warning: The following parameter of RDKit::SubstructMatch(ResonanceMolSupplier &resMolSuppl, const ROMol &query, const SubstructMatchParameters ¶ms=SubstructMatchParameters()) is not documented: parameter 'params' /<>/Code/GraphMol/Substruct/SubstructMatch.h:149: warning: The following parameter of RDKit::SubstructMatch(T1 &mol, const T2 &query, std::vector< MatchVectType > &matchVect, bool uniquify=true, bool recursionPossible=true, bool useChirality=false, bool useQueryQueryMatches=false, unsigned int maxMatches=1000, int numThreads=1) is not documented: parameter 'numThreads' /<>/Code/GraphMol/Fingerprints/FingerprintGenerator.h:123: warning: The following parameters of RDKit::AtomEnvironment::getBitId(FingerprintArguments *arguments, const std::vector< std::uint32_t > *atomInvariants, const std::vector< std::uint32_t > *bondInvariants, AdditionalOutput *AdditionalOutput, const bool hashResults=false, const std::uint64_t fpSize=0) const=0 are not documented: parameter 'AdditionalOutput' parameter 'fpSize' /<>/Code/GraphMol/ChemReactions/Reaction.h:219: warning: argument 'maxProducts' of command @param is not found in the argument list of RDKit::ChemicalReaction::runReactants(const MOL_SPTR_VECT reactants, unsigned int numProducts=1000) const /<>/Code/GraphMol/ChemReactions/Reaction.h:219: warning: The following parameter of RDKit::ChemicalReaction::runReactants(const MOL_SPTR_VECT reactants, unsigned int numProducts=1000) const is not documented: parameter 'numProducts' g docs for namespace RDDepict Generating docs for compound RDDepict::Compute2DCoordParameters... Generating docs for compound RDDepict::ConstrainedDepictionParams... Generating docs for compound RDDepict::CoordinateTemplates... Generating docs for compound RDDepict::DepictException... Generating docs for compound RDDepict::EmbeddedAtom... Generating docs for compound RDDepict::EmbeddedFrag... Generating docs for compound RDDepict::gtIIPair... Generating docs for namespace RDFeatures Generating docs for compound RDFeatures::ExplicitFeature... Generating docs for compound RDFeatures::ImplicitFeature... Generating docs for namespace RDGeom Generating docs for compound RDGeom::Grid3D... Generating docs for compound RDGeom::GridException... Generating docs for compound RDGeom::Point... Generating docs for compound RDGeom::Point2D... Generating docs for compound RDGeom::Point3D... Generating docs for compound RDGeom::PointND... Generating docs for compound RDGeom::Transform2D... Generating docs for compound RDGeom::Transform3D... Generating docs for compound RDGeom::UniformGrid3D... Generating docs for namespace RDInfoTheory Generating docs for compound RDInfoTheory::BitCorrMatGenerator... Generating docs for compound RDInfoTheory::InfoBitRanker... Generating docs for namespace RDKit Generating docs for compound RDKit::AdditionalOutput... Generating docs for compound RDKit::AromaticAtomIterator_... Generating docs for compound RDKit::Atom... Generating docs for compound RDKit::AtomEnvironment... Generating docs for compound RDKit::AtomEnvironmentGenerator... Generating docs for compound RDKit::atomicData... Generating docs for compound RDKit::AtomInvariantsGenerator... Generating docs for compound RDKit::AtomIterator_... Generating docs for compound RDKit::AtomKekulizeException... Generating docs for compound RDKit::AtomMonomerInfo... Generating docs for compound RDKit::AtomPDBResidueInfo... Generating docs for compound RDKit::AtomRingQuery... Generating docs for compound RDKit::AtomSanitizeException... Generating docs for compound RDKit::AtomValenceException... Generating docs for compound RDKit::BadFileException... Generating docs for compound RDKit::Bond... Generating docs for compound RDKit::BondInvariantsGenerator... Generating docs for compound RDKit::BondIterator_... Generating docs for compound RDKit::CachedMolHolder... Generating docs for compound RDKit::CachedSmilesMolHolder... Generating docs for compound RDKit::CachedTrustedSmilesMolHolder... Generating docs for compound RDKit::CartesianProduct... Generating docs for compound RDKit::CartesianProductStrategy... Generating docs for compound RDKit::charptr_functor... Generating docs for compound RDKit::ChemicalReaction... Generating docs for compound RDKit::ChemicalReactionException... Generating docs for compound RDKit::ChemicalReactionParserException... Generating docs for compound RDKit::Conformer... Generating docs for compound RDKit::ConformerException... Generating docs for compound RDKit::ConstBondIterator_... Generating docs for compound RDKit::CustomPropHandler... Generating docs for compound RDKit::CXXAtomIterator... Generating docs for nested compound RDKit::CXXAtomIterator::CXXAtomIter... Generating docs for compound RDKit::CXXBondIterator... Generating docs for nested compound RDKit::CXXBondIterator::CXXBondIter... Generating docs for compound RDKit::DataStructsExplicitBitVecPropHandler... Generating docs for compound RDKit::Dict... Generating docs for nested compound RDKit::Dict::Pair... Generating docs for compound RDKit::DiscreteDistMat... Generating docs for compound RDKit::DiscreteValueVect... Generating docs for compound RDKit::DrawColour... Generating docs for compound RDKit::EnumerateLibrary... Generating docs for compound RDKit::EnumerateLibraryBase... Generating docs for compound RDKit::EnumerationParams... Generating docs for compound RDKit::EnumerationStrategyBase... Generating docs for compound RDKit::EnumerationStrategyException... Generating docs for compound RDKit::EvenSamplePairsStrategy... Generating docs for compound RDKit::ExclusionLis/<>/Code/GraphMol/FilterCatalog/FilterMatchers.h:430: warning: argument 'matches' of command @param is not found in the argument list of RDKit::ExclusionList::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const inherited from member getMatches at line 101 in file /<>/Code/GraphMol/FilterCatalog/FilterMatcherBase.h /<>/Code/GraphMol/FilterCatalog/FilterMatcherBase.h:101: warning: The following parameter of RDKit::ExclusionList::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const is not documented: parameter 'matchVect' /<>/Code/GraphMol/FilterCatalog/FilterMatcherBase.h:101: warning: argument 'matches' of command @param is not found in the argument list of RDKit::FilterMatcherBase::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const=0 /<>/Code/GraphMol/FilterCatalog/FilterMatcherBase.h:101: warning: The following parameter of RDKit::FilterMatcherBase::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const=0 is not documented: parameter 'matchVect' /<>/Code/GraphMol/MolDraw2D/MolDraw2D.h:71: warning: argument 'highlight_atoms' from the argument list of RDKit::MolDraw2D::drawMolecule has multiple @param documentation sections /<>/Code/GraphMol/MolDraw2D/MolDraw2D.h:71: warning: The following parameter of RDKit::MolDraw2D::drawMolecule(const ROMol &mol, const std::string &legend, const std::vector< int > *highlight_atoms, const std::vector< int > *highlight_bonds, const std::map< int, DrawColour > *highlight_atom_map=nullptr, const std::map< int, DrawColour > *highlight_bond_map=nullptr, const std::map< int, double > *highlight_radii=nullptr, int confId=-1) is not documented: parameter 'highlight_bonds' /<>/Code/GraphMol/MolDraw2D/MolDraw2D.h:149: warning: argument 'highlight_atom_map' of command @param is not found in the argument list of RDKit::MolDraw2D::drawMolecules(const std::vector< ROMol * > &mols, const std::vector< std::string > *legends=nullptr, const std::vector< std::vector< int > > *highlight_atoms=nullptr, const std::vector< std::vector< int > > *highlight_bonds=nullptr, const std::vector< std::map< int, DrawColour > > *highlight_atom_maps=nullptr, const std::vector< std::map< int, DrawColour > > *highlight_bond_maps=nullptr, const std::vector< std::map< int, double > > *highlight_radii=nullptr, const std::vector< int > *confIds=nullptr) /<>/Code/GraphMol/MolDraw2D/MolDraw2D.h:149: warning: argument 'highlight_bond_map' of command @param is not found in the argument list of RDKit::MolDraw2D::drawMolecules(const std::vector< ROMol * > &mols, const std::vector< std::string > *legends=nullptr, const std::vector< std::vector< int > > *highlight_atoms=nullptr, const std::vector< std::vector< int > > *highlight_bonds=nullptr, const std::vector< std::map< int, DrawColour > > *highlight_atom_maps=nullptr, const std::vector< std::map< int, DrawColour > > *highlight_bond_maps=nullptr, const std::vector< std::map< int, double > > *highlight_radii=nullptr, const std::vector< int > *confIds=nullptr) /<>/Code/GraphMol/MolDraw2D/MolDraw2D.h:149: warning: argument 'confId' of command @param is not found in the argument list of RDKit::MolDraw2D::drawMolecules(const std::vector< ROMol * > &mols, const std::vector< std::string > *legends=nullptr, const std::vector< std::vector< int > > *highlight_atoms=nullptr, const std::vector< std::vector< int > > *highlight_bonds=nullptr, const std::vector< std::map< int, DrawColour > > *highlight_atom_maps=nullptr, const std::vector< std::map< int, DrawColour > > *highlight_bond_maps=nullptr, const std::vector< std::map< int, double > > *highlight_radii=nullptr, const std::vector< int > *confIds=nullptr) /<>/Code/GraphMol/MolDraw2D/MolDraw2D.h:149: warning: argument 'highlight_atoms' from the argument list of RDKit::MolDraw2D::drawMolecules has multiple @param documentation sections /<>/Code/GraphMol/MolDraw2D/MolDraw2D.h:149: warning: The following parameters of RDKit::MolDraw2D::drawMolecules(const std::vector< ROMol * > &mols, const std::vector< std::string > *legends=nullptr, const std::vector< std::vector< int > > *highlight_atoms=nullptr, const std::vector< std::vector< int > > *highlight_bonds=nullptr, const std::vector< std::map< int, DrawColour > > *highlight_atom_maps=nullptr, const std::vector< std::map< int, DrawColour > > *highlight_bond_maps=nullptr, const std::vector< std::map< int, double > > *highlight_radii=nullptr, const std::vector< int > *confIds=nullptr) are not documented: parameter 'highlight_bonds' parameter 'highlight_atom_maps' parameter 'highlight_bond_maps' parameter 'confIds' t... Generating docs for compound RDKit::FeatureFileParseException... Generating docs for compound RDKit::FileParseException... Generating docs for compound RDKit::FilterCatalog... Generating docs for compound RDKit::FilterCatalogEntry... Generating docs for compound RDKit::FilterCatalogParams... Generating docs for compound RDKit::FilterData_t... Generating docs for compound RDKit::FilterHierarchyMatcher... Generating docs for compound RDKit::FilterMatch... Generating docs for compound RDKit::FilterMatcherBase... Generating docs for compound RDKit::FilterProperty_t... Generating docs for compound RDKit::FingerprintArguments... Generating docs for compound RDKit::FingerprintFuncArguments... Generating docs for compound RDKit::FingerprintGenerator... Generating docs for compound RDKit::FingerprintVarianceScoreData... Generating docs for compound RDKit::FixedMolSizeMolBundle... Generating docs for compound RDKit::ForwardSDMolSupplier... Generating docs for compound RDKit::FPBReader... Generating docs for compound RDKit::FPHolderBase... Generating docs for compound RDKit::FragCatalogEntry... Generating docs for compound RDKit::FragCatGenerator... Generating docs for compound RDKit::FragCatParams... Generating docs for compound RDKit::FragFPGenerator... Generating docs for compound RDKit::GaResult... Generating docs for compound RDKit::GasteigerParams... Generating docs for compound RDKit::HasPropQuery... Generating docs for compound RDKit::HasPropWithValueQuery... Generating docs for compound RDKit::HasPropWithValueQuery< TargetPtr, ExplicitBitVect >... Generating docs for compound RDKit::HasPropWithValueQuery< TargetPtr, std::string >... Generating docs for compound RDKit::HeteroatomIterator_... Generating docs for compound RDKit::KekulizeException... Generating docs for compound RDKit::KeyFromPropHolder... Generating docs for compound RDKit::KeyHolderBase... Generating docs for compound RDKit::larger_of... Generating docs for compound RDKit::ltDouble... Generating docs for compound RDKit::MarvinArrow... Generating docs for compound RDKit::MarvinAtom... Generating docs for compound RDKit::MarvinAttachmentPoint... Generating docs for compound RDKit::MarvinBond... Generating docs for compound RDKit::MarvinBondStereo... Generating docs for compound RDKit::MarvinCondition... Generating docs for compound RDKit::MarvinDataSgroup... Generating docs for compound RDKit::MarvinGenericSgroup... Generating docs for compound RDKit::MarvinMol... Generating docs for compound RDKit::MarvinMolBase... Generating docs for compound RDKit::MarvinMonomerSgroup... Generating docs for compound RDKit::MarvinMulticenterSgroup... Generating docs for compound RDKit::MarvinMultipleSgroup... Generating docs for compound RDKit::MarvinPlus... Generating docs for compound RDKit::MarvinReaction... Generating docs for compound RDKit::MarvinRectangle... Generating docs for compound RDKit::MarvinSruCoModSgroup... Generating docs for compound RDKit::MarvinStereoGroup... Generating docs for compound RDKit::MarvinSuperatomSgroup... Generating docs for compound RDKit::MarvinSuperatomSgroupExpanded... Generating docs for compound RDKit::MarvinWriterException... Generating docs for compound RDKit::MatchingAtomIterator_... Generating docs for compound RDKit::MCSAtomCompareParameters... Generating docs for compound RDKit::MCSBondCompareParameters... Generating docs for compound RDKit::MCSParameters... Generating docs for compound RDKit::MCSProgressData... Generating docs for compound RDKit::MCSResult... Generating docs for compound RDKit::MolBundle... Generating docs for compound RDKit::MolCatalogEntry... Generating docs for compound RDKit::MolCatalogParams... Generating docs for compound RDKit::MolChemicalFeature... Generating docs for compound RDKit::MolChemicalFeatureDef... Generating docs for compound RDKit::MolChemicalFeatureFactory... Generating docs for compound RDKit::MolDraw2D... Generating docs for compound RDKit::MolDraw2DCairo... Generating docs for compound RDKit::MolDraw2DJS... Generating docs for compound RDKit::MolDraw2DQt... Generating docs for compo/<>/Code/GraphMol/Resonance.h:114: warning: argument 'numThreads' of command @param is not found in the argument list of RDKit::ResonanceMolSupplier::ResonanceMolSupplier(ROMol &mol, unsigned int flags=0, unsigned int maxStructs=1000) /<>/Code/GraphMol/FilterCatalog/FilterMatchers.h:336: warning: argument 'matches' of command @param is not found in the argument list of RDKit::SmartsMatcher::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const inherited from member getMatches at line 101 in file /<>/Code/GraphMol/FilterCatalog/FilterMatcherBase.h /<>/Code/GraphMol/FilterCatalog/FilterMatcherBase.h:101: warning: The following parameter of RDKit::SmartsMatcher::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const is not documented: parameter 'matchVect' und RDKit::MolDraw2DSVG... Generating docs for compound RDKit::MolDraw2Dwx... Generating docs for compound RDKit::MolDrawOptions... Generating docs for compound RDKit::MolFileUnhandledFeatureException... Generating docs for compound RDKit::MolHolder... Generating docs for compound RDKit::MolHolderBase... Generating docs for compound RDKit::MolMatchFinalCheckFunctor... Generating docs for compound RDKit::MolPickler... Generating docs for compound RDKit::MolPicklerException... Generating docs for compound RDKit::MolSanitizeException... Generating docs for compound RDKit::MolSupplier... Generating docs for compound RDKit::MolWriter... Generating docs for compound RDKit::MolzipParams... Generating docs for compound RDKit::MultiFPBReader... Generating docs for compound RDKit::PatternHolder... Generating docs for compound RDKit::PDBMolSupplier... Generating docs for compound RDKit::PDBWriter... Generating docs for compound RDKit::PeriodicTable... Generating docs for compound RDKit::QueryAtom... Generating docs for compound RDKit::QueryAtomIterator_... Generating docs for compound RDKit::QueryBond... Generating docs for compound RDKit::RandomSampleAllBBsStrategy... Generating docs for compound RDKit::RandomSampleStrategy... Generating docs for compound RDKit::RCore... Generating docs for compound RDKit::RDAny... Generating docs for compound RDKit::RDProps... Generating docs for compound RDKit::RDValue... Generating docs for compound RDKit::ReactionFingerprintParams... Generating docs for compound RDKit::ReactionPickler... Generating docs for compound RDKit::ReactionPicklerException... Generating docs for compound RDKit::RecursiveStructureQuery... Generating docs for compound RDKit::ResonanceMolSupplier... Generating docs for compound RDKit::ResonanceMolSupplierCallback... Generating docs for compound RDKit::RGroupData... Generating docs for compound RDKit::RGroupDecompData... Generating docs for nested compound RDKit::RGroupDecompData::UsedLabels... Generating docs for compound RDKit::RGroupDecomposition... Generating docs for compound RDKit::RGroupDecompositionChromosome... Generating docs for compound RDKit::RGroupDecompositionParameters... Generating docs for compound RDKit::RGroupDecompositionProcessResult... Generating docs for compound RDKit::RGroupGa... Generating docs for compound RDKit::RGroupMatch... Generating docs for compound RDKit::RGroupScorer... Generating docs for compound RDKit::RingInfo... Generating docs for compound RDKit::ROMol... Generating docs for compound RDKit::RWMol... Generating docs for compound RDKit::RxnSanitizeException... Generating docs for compound RDKit::SDMolSupplier... Generating docs for compound RDKit::SDWriter... Generating docs for compound RDKit::SLNParseException... Generating docs for compound RDKit::SmartsMatcher... Generating docs for compound RDKit::SmartsParserParams... Generating docs for compound RDKit::SmilesMolSupplier... Generating docs for compound RDKit::SmilesParseException... Generating docs for compound RDKit::SmilesParserParams... Generating docs for compound RDKit::SmilesWriteParams... Generating docs for compound RDKit::SmilesWriter... Generating docs for compound RDKit::Snapshot... Generating docs for compound RDKit::SparseIntVect... Generating docs for compound RDKit::StereoBondThresholds... Generating docs for compound RDKit::StereoGroup... Generating docs for compound RDKit::SubstanceGroup... Generating docs for nested compound RDKit::SubstanceGroup::AttachPoint... Generating docs for nested compound RDKit::SubstanceGroup::CState... Generating docs for compound RDKit::SubstanceGroupException... Generating docs for compound RDKit::SubstructLibrary... Generating docs for compound RDKit::SubstructMatchParameters... Generating docs for compound RDKit::TautomerPatternHolder... Generating docs for compound RDKit::TautomerQuery... Generating docs for compound RDKit::TDTMolSupplier... Generating docs for compound RDKit::TDTWriter... Generating docs for compound RDKit::Trajectory... Generating docs for compound RDKit::UnimplementedFPException... Generating docs for compo/<>/Code/GraphMol/Abbreviations/Abbreviations.h:104: warning: The following parameter of RDKit::Abbreviations::findApplicableAbbreviationMatches(const ROMol &mol, const std::vector< AbbreviationDefinition > &abbrevs, double maxCoverage=0.4) is not documented: parameter 'mol' /<>/Code/GraphMol/Fingerprints/FingerprintGenerator.h:123: warning: The following parameters of RDKit::AtomPair::AtomPairAtomEnv::getBitId(FingerprintArguments *arguments, const std::vector< std::uint32_t > *atomInvariants, const std::vector< std::uint32_t > *bondInvariants, AdditionalOutput *AdditionalOutput, const bool hashResults=false, const std::uint64_t fpSize=0) const are not documented: parameter 'AdditionalOutput' parameter 'fpSize' /<>/Code/GraphMol/Fingerprints/AtomPairs.h:95: warning: The following parameter of RDKit::AtomPairs::getHashedAtomPairFingerprint(const ROMol &mol, unsigned int nBits=2048, unsigned int minLength=1, unsigned int maxLength=maxPathLen - 1, const std::vector< std::uint32_t > *fromAtoms=nullptr, const std::vector< std::uint32_t > *ignoreAtoms=nullptr, const std::vector< std::uint32_t > *atomInvariants=nullptr, bool includeChirality=false, bool use2D=true, int confId=-1) is not documented: parameter 'confId' /<>/Code/GraphMol/Fingerprints/FingerprintUtil.h:75: warning: The following parameter of RDKit::AtomPairs::getTopologicalTorsionCode(const std::vector< std::uint32_t > &atomCodes, bool includeChirality=false) is not documented: parameter 'includeChirality' /<>/Code/GraphMol/Canon.h:103: warning: The following parameters of RDKit::Canon::canonicalizeFragment(ROMol &mol, int atomIdx, std::vector< AtomColors > &colors, const std::vector< unsigned int > &ranks, MolStack &molStack, const boost::dynamic_bitset<> *bondsInPlay=nullptr, const std::vector< std::string > *bondSymbols=nullptr, bool doIsomericSmiles=false, bool doRandom=false, bool doChiralInversions=true) are not documented: parameter 'bondsInPlay' parameter 'bondSymbols' parameter 'doIsomericSmiles' parameter 'doRandom' parameter 'doChiralInversions' /<>/Code/GraphMol/Chirality.h:138: warning: The following parameter of RDKit::Chirality::findPotentialStereo(ROMol &mol, bool cleanIt, bool flagPossible=true) is not documented: parameter 'flagPossible' /<>/Code/GraphMol/Chirality.h:190: warning: The following parameter of RDKit::Chirality::getTrigonalBipyramidalAxialBond(const Atom *center, int which=0) is not documented: parameter 'center' /<>/Code/GraphMol/CIPLabeler/CIPLabeler.h:44: warning: The following parameter of RDKit::CIPLabeler::assignCIPLabels(ROMol &mol, unsigned int maxRecursiveIterations=0) is not documented: parameter 'maxRecursiveIterations' /<>/Code/GraphMol/Descriptors/Lipinski.h:45: warning: argument 'strict' of command @param is not found in the argument list of RDKit::Descriptors::calcNumRotatableBonds(const ROMol &mol, NumRotatableBondsOptions useStrictDefinition=Default) /<>/Code/GraphMol/Descriptors/Lipinski.h:45: warning: The following parameter of RDKit::Descriptors::calcNumRotatableBonds(const ROMol &mol, NumRotatableBondsOptions useStrictDefinition=Default) is not documented: parameter 'useStrictDefinition' /<>/Code/GraphMol/Descriptors/USRDescriptor.h:68: warning: The following parameter of RDKit::Descriptors::USRCAT(const ROMol &mol, std::vector< double > &descriptor, std::vector< std::vector< unsigned int > > &atomIds, int confId=-1) is not documented: parameter 'atomIds' und RDKit::UsedLabelMap... Generating docs for compound RDKit::VarianceDataForLabel... Generating docs for namespace RDKit::Abbreviations Generating docs for compound RDKit::Abbreviations::AbbreviationDefinition... Generating docs for compound RDKit::Abbreviations::AbbreviationMatch... Generating docs for namespace RDKit::Abbreviations::common_properties Generating docs for namespace RDKit::Abbreviations::Utils Generating docs for namespace RDKit::AtomPair Generating docs for compound RDKit::AtomPair::AtomPairArguments... Generating docs for compound RDKit::AtomPair::AtomPairAtomEnv... Generating docs for compound RDKit::AtomPair::AtomPairAtomInvGenerator... Generating docs for compound RDKit::AtomPair::AtomPairEnvGenerator... Generating docs for namespace RDKit::AtomPairs Generating docs for namespace RDKit::Canon Generating docs for compound RDKit::Canon::AtomCompareFunctor... Generating docs for compound RDKit::Canon::bondholder... Generating docs for compound RDKit::Canon::canon_atom... Generating docs for compound RDKit::Canon::ChiralAtomCompareFunctor... Generating docs for compound RDKit::Canon::MolStackElem... Generating docs for compound RDKit::Canon::MolStackUnion... Generating docs for compound RDKit::Canon::SpecialChiralityAtomCompareFunctor... Generating docs for compound RDKit::Canon::SpecialSymmetryAtomCompareFunctor... Generating docs for namespace RDKit::Canon::detail Generating docs for namespace RDKit::Chirality Generating docs for compound RDKit::Chirality::BondWedgingParameters... Generating docs for compound RDKit::Chirality::StereoInfo... Generating docs for namespace RDKit::Chirality::detail Generating docs for namespace RDKit::CIPLabeler Generating docs for compound RDKit::CIPLabeler::CIPMol... Generating docs for compound RDKit::CIPLabeler::CIPMolSpan... Generating docs for nested compound RDKit::CIPLabeler::CIPMolSpan::CIPMolIter... Generating docs for compound RDKit::CIPLabeler::Configuration... Generating docs for compound RDKit::CIPLabeler::Digraph... Generating docs for compound RDKit::CIPLabeler::Edge... Generating docs for compound RDKit::CIPLabeler::MaxIterationsExceeded... Generating docs for compound RDKit::CIPLabeler::Node... Generating docs for compound RDKit::CIPLabeler::PairList... Generating docs for compound RDKit::CIPLabeler::Priority... Generating docs for compound RDKit::CIPLabeler::Rule1a... Generating docs for compound RDKit::CIPLabeler::Rule1b... Generating docs for compound RDKit::CIPLabeler::Rule2... Generating docs for compound RDKit::CIPLabeler::Rule3... Generating docs for compound RDKit::CIPLabeler::Rule4a... Generating docs for compound RDKit::CIPLabeler::Rule4b... Generating docs for compound RDKit::CIPLabeler::Rule4c... Generating docs for compound RDKit::CIPLabeler::Rule5... Generating docs for compound RDKit::CIPLabeler::Rule5New... Generating docs for compound RDKit::CIPLabeler::Rule6... Generating docs for compound RDKit::CIPLabeler::Rules... Generating docs for compound RDKit::CIPLabeler::SequenceRule... Generating docs for compound RDKit::CIPLabeler::Sort... Generating docs for compound RDKit::CIPLabeler::Sp2Bond... Generating docs for compound RDKit::CIPLabeler::Tetrahedral... Generating docs for compound RDKit::CIPLabeler::TooManyNodesException... Generating docs for namespace RDKit::CIPLabeler_detail Generating docs for namespace RDKit::common_properties Generating docs for namespace RDKit::constants Generating docs for namespace RDKit::Deprotect Generating docs for compound RDKit::Deprotect::DeprotectData... Generating docs for namespace RDKit::Descriptors Generating docs for compound RDKit::Descriptors::CrippenParamCollection... Generating docs for compound RDKit::Descriptors::CrippenParams... Generating docs for compound RDKit::Descriptors::Properties... Generating docs for compound RDKit::Descriptors::PropertyFunctor... Generating docs for namespace RDKit::Descriptors::detail Generating docs for namespace RDKit::detail Generating docs for compound RDKit::detail::MCSParametersInternal... Generating docs for namespace RDKit::details Generating docs for n/<>/Code/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.h:37: warning: The following parameter of RDKit::DGeomHelpers::setTopolBounds(const ROMol &mol, DistGeom::BoundsMatPtr mmat, bool set15bounds=true, bool scaleVDW=false, bool useMacrocycle14config=false, bool forceTransAmides=true) is not documented: parameter 'forceTransAmides' /<>/Code/GraphMol/FilterCatalog/FilterMatchers.h:98: warning: argument 'matches' of command @param is not found in the argument list of RDKit::FilterMatchOps::And::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const inherited from member getMatches at line 101 in file /<>/Code/GraphMol/FilterCatalog/FilterMatcherBase.h /<>/Code/GraphMol/FilterCatalog/FilterMatcherBase.h:101: warning: The following parameter of RDKit::FilterMatchOps::And::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const is not documented: parameter 'matchVect' /<>/Code/GraphMol/FilterCatalog/FilterMatchers.h:218: warning: argument 'matches' of command @param is not found in the argument list of RDKit::FilterMatchOps::Not::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const inherited from member getMatches at line 101 in file /<>/Code/GraphMol/FilterCatalog/FilterMatcherBase.h /<>/Code/GraphMol/FilterCatalog/FilterMatcherBase.h:101: warning: The following parameter of RDKit::FilterMatchOps::Not::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const is not documented: parameter 'matchVect' /<>/Code/GraphMol/FilterCatalog/FilterMatchers.h:161: warning: argument 'matches' of command @param is not found in the argument list of RDKit::FilterMatchOps::Or::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const inherited from member getMatches at line 101 in file /<>/Code/GraphMol/FilterCatalog/FilterMatcherBase.h /<>/Code/GraphMol/FilterCatalog/FilterMatcherBase.h:101: warning: The following parameter of RDKit::FilterMatchOps::Or::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const is not documented: parameter 'matchVect' /<>/Code/GraphMol/Fingerprints/MHFP.h:102: warning: found tag without matching /<>/Code/GraphMol/Fingerprints/MHFP.h:93: warning: The following parameter of RDKit::MHFPFingerprints::MHFPEncoder::CreateShingling(const ROMol &mol, unsigned char radius=3, bool rings=true, bool isomeric=false, bool kekulize=false, unsigned char min_radius=1) is not documented: parameter 'mol' /<>/Code/GraphMol/Fingerprints/MHFP.h:141: warning: found tag without matching /<>/Code/GraphMol/Fingerprints/MHFP.h:132: warning: The following parameter of RDKit::MHFPFingerprints::MHFPEncoder::Encode(ROMol &mol, unsigned char radius=3, bool rings=true, bool isomeric=false, bool kekulize=false, unsigned char min_radius=1) is not documented: parameter 'mol' /<>/Code/GraphMol/Fingerprints/MHFP.h:191: warning: found tag without matching /<>/Code/GraphMol/Fingerprints/MHFP.h:183: warning: The following parameter of RDKit::MHFPFingerprints::MHFPEncoder::EncodeSECFP(ROMol &mol, unsigned char radius=3, bool rings=true, bool isomeric=false, bool kekulize=false, unsigned char min_radius=1, size_t length=2048) is not documented: parameter 'mol' /<>/Code/GraphMol/MMPA/MMPA.h:23: warning: The following parameter of RDKit::MMPA::fragmentMol(const ROMol &mol, std::vector< std::pair< ROMOL_SPTR, ROMOL_SPTR > > &result, unsigned int maxCuts=3, unsigned int maxCutBonds=20, const std::string &pattern="[#6+0;!$(*=,#[!#6])]!@!=!#[*]") is not documented: parameter 'pattern' /<>/Code/GraphMol/MMPA/MMPA.h:44: warning: The following parameter of RDKit::MMPA::fragmentMol(const ROMol &mol, std::vector< std::pair< ROMOL_SPTR, ROMOL_SPTR > > &result, unsigned int minCuts, unsigned int maxCuts, unsigned int maxCutBonds, const std::string &pattern="[#6+0;!$(*=,#[!#6])]!@!=!#[*]") is not documented: parameter 'pattern' /<>/Code/GraphMol/MolAlign/AlignMolecules.h:148: warning: argument 'trans' of command @param is not found in the argument list of RDKit::MolAlign::getBestRMS(ROMol &prbMol, const ROMol &refMol, int prbCid=-1, int refCid=-1, const std::vector< MatchVectType > &map=std::vector< MatchVectType >(), int maxMatches=1e6, bool symmetrizeConjugatedTerminalGroups=true, const RDNumeric::DoubleVector *weights=nullptr, int numThreads=1) /<>/Code/GraphMol/MolDraw2D/AtomSymbol.h:38: warning: The following parameters of RDKit::MolDraw2D_detail::AtomSymbol::AtomSymbol(const std::string &symbol, int atIdx, OrientType orient, const Point2D &cds, const DrawColour &colour, DrawText &textDrawer) are not documented: parameter 'atIdx' parameter 'cds' parameter 'colour' /<>/Code/GraphMol/MolDraw2D/DrawMol.h:45: warning: argument 'highlightRadii' of command @param is not found in the argument list of RDKit::MolDraw2D_detail::DrawMol::DrawMol(const ROMol &mol, const std::string &legend, int width, int height, const MolDrawOptions &drawOptions, DrawText &textDrawer, const std::vector< int > *highlightAtoms=nullptr, const std::vector< int > *highlightBonds=nullptr, const std::map< int, DrawColour > *highlightAtomMap=nullptr, const std::map< int, DrawColour > *highlightBondMap=nullptr, const std::vector< std::pair< DrawColour, DrawColour > > *bondColours=nullptr, const std::map< int, double > *highlight_radii=nullptr, bool includeAnnotations=true, int confId=-1, bool isReactionMol=false) /<>/Code/GraphMol/MolDraw2D/DrawMol.h:45: warning: The following parameters of RDKit::MolDraw2D_detail::DrawMol::DrawMol(const ROMol &mol, const std::string &legend, int width, int height, const MolDrawOptions &drawOptions, DrawText &textDrawer, const std::vector< int > *highlightAtoms=nullptr, const std::vector< int > *highlightBonds=nullptr, const std::map< int, DrawColour > *highlightAtomMap=nullptr, const std::map< int, DrawColour > *highlightBondMap=nullptr, const std::vector< std::pair< DrawColour, DrawColour > > *bondColours=nullptr, const std::map< int, double > *highlight_radii=nullptr, bool includeAnnotations=true, int confId=-1, bool isReactionMol=false) are not documented: parameter 'bondColours' parameter 'highlight_radii' parameter 'includeAnnotations' parameter 'isReactionMol' /<>/Code/GraphMol/MolDraw2D/DrawMolMCH.h:28: warning: argument 'highlightRadii' of command @param is not found in the argument list of RDKit::MolDraw2D_detail::DrawMolMCH::DrawMolMCH(const ROMol &mol, const std::string &legend, int width, int height, MolDrawOptions &drawOptions, DrawText &textDrawer, const std::map< int, std::vector< DrawColour > > &highlight_atom_map, const std::map< int, std::vector< DrawColour > > &highlight_bond_map, const std::map< int, double > &highlight_radii, const std::map< int, int > &highlight_linewidth_multipliers, int confId=-1) /<>/Code/GraphMol/MolDraw2D/DrawMolMCH.h:28: warning: The following parameter of RDKit::MolDraw2D_detail::DrawMolMCH::DrawMolMCH(const ROMol &mol, const std::string &legend, int width, int height, MolDrawOptions &drawOptions, DrawText &textDrawer, const std::map< int, std::vector< DrawColour > > &highlight_atom_map, const std::map< int, std::vector< DrawColour > > &highlight_bond_map, const std::map< int, double > &highlight_radii, const std::map< int, int > &highlight_linewidth_multipliers, int confId=-1) is not documented: parameter 'highlight_radii' /<>/Code/GraphMol/MolDraw2D/DrawMolMCHCircleAndLine.h:24: warning: argument 'highlightRadii' of command @param is not found in the argument list of RDKit::MolDraw2D_detail::DrawMolMCHCircleAndLine::DrawMolMCHCircleAndLine(const ROMol &mol, const std::string &legend, int width, int height, MolDrawOptions &drawOptions, DrawText &textDrawer, const std::map< int, std::vector< DrawColour > > &highlight_atom_map, const std::map< int, std::vector< DrawColour > > &highlight_bond_map, const std::map< int, double > &highlight_radii, const std::map< int, int > &highlight_linewidth_multipliers, int confId=-1) /<>/Code/GraphMol/MolDraw2D/DrawMolMCHCircleAndLine.h:24: warning: The following parameter of RDKit::MolDraw2D_detail::DrawMolMCHCircleAndLine::DrawMolMCHCircleAndLine(const ROMol &mol, const std::string &legend, int width, int height, MolDrawOptions &drawOptions, DrawText &textDrawer, const std::map< int, std::vector< DrawColour > > &highlight_atom_map, const std::map< int, std::vector< DrawColour > > &highlight_bond_map, const std::map< int, double > &highlight_radii, const std::map< int, int > &highlight_linewidth_multipliers, int confId=-1) is not documented: parameter 'highlight_radii' /<>/Code/GraphMol/MolDraw2D/DrawMolMCHLasso.h:21: warning: argument 'highlightRadii' of command @param is not found in the argument list of RDKit::MolDraw2D_detail::DrawMolMCHLasso::DrawMolMCHLasso(const ROMol &mol, const std::string &legend, int width, int height, MolDrawOptions &drawOptions, DrawText &textDrawer, const std::map< int, std::vector< DrawColour > > &highlight_atom_map, const std::map< int, std::vector< DrawColour > > &highlight_bond_map, const std::map< int, double > &highlight_radii, const std::map< int, int > &highlight_linewidth_multipliers, int confId=-1) /<>/Code/GraphMol/MolDraw2D/DrawMolMCHLasso.h:21: warning: The following parameter of RDKit::MolDraw2D_detail::DrawMolMCHLasso::DrawMolMCHLasso(const ROMol &mol, const std::string &legend, int width, int height, MolDrawOptions &drawOptions, DrawText &textDrawer, const std::map< int, std::vector< DrawColour > > &highlight_atom_map, const std::map< int, std::vector< DrawColour > > &highlight_bond_map, const std::map< int, double > &highlight_radii, const std::map< int, int > &highlight_linewidth_multipliers, int confId=-1) is not documented: parameter 'highlight_radii' amespace RDKit::DGeomHelpers Generating docs for compound RDKit::DGeomHelpers::EmbedParameters... Generating docs for namespace RDKit::DTags Generating docs for namespace RDKit::EnumerationStrategyPickler Generating docs for namespace RDKit::EnumerationTypes Generating docs for namespace RDKit::FileParserUtils Generating docs for namespace RDKit::FilterMatchOps Generating docs for compound RDKit::FilterMatchOps::And... Generating docs for compound RDKit::FilterMatchOps::Not... Generating docs for compound RDKit::FilterMatchOps::Or... Generating docs for namespace RDKit::FMCS Generating docs for compound RDKit::FMCS::Composition2N... Generating docs for compound RDKit::FMCS::DuplicatedSeedCache... Generating docs for nested compound RDKit::FMCS::DuplicatedSeedCache::TKey... Generating docs for compound RDKit::FMCS::ExecStatistics... Generating docs for compound RDKit::FMCS::Graph... Generating docs for compound RDKit::FMCS::MaximumCommonSubgraph... Generating docs for compound RDKit::FMCS::MolFragment... Generating docs for compound RDKit::FMCS::NewBond... Generating docs for compound RDKit::FMCS::Seed... Generating docs for compound RDKit::FMCS::SeedSet... Generating docs for compound RDKit::FMCS::SubstructureCache... Generating docs for nested compound RDKit::FMCS::SubstructureCache::HashKey... Generating docs for nested compound RDKit::FMCS::SubstructureCache::KeyNumericMetrics... Generating docs for compound RDKit::FMCS::Target... Generating docs for compound RDKit::FMCS::TargetMatch... Generating docs for compound RDKit::FMCS::TArray2D... Generating docs for namespace RDKit::ForceFieldsHelper Generating docs for namespace RDKit::ForceFieldsHelper::detail Generating docs for namespace RDKit::GeneralizedSubstruct Generating docs for compound RDKit::GeneralizedSubstruct::ExtendedQueryMol... Generating docs for namespace RDKit::GeneralMolSupplier Generating docs for compound RDKit::GeneralMolSupplier::SupplierOptions... Generating docs for namespace RDKit::GenericGroups Generating docs for namespace RDKit::GenericGroups::Matchers Generating docs for namespace RDKit::Local Generating docs for namespace RDKit::MACCSFingerprints Generating docs for namespace RDKit::MHFPFingerprints Generating docs for compound RDKit::MHFPFingerprints::MHFPEncoder... Generating docs for namespace RDKit::MHFPFingerprints::FNV Generating docs for namespace RDKit::MMFF Generating docs for compound RDKit::MMFF::MMFFAtomProperties... Generating docs for compound RDKit::MMFF::MMFFMolProperties... Generating docs for namespace RDKit::MMFF::DefaultParameters Generating docs for namespace RDKit::MMFF::Tools Generating docs for compound RDKit::MMFF::Tools::DefaultTorsionBondSmarts... Generating docs for namespace RDKit::MMPA Generating docs for namespace RDKit::MolAlign Generating docs for compound RDKit::MolAlign::LAP... Generating docs for compound RDKit::MolAlign::MolAlignException... Generating docs for compound RDKit::MolAlign::MolHistogram... Generating docs for compound RDKit::MolAlign::O3A... Generating docs for compound RDKit::MolAlign::O3AConstraint... Generating docs for compound RDKit::MolAlign::O3AConstraintVect... Generating docs for compound RDKit::MolAlign::O3AFuncData... Generating docs for compound RDKit::MolAlign::SDM... Generating docs for namespace RDKit::MolDraw2D_detail Generating docs for compound RDKit::MolDraw2D_detail::AtomSymbol... Generating docs for compound RDKit::MolDraw2D_detail::DrawAnnotation... Generating docs for compound RDKit::MolDraw2D_detail::DrawMol... Generating docs for compound RDKit::MolDraw2D_detail::DrawMolMCH... Generating docs for compound RDKit::MolDraw2D_detail::DrawMolMCHCircleAndLine... Generating docs for compound RDKit::MolDraw2D_detail::DrawMolMCHLasso... Generating docs for compound RDKit::MolDraw2D_detail::DrawShape... Generating docs for compound RDKit::MolDraw2D_detail::DrawShapeArc... Generating docs for compound RDKit::MolDraw2D_detail::DrawShapeArrow... Generating docs for compound RDKit::MolDraw2D_detail::DrawShapeDashedWedge... Generating docs for compound RDKit::MolDraw2D_detail::DrawS/<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:263: warning: The following parameter of RDKit::MolEnumerator::enumerate(const ROMol &mol, size_t maxPerOperation=0) is not documented: parameter 'mol' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:132: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:135: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:139: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:142: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:142: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:132: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:139: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:135: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:77: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:80: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:84: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:87: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:87: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:77: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:84: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:80: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:206: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:209: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:213: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:216: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:216: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:206: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:213: warning: Found unknown command '\override' /<>/Code/GraphMol/MolEnumerator/MolEnumerator.h:209: warning: Found unknown command '\override' /<>/Code/GraphMol/MolInterchange/MolInterchange.h:81: warning: The following parameter of RDKit::MolInterchange::MolsToJSONData(const std::vector< T > &mols, const JSONWriteParameters ¶ms=defaultJSONWriteParameters) is not documented: parameter 'params' /<>/Code/GraphMol/MolInterchange/MolInterchange.h:90: warning: The following parameter of RDKit::MolInterchange::MolToJSONData(const T &mol, const JSONWriteParameters ¶ms=defaultJSONWriteParameters) is not documented: parameter 'params' /<>/Code/GraphMol/MolOps.h:801: warning: The following parameter of RDKit::MolOps::getAdjacencyMatrix(const ROMol &mol, bool useBO=false, int emptyVal=0, bool force=false, const char *propNamePrefix=nullptr, const boost::dynamic_bitset<> *bondsToUse=nullptr) is not documented: parameter 'bondsToUse' /<>/Code/GraphMol/MolOps.h:281: warning: The following parameters of RDKit::MolOps::mergeQueryHs(const ROMol &mol, bool mergeUnmappedOnly=false, bool mergeIsotopes=false) are not documented: parameter 'mergeUnmappedOnly' parameter 'mergeIsotopes' hapeEllipse... Generating docs for compound RDKit::MolDraw2D_detail::DrawShapePolyLine... Generating docs for compound RDKit::MolDraw2D_detail::DrawShapeSimpleLine... Generating docs for compound RDKit::MolDraw2D_detail::DrawShapeSolidWedge... Generating docs for compound RDKit::MolDraw2D_detail::DrawShapeWavyLine... Generating docs for compound RDKit::MolDraw2D_detail::DrawText... Generating docs for compound RDKit::MolDraw2D_detail::DrawTextCairo... Generating docs for compound RDKit::MolDraw2D_detail::DrawTextFT... Generating docs for compound RDKit::MolDraw2D_detail::DrawTextFTCairo... Generating docs for compound RDKit::MolDraw2D_detail::DrawTextFTJS... Generating docs for compound RDKit::MolDraw2D_detail::DrawTextFTQt... Generating docs for compound RDKit::MolDraw2D_detail::DrawTextFTSVG... Generating docs for compound RDKit::MolDraw2D_detail::DrawTextJS... Generating docs for compound RDKit::MolDraw2D_detail::DrawTextNotFT... Generating docs for compound RDKit::MolDraw2D_detail::DrawTextQt... Generating docs for compound RDKit::MolDraw2D_detail::DrawTextSVG... Generating docs for compound RDKit::MolDraw2D_detail::StringRect... Generating docs for namespace RDKit::MolDraw2DUtils Generating docs for compound RDKit::MolDraw2DUtils::ContourParams... Generating docs for namespace RDKit::MolEnumerator Generating docs for compound RDKit::MolEnumerator::LinkNode... Generating docs for compound RDKit::MolEnumerator::LinkNodeOp... Generating docs for compound RDKit::MolEnumerator::MolEnumeratorOp... Generating docs for compound RDKit::MolEnumerator::MolEnumeratorParams... Generating docs for compound RDKit::MolEnumerator::PositionVariationOp... Generating docs for compound RDKit::MolEnumerator::RepeatUnitOp... Generating docs for namespace RDKit::MolEnumerator::detail Generating docs for namespace RDKit::MolEnumerator::utils Generating docs for namespace RDKit::MolFragmenter Generating docs for compound RDKit::MolFragmenter::FragmenterBondType... Generating docs for namespace RDKit::MolHash Generating docs for namespace RDKit::MolInterchange Generating docs for compound RDKit::MolInterchange::JSONParseParameters... Generating docs for compound RDKit::MolInterchange::JSONWriteParameters... Generating docs for namespace RDKit::MolOps Generating docs for compound RDKit::MolOps::AdjustQueryParameters... Generating docs for compound RDKit::MolOps::RemoveHsParameters... Generating docs for namespace RDKit::MolOps::details Generating docs for namespace RDKit::MolShapes Generating docs for namespace RDKit::MolStandardize Generating docs for compound RDKit::MolStandardize::AcidBaseCatalogEntry... Generating docs for compound RDKit::MolStandardize::AcidBaseCatalogParams... Generating docs for compound RDKit::MolStandardize::AllowedAtomsValidation... Generating docs for compound RDKit::MolStandardize::ChargeCorrection... Generating docs for compound RDKit::MolStandardize::CleanupParameters... Generating docs for compound RDKit::MolStandardize::DisallowedAtomsValidation... Generating docs for compound RDKit::MolStandardize::FragmentCatalogEntry... Generating docs for compound RDKit::MolStandardize::FragmentCatalogParams... Generating docs for compound RDKit::MolStandardize::FragmentRemover... Generating docs for compound RDKit::MolStandardize::FragmentValidation... Generating docs for compound RDKit::MolStandardize::IsotopeValidation... Generating docs for compound RDKit::MolStandardize::LargestFragmentChooser... Generating docs for nested compound RDKit::MolStandardize::LargestFragmentChooser::Largest... Generating docs for compound RDKit::MolStandardize::MetalDisconnector... Generating docs for compound RDKit::MolStandardize::MetalDisconnectorOptions... Generating docs for compound RDKit::MolStandardize::MolVSValidation... Generating docs for compound RDKit::MolStandardize::MolVSValidations... Generating docs for compound RDKit::MolStandardize::NeutralValidation... Generating docs for compound RDKit::MolStandardize::NoAtomValidation... Generating docs for compound RDKit::MolStandardize::Normalizer... Generating docs for compound RDKi/<>/Code/GraphMol/Fingerprints/MorganGenerator.h:204: warning: argument 'countSimulation' from the argument list of RDKit::MorganFingerprint::getMorganGenerator has multiple @param documentation sections /<>/Code/GraphMol/Fingerprints/MorganGenerator.h:204: warning: argument 'includeChirality' from the argument list of RDKit::MorganFingerprint::getMorganGenerator has multiple @param documentation sections /<>/Code/GraphMol/Fingerprints/MorganGenerator.h:204: warning: argument 'onlyNonzeroInvariants' from the argument list of RDKit::MorganFingerprint::getMorganGenerator has multiple @param documentation sections /<>/Code/GraphMol/Fingerprints/MorganGenerator.h:262: warning: argument 'countSimulation' from the argument list of RDKit::MorganFingerprint::getMorganGenerator has multiple @param documentation sections /<>/Code/GraphMol/Fingerprints/MorganGenerator.h:262: warning: argument 'includeChirality' from the argument list of RDKit::MorganFingerprint::getMorganGenerator has multiple @param documentation sections /<>/Code/GraphMol/Fingerprints/MorganGenerator.h:262: warning: argument 'onlyNonzeroInvariants' from the argument list of RDKit::MorganFingerprint::getMorganGenerator has multiple @param documentation sections /<>/Code/GraphMol/Fingerprints/FingerprintGenerator.h:123: warning: The following parameters of RDKit::MorganFingerprint::MorganAtomEnv::getBitId(FingerprintArguments *arguments, const std::vector< std::uint32_t > *atomInvariants, const std::vector< std::uint32_t > *bondInvariants, AdditionalOutput *AdditionalOutput, const bool hashResults=false, const std::uint64_t fpSize=0) const are not documented: parameter 'AdditionalOutput' parameter 'fpSize' /<>/Code/GraphMol/Fingerprints/MorganFingerprints.h:117: warning: The following parameter of RDKit::MorganFingerprints::getHashedFingerprint(const ROMol &mol, unsigned int radius, unsigned int nBits=2048, std::vector< boost::uint32_t > *invariants=nullptr, const std::vector< boost::uint32_t > *fromAtoms=nullptr, bool useChirality=false, bool useBondTypes=true, bool onlyNonzeroInvariants=false, BitInfoMap *atomsSettingBits=nullptr, bool includeRedundantEnvironments=false) is not documented: parameter 'nBits' /<>/Code/GraphMol/Fingerprints/FingerprintGenerator.h:123: warning: The following parameters of RDKit::RDKitFP::RDKitFPAtomEnv::getBitId(FingerprintArguments *arguments, const std::vector< std::uint32_t > *atomInvariants, const std::vector< std::uint32_t > *bondInvariants, AdditionalOutput *AdditionalOutput, bool hashResults=false, const std::uint64_t fpSize=0) const are not documented: parameter 'AdditionalOutput' parameter 'fpSize' /<>/Code/GraphMol/ReducedGraphs/ReducedGraphs.h:26: warning: The following parameter of RDKit::ReducedGraphs::generateMolExtendedReducedGraph(const ROMol &mol, std::vector< boost::dynamic_bitset<> > *atomTypes=nullptr) is not documented: parameter 'atomTypes' t::MolStandardize::RDKitValidation... Generating docs for compound RDKit::MolStandardize::Reionizer... Generating docs for compound RDKit::MolStandardize::Tautomer... Generating docs for compound RDKit::MolStandardize::TautomerCatalogEntry... Generating docs for compound RDKit::MolStandardize::TautomerCatalogParams... Generating docs for compound RDKit::MolStandardize::TautomerEnumerator... Generating docs for compound RDKit::MolStandardize::TautomerEnumeratorCallback... Generating docs for compound RDKit::MolStandardize::TautomerEnumeratorResult... Generating docs for nested compound RDKit::MolStandardize::TautomerEnumeratorResult::const_iterator... Generating docs for compound RDKit::MolStandardize::TautomerTransform... Generating docs for compound RDKit::MolStandardize::TransformCatalogEntry... Generating docs for compound RDKit::MolStandardize::TransformCatalogParams... Generating docs for compound RDKit::MolStandardize::Uncharger... Generating docs for compound RDKit::MolStandardize::ValidationErrorInfo... Generating docs for compound RDKit::MolStandardize::ValidationMethod... Generating docs for namespace RDKit::MolStandardize::defaults Generating docs for namespace RDKit::MolStandardize::TautomerScoringFunctions Generating docs for namespace RDKit::MorganFingerprint Generating docs for compound RDKit::MorganFingerprint::MorganArguments... Generating docs for compound RDKit::MorganFingerprint::MorganAtomEnv... Generating docs for compound RDKit::MorganFingerprint::MorganAtomInvGenerator... Generating docs for compound RDKit::MorganFingerprint::MorganBondInvGenerator... Generating docs for compound RDKit::MorganFingerprint::MorganEnvGenerator... Generating docs for compound RDKit::MorganFingerprint::MorganFeatureAtomInvGenerator... Generating docs for namespace RDKit::MorganFingerprints Generating docs for compound RDKit::MorganFingerprints::ss_matcher... Generating docs for namespace RDKit::PicklerOps Generating docs for namespace RDKit::PNGData Generating docs for namespace RDKit::QueryOps Generating docs for namespace RDKit::RascalMCES Generating docs for compound RDKit::RascalMCES::PartitionSet... Generating docs for compound RDKit::RascalMCES::RascalClusterOptions... Generating docs for compound RDKit::RascalMCES::RascalOptions... Generating docs for compound RDKit::RascalMCES::RascalResult... Generating docs for namespace RDKit::RascalMCES::details Generating docs for compound RDKit::RascalMCES::details::ClusNode... Generating docs for namespace RDKit::RDKitFP Generating docs for compound RDKit::RDKitFP::RDKitFPArguments... Generating docs for compound RDKit::RDKitFP::RDKitFPAtomEnv... Generating docs for compound RDKit::RDKitFP::RDKitFPAtomInvGenerator... Generating docs for compound RDKit::RDKitFP::RDKitFPEnvGenerator... Generating docs for namespace RDKit::RDKitFPUtils Generating docs for namespace RDKit::RDTypeTag Generating docs for namespace RDKit::RDTypeTag::detail Generating docs for compound RDKit::RDTypeTag::detail::Value... Generating docs for namespace RDKit::ReactionRunnerUtils Generating docs for namespace RDKit::ReducedGraphs Generating docs for namespace RDKit::RxnOps Generating docs for namespace RDKit::ScaffoldNetwork Generating docs for compound RDKit::ScaffoldNetwork::NetworkEdge... Generating docs for compound RDKit::ScaffoldNetwork::ScaffoldNetwork... Generating docs for compound RDKit::ScaffoldNetwork::ScaffoldNetworkParams... Generating docs for namespace RDKit::ScaffoldNetwork::detail Generating docs for namespace RDKit::SGroupParsing Generating docs for namespace RDKit::SGroupWriting Generating docs for namespace RDKit::SLNParse Generating docs for compound RDKit::SLNParse::AttribType... Generating docs for namespace RDKit::SmartsWrite Generating docs for namespace RDKit::SmilesWrite Generating docs for namespace RDKit::SmilesWrite::detail Generating docs for namespace RDKit::StructureCheck Generating docs for compound RDKit::StructureCheck::AugmentedAtom... Generating docs for compound RDKit::StructureCheck::ChargeFix... Generating docs for compound RDKit::StructureCheck::IncEntry.../<>/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.h:94: warning: argument 'useCountSimulation' of command @param is not found in the argument list of RDKit::TopologicalTorsion::getTopologicalTorsionGenerator(bool includeChirality=false, uint32_t torsionAtomCount=4, AtomInvariantsGenerator *atomInvariantsGenerator=nullptr, bool countSimulation=true, std::uint32_t fpSize=2048, std::vector< std::uint32_t > countBounds={1, 2, 4, 8}, bool ownsAtomInvGen=false) /<>/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.h:94: warning: The following parameter of RDKit::TopologicalTorsion::getTopologicalTorsionGenerator(bool includeChirality=false, uint32_t torsionAtomCount=4, AtomInvariantsGenerator *atomInvariantsGenerator=nullptr, bool countSimulation=true, std::uint32_t fpSize=2048, std::vector< std::uint32_t > countBounds={1, 2, 4, 8}, bool ownsAtomInvGen=false) is not documented: parameter 'countSimulation' /<>/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.h:32: warning: argument 'useCountSimulation' of command @param is not found in the argument list of RDKit::TopologicalTorsion::TopologicalTorsionArguments::TopologicalTorsionArguments(const bool includeChirality, const uint32_t torsionAtomCount, const bool countSimulation, const std::vector< std::uint32_t > countBounds, const std::uint32_t fpSize) /<>/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.h:32: warning: The following parameter of RDKit::TopologicalTorsion::TopologicalTorsionArguments::TopologicalTorsionArguments(const bool includeChirality, const uint32_t torsionAtomCount, const bool countSimulation, const std::vector< std::uint32_t > countBounds, const std::uint32_t fpSize) is not documented: parameter 'countSimulation' /<>/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.h:68: warning: The following parameter of RDKit::TopologicalTorsion::TopologicalTorsionAtomEnv::TopologicalTorsionAtomEnv(OutputType bitId, INT_VECT atomPath) is not documented: parameter 'atomPath' /<>/Code/GraphMol/Fingerprints/FingerprintGenerator.h:123: warning: The following parameters of RDKit::TopologicalTorsion::TopologicalTorsionAtomEnv::getBitId(FingerprintArguments *arguments, const std::vector< std::uint32_t > *atomInvariants, const std::vector< std::uint32_t > *bondInvariants, AdditionalOutput *AdditionalOutput, const bool hashResults=false, const std::uint64_t fpSize=0) const are not documented: parameter 'AdditionalOutput' parameter 'fpSize' /<>/Code/SimDivPickers/HierarchicalClusterPicker.h:48: warning: The following parameter of RDPickers::HierarchicalClusterPicker::pick(const double *distMat, unsigned int poolSize, unsigned int pickSize) const is not documented: parameter 'distMat' /<>/Code/SimDivPickers/LeaderPicker.h:48: warning: argument 'firstPicks' of command @param is not found in the argument list of RDPickers::LeaderPicker::lazyPick(T &func, unsigned int poolSize, unsigned int pickSize) const /<>/Code/SimDivPickers/LeaderPicker.h:48: warning: argument 'seed' of command @param is not found in the argument list of RDPickers::LeaderPicker::lazyPick(T &func, unsigned int poolSize, unsigned int pickSize) const /<>/Code/SimDivPickers/LeaderPicker.h:87: warning: The following parameters of RDPickers::LeaderPicker::pick(const double *distMat, unsigned int poolSize, unsigned int pickSize, const RDKit::INT_VECT &firstPicks, double threshold, int nthreads) const are not documented: parameter 'threshold' parameter 'nthreads' /<>/Code/SimDivPickers/MaxMinPicker.h:44: warning: argument 'firstPicks' of command @param is not found in the argument list of RDPickers::MaxMinPicker::lazyPick(T &func, unsigned int poolSize, unsigned int pickSize) const /<>/Code/SimDivPickers/MaxMinPicker.h:44: warning: argument 'seed' of command @param is not found in the argument list of RDPickers::MaxMinPicker::lazyPick(T &func, unsigned int poolSize, unsigned int pickSize) const Generating docs for compound RDKit::StructureCheck::Ligand... Generating docs for compound RDKit::StructureCheck::Neighbourhood... Generating docs for compound RDKit::StructureCheck::PathEntry... Generating docs for compound RDKit::StructureCheck::StructChecker... Generating docs for compound RDKit::StructureCheck::StructCheckerOptions... Generating docs for compound RDKit::StructureCheck::StructCheckTautomer... Generating docs for namespace RDKit::Subgraphs Generating docs for namespace RDKit::SubstanceGroupChecks Generating docs for namespace RDKit::TopologicalTorsion Generating docs for compound RDKit::TopologicalTorsion::TopologicalTorsionArguments... Generating docs for compound RDKit::TopologicalTorsion::TopologicalTorsionAtomEnv... Generating docs for compound RDKit::TopologicalTorsion::TopologicalTorsionEnvGenerator... Generating docs for namespace RDKit::UFF Generating docs for namespace RDKit::UFF::Tools Generating docs for compound RDKit::UFF::Tools::DefaultTorsionBondSmarts... Generating docs for namespace RDKit::Utils Generating docs for compound RDKit::Utils::LocaleSwitcher... Generating docs for namespace RDKit::Utils::detail Generating docs for namespace RDLog Generating docs for namespace RDNumeric Generating docs for compound RDNumeric::Matrix... Generating docs for compound RDNumeric::SquareMatrix... Generating docs for compound RDNumeric::SymmMatrix... Generating docs for compound RDNumeric::Vector... Generating docs for namespace RDNumeric::Alignments Generating docs for namespace RDNumeric::EigenSolvers Generating docs for namespace RDPickers Generating docs for compound RDPickers::DistPicker... Generating docs for compound RDPickers::HierarchicalClusterPicker... Generating docs for compound RDPickers::LeaderPicker... Generating docs for compound RDPickers::LeaderPickerState... Generating docs for compound RDPickers::MaxMinPicker... Generating docs for compound RDPickers::MaxMinPickInfo... Generating docs for namespace RingUtils Generating docs for namespace SmilesParseOps Generating docs for namespace SmilesParseOps::detail Generating graph info page... Generating directory documentation... Generating index page... Generating page index... Generating topic index... Generating module index... Generating module member index... Generating namespace index... Generating namespace member index... Generating concept index... Generating annotated compound index... Generating alphabetical compound index... Generating hierarchical class index... Generating member index... Generating file index... Generating file member index... Generating example index... finalizing index lists... writing tag file... Running plantuml with JAVA... type lookup cache used 33473/65536 hits=200049 misses=37089 symbol lookup cache used 29447/65536 hits=269120 misses=29447 finished... (cd /<>/Docs/Book; RDBASE=/<> /usr/bin/make html) make[2]: Entering directory '/<>/Docs/Book' mkdir -p _build/html/cppapi cp -r /<>/Code/docs/* _build/html/cppapi cp -r C++Examples _build/html/ sphinx-build -b html -d _build/doctrees . _build/html Running Sphinx v7.2.6 WARNING: html_static_path entry '_static' does not exist myst v2.0.0: MdParserConfig(commonmark_only=False, gfm_only=False, enable_extensions=set(), disable_syntax=[], all_links_external=False, url_schemes=('http', 'https', 'mailto', 'ftp'), ref_domains=None, fence_as_directive=set(), number_code_blocks=[], title_to_header=False, heading_anchors=0, heading_slug_func=None, html_meta={}, footnote_transition=True, words_per_minute=200, substitutions={}, linkify_fuzzy_links=True, dmath_allow_labels=True, dmath_allow_space=True, dmath_allow_digits=True, dmath_double_inline=False, update_mathjax=True, mathjax_classes='tex2jax_process|mathjax_process|math|output_area', enable_checkboxes=False, suppress_warnings=[], highlight_code_blocks=True) building [mo]: targets for 0 po files that are out of date writing output... building [html]: targets for 308 source files that are out of date updating environment: [new config] 308 added, 0 changed, 0 removed reading sources... 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[ 93%] source/rdkit.VLib reading sources... [ 93%] source/rdkit.VLib.Filter reading sources... [ 94%] source/rdkit.VLib.Node reading sources... [ 94%] source/rdkit.VLib.NodeLib reading sources... [ 94%] source/rdkit.VLib.NodeLib.DbMolSupply reading sources... [ 94%] source/rdkit.VLib.NodeLib.DbPickleSupplier reading sources... [ 95%] source/rdkit.VLib.NodeLib.SDSupply reading sources... [ 95%] source/rdkit.VLib.NodeLib.SmartsMolFilter reading sources... [ 95%] source/rdkit.VLib.NodeLib.SmartsRemover reading sources... [ 96%] source/rdkit.VLib.NodeLib.SmilesDupeFilter reading sources... [ 96%] source/rdkit.VLib.NodeLib.SmilesOutput reading sources... [ 96%] source/rdkit.VLib.NodeLib.SmilesSupply reading sources... [ 97%] source/rdkit.VLib.Output reading sources... [ 97%] source/rdkit.VLib.Supply reading sources... [ 97%] source/rdkit.VLib.Transform reading sources... [ 98%] source/rdkit.rdBase reading sources... [ 98%] source/rdkit.six reading sources... [ 98%] source/rdkit.utils reading sources... [ 99%] source/rdkit.utils.cactvs reading sources... [ 99%] source/rdkit.utils.chemutils reading sources... [ 99%] source/rdkit.utils.fileutils reading sources... [100%] source/rdkit.utils.listutils reading sources... [100%] source/rdkit.utils.spiral /<>/Docs/Book/BackwardsIncompatibleChanges.md:49: WARNING: duplicate label changes to canonicalization, other instance in /<>/Docs/Book/BackwardsIncompatibleChanges.md /<>/Docs/Book/Cartridge.md:732: WARNING: duplicate label license, other instance in /<>/Docs/Book/BackwardsIncompatibleChanges.md /<>/Docs/Book/Cookbook.rst:1733: WARNING: Title underline too short. Contiguous Rotatable Bonds ========================= /<>/Docs/Book/Cookbook.rst:1733: WARNING: Title underline too short. Contiguous Rotatable Bonds ========================= /<>/Docs/Book/Cookbook.rst:7: WARNING: duplicate label introduction, other instance in /<>/Docs/Book/Cartridge.md /<>/Docs/Book/Cookbook.rst:10: WARNING: duplicate label what is this?, other instance in /<>/Docs/Book/Cartridge.md /<>/Docs/Book/Cookbook.rst:2501: WARNING: duplicate label license, other instance in /<>/Docs/Book/Cartridge.md /<>/Docs/Book/GettingStartedInC++.md:3: WARNING: duplicate label what is this?, other instance in /<>/Docs/Book/Cookbook.rst /<>/Docs/Book/GettingStartedInC++.md:305: WARNING: duplicate label writing molecules, other instance in /<>/Docs/Book/Cookbook.rst /<>/Docs/Book/GettingStartedInPython.rst:358: WARNING: Explicit markup ends without a blank line; unexpected unindent. /<>/Docs/Book/GettingStartedInPython.rst:12: WARNING: duplicate label what is this?, other instance in /<>/Docs/Book/GettingStartedInC++.md /<>/Docs/Book/GettingStartedInPython.rst:30: WARNING: duplicate label reading single molecules, other instance in /<>/Docs/Book/GettingStartedInC++.md /<>/Docs/Book/GettingStartedInPython.rst:104: WARNING: duplicate label reading sets of molecules, other instance in /<>/Docs/Book/GettingStartedInC++.md /<>/Docs/Book/GettingStartedInPython.rst:208: WARNING: duplicate label writing molecules, other instance in /<>/Docs/Book/GettingStartedInC++.md /<>/Docs/Book/GettingStartedInPython.rst:390: WARNING: duplicate label writing sets of molecules, other instance in /<>/Docs/Book/GettingStartedInC++.md /<>/Docs/Book/GettingStartedInPython.rst:431: WARNING: duplicate label working with molecules, other instance in /<>/Docs/Book/GettingStartedInC++.md /<>/Docs/Book/GettingStartedInPython.rst:435: WARNING: duplicate label looping over atoms and bonds, other instance in /<>/Docs/Book/GettingStartedInC++.md /<>/Docs/Book/GettingStartedInPython.rst:478: WARNING: duplicate label ring information, other instance in /<>/Docs/Book/GettingStartedInC++.md /<>/Docs/Book/GettingStartedInPython.rst:547: WARNING: duplicate label modifying molecules, other instance in /<>/Docs/Book/GettingStartedInC++.md /<>/Docs/Book/GettingStartedInPython.rst:615: WARNING: duplicate label working with 2d molecules: generating depictions, other instance in /<>/Docs/Book/GettingStartedInC++.md /<>/Docs/Book/GettingStartedInPython.rst:665: WARNING: duplicate label working with 3d molecules, other instance in /<>/Docs/Book/GettingStartedInC++.md /<>/Docs/Book/GettingStartedInPython.rst:788: WARNING: duplicate label preserving molecules, other instance in /<>/Docs/Book/GettingStartedInC++.md /<>/Docs/Book/GettingStartedInPython.rst:844: WARNING: duplicate label drawing molecules, other instance in /<>/Docs/Book/GettingStartedInC++.md /<>/Docs/Book/GettingStartedInPython.rst:1083: WARNING: duplicate label substructure searching, other instance in /<>/Docs/Book/GettingStartedInC++.md /<>/Docs/Book/GettingStartedInPython.rst:1148: WARNING: duplicate label stereochemistry in substructure matches, other instance in /<>/Docs/Book/GettingStartedInC++.md /<>/Docs/Book/GettingStartedInPython.rst:1186: WARNING: duplicate label atom map indices in smarts, other instance in /<>/Docs/Book/GettingStartedInC++.md /<>/Docs/Book/GettingStartedInPython.rst:3425: WARNING: duplicate label the sssr problem, other instance in /<>/Docs/Book/GettingStartedInC++.md /<>/Docs/Book/GettingStartedInPython.rst:3829: WARNING: duplicate label license, other instance in /<>/Docs/Book/Cookbook.rst /<>/Docs/Book/Install.md:226: WARNING: Non-consecutive header level increase; H4 to H6 [myst.header] /<>/Docs/Book/Install.md:450: WARNING: duplicate label recommended extras, other instance in /<>/Docs/Book/Install.md /<>/Docs/Book/Install.md:494: WARNING: duplicate label testing the build (optional, but recommended), other instance in /<>/Docs/Book/Install.md /<>/Docs/Book/Install.md:499: WARNING: duplicate label license, other instance in /<>/Docs/Book/GettingStartedInPython.rst /<>/Docs/Book/Overview.md:145: WARNING: duplicate label license, other instance in /<>/Docs/Book/Install.md /<>/Docs/Book/RDKit_Book.rst:1563: ERROR: Malformed table. Text in column margin in table line 15. ======================== ========= Alkyl (ALK) alkyl side chains (not an H atom) AlkylH (ALH) alkyl side chains including an H atom Alkenyl (AEL) alkenyl side chains AlkenylH (AEH) alkenyl side chains or an H atom Alkynyl (AYL) alkynyl side chains AlkynylH (AYH) alkynyl side chains or an H atom Alkoxy (AOX) alkoxy side chains AlkoxyH (AOH) alkoxy side chains or an H atom Carbocyclic (CBC) carbocyclic side chains CarbocyclicH (CBH) carbocyclic side chains or an H atom Carbocycloalkyl (CAL) cycloalkyl side chains CarbocycloalkylH (CAH) cycloalkyl side chains or an H atom Carbocycloalkenyl (CEL) cycloalkenyl side chains CarbocycloalkenylH (CEH) cycloalkenyl side chains or an H atom Carboaryl (ARY) all-carbon aryl side chains CarboarylH (ARH) all-carbon aryl side chains or an H atom Cyclic (CYC) cyclic side chains CyclicH (CYH) cyclic side chains or an H atom Acyclic(ACY) acyclic side chains (not an H atom) AcyclicH (ACH) acyclic side chains or an H atom Carboacyclic (ABC) all-carbon acyclic side chains CarboacyclicH (ABH) all-carbon acyclic side chains or an H atom Heteroacyclic (AHC) acyclic side chains with at least one heteroatom HeteroacyclicH (AHH) acyclic side chains with at least one heteroatom or an H atom Heterocyclic (CHC) cyclic side chains with at least one heteroatom HeterocyclicH (CHH) cyclic side chains with at least one heteroatom or an H atom Heteroaryl (HAR) aryl side chains with at least one heteroatom HeteroarylH (HAH) aryl side chains with at least one heteroatom or an H atom NoCarbonRing (CXX) ring containing no carbon atoms NoCarbonRingH (CXH) ring containing no carbon atoms or an H atom Group (G) any group (not H atom) GroupH (GH) any group (including H atom) Group* (G*) any group with a ring closure GroupH* (GH*) any group with a ring closure or an H atom ======================== ========= /<>/Docs/Book/RDKit_Book.rst:1664: WARNING: Enumerated list ends without a blank line; unexpected unindent. /<>/Docs/Book/RDKit_Book.rst:180: WARNING: duplicate label aromaticity, other instance in /<>/Docs/Book/RDKit_Book.rst /<>/Docs/Book/RDKit_Book.rst:385: WARNING: duplicate label dative bonds, other instance in /<>/Docs/Book/RDKit_Book.rst /<>/Docs/Book/RDKit_Book.rst:536: WARNING: duplicate label stereochemistry, other instance in /<>/Docs/Book/Cookbook.rst /<>/Docs/Book/RDKit_Book.rst:1264: WARNING: duplicate label chemical features, other instance in /<>/Docs/Book/GettingStartedInPython.rst /<>/Docs/Book/RDKit_Book.rst:2200: WARNING: duplicate label introduction, other instance in /<>/Docs/Book/Cookbook.rst /<>/Docs/Book/RDKit_Book.rst:2298: WARNING: duplicate label rdkit fingerprints, other instance in /<>/Docs/Book/GettingStartedInPython.rst /<>/Docs/Book/RDKit_Book.rst:2464: WARNING: duplicate label license, other instance in /<>/Docs/Book/Overview.md WARNING: autodoc: failed to import module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Avalon' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Avalon.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.rst /<>/Docs/Book/source/rdkit.Avalon.rst:12: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.rst WARNING: autodoc: failed to import module 'Avalon.pyAvalonTools' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rst:5: WARNING: duplicate label subpackages, other instance in /<>/Docs/Book/source/rdkit.rst /<>/Docs/Book/source/rdkit.Chem.rst:28: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Avalon.rst /<>/Docs/Book/source/rdkit.Chem.rst:113: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Avalon.rst WARNING: autodoc: failed to import module 'Chem.AllChem' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.AtomPairs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.AtomPairs.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.rst /<>/Docs/Book/source/rdkit.Chem.AtomPairs.rst:15: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.rst WARNING: autodoc: failed to import module 'Chem.AtomPairs.Pairs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.AtomPairs.Sheridan' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.AtomPairs.Torsions' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.AtomPairs.Utils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.BRICS' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.BuildFragmentCatalog' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ChemUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.ChemUtils.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.AtomPairs.rst /<>/Docs/Book/source/rdkit.Chem.ChemUtils.rst:16: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.AtomPairs.rst WARNING: autodoc: failed to import module 'Chem.ChemUtils.AlignDepict' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ChemUtils.BulkTester' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ChemUtils.DescriptorUtilities' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ChemUtils.SDFToCSV' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ChemUtils.TemplateExpand' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ChemicalFeatures' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ChemicalForceFields' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Crippen' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Descriptors' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Descriptors3D' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.Draw.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.ChemUtils.rst /<>/Docs/Book/source/rdkit.Chem.Draw.rst:21: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.ChemUtils.rst WARNING: autodoc: failed to import module 'Chem.Draw.IPythonConsole' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.MolDrawing' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.SimilarityMaps' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.aggCanvas' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.cairoCanvas' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.canvasbase' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.mplCanvas' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.qtCanvas' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.rdMolDraw2D' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.rdMolDraw2DQt' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.EState' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.EState.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.Draw.rst /<>/Docs/Book/source/rdkit.Chem.EState.rst:15: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.Draw.rst WARNING: autodoc: failed to import module 'Chem.EState.AtomTypes' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.EState.EState' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.EState.EState_VSA' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.EState.Fingerprinter' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.EnumerateHeterocycles' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.EnumerateStereoisomers' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FastSDMolSupplier' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FeatFinderCLI' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FeatMaps' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.FeatMaps.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.EState.rst /<>/Docs/Book/source/rdkit.Chem.FeatMaps.rst:15: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.EState.rst WARNING: autodoc: failed to import module 'Chem.FeatMaps.FeatMapParser' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FeatMaps.FeatMapPoint' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FeatMaps.FeatMapUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FeatMaps.FeatMaps' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Features' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.Features.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.FeatMaps.rst /<>/Docs/Book/source/rdkit.Chem.Features.rst:13: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.FeatMaps.rst WARNING: autodoc: failed to import module 'Chem.Features.FeatDirUtilsRD' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Features.ShowFeats' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FilterCatalog' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Fingerprints' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.Fingerprints.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.Features.rst /<>/Docs/Book/source/rdkit.Chem.Fingerprints.rst:16: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.Features.rst WARNING: autodoc: failed to import module 'Chem.Fingerprints.ClusterMols' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Fingerprints.DbFpSupplier' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Fingerprints.FingerprintMols' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Fingerprints.MolSimilarity' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Fingerprints.SimilarityScreener' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Fraggle' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.Fraggle.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.Fingerprints.rst /<>/Docs/Book/source/rdkit.Chem.Fraggle.rst:12: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.Fingerprints.rst WARNING: autodoc: failed to import module 'Chem.Fraggle.FraggleSim' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FragmentCatalog' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FragmentMatcher' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Fragments' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FunctionalGroups' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.GraphDescriptors' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Graphs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Lipinski' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MACCSkeys' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MCS' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolCatalog' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolDb' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.MolDb.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.Fraggle.rst /<>/Docs/Book/source/rdkit.Chem.MolDb.rst:15: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.Fraggle.rst WARNING: autodoc: failed to import module 'Chem.MolDb.FingerprintUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolDb.Loader' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolDb.Loader_orig' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolDb.Loader_sa' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolKey' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.MolKey.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.MolDb.rst /<>/Docs/Book/source/rdkit.Chem.MolKey.rst:13: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.MolDb.rst WARNING: autodoc: failed to import module 'Chem.MolKey.InchiInfo' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolKey.MolKey' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.MolStandardize.rst:6: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.MolKey.rst WARNING: autodoc: failed to import module 'Chem.MolStandardize.rdMolStandardize' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolSurf' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.PandasTools' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.PeriodicTable' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm2D' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.Pharm2D.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.MolStandardize.rst /<>/Docs/Book/source/rdkit.Chem.Pharm2D.rst:16: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.MolKey.rst WARNING: autodoc: failed to import module 'Chem.Pharm2D.Generate' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm2D.Gobbi_Pharm2D' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm2D.Matcher' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm2D.SigFactory' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm2D.Utils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm3D' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.Pharm3D.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.Pharm2D.rst /<>/Docs/Book/source/rdkit.Chem.Pharm3D.rst:14: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.Pharm2D.rst WARNING: autodoc: failed to import module 'Chem.Pharm3D.EmbedLib' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm3D.ExcludedVolume' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm3D.Pharmacophore' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.PropertyMol' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.PyMol' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.QED' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Randomize' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Recap' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ReducedGraphs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.RegistrationHash' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.SATIS' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.SaltRemover' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Scaffolds' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.Scaffolds.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.Pharm3D.rst /<>/Docs/Book/source/rdkit.Chem.Scaffolds.rst:13: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.Pharm3D.rst WARNING: autodoc: failed to import module 'Chem.Scaffolds.MurckoScaffold' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Scaffolds.rdScaffoldNetwork' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ShowMols' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.SimpleEnum' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.SimpleEnum.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.Scaffolds.rst /<>/Docs/Book/source/rdkit.Chem.SimpleEnum.rst:12: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.Scaffolds.rst WARNING: autodoc: failed to import module 'Chem.SimpleEnum.Enumerator' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.SpacialScore' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Subshape' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.Subshape.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.SimpleEnum.rst /<>/Docs/Book/source/rdkit.Chem.Subshape.rst:15: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.SimpleEnum.rst WARNING: autodoc: failed to import module 'Chem.Subshape.BuilderUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Subshape.SubshapeAligner' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Subshape.SubshapeBuilder' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Subshape.SubshapeObjects' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Suppliers' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.Suppliers.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.Subshape.rst /<>/Docs/Book/source/rdkit.Chem.Suppliers.rst:13: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.Subshape.rst WARNING: autodoc: failed to import module 'Chem.Suppliers.DbMolSupplier' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Suppliers.MolSupplier' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.TemplateAlign' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.TorsionFingerprints' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.fmcs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.fmcs.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.Suppliers.rst /<>/Docs/Book/source/rdkit.Chem.fmcs.rst:12: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.Suppliers.rst WARNING: autodoc: failed to import module 'Chem.fmcs.fmcs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.inchi' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdAbbreviations' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdCIPLabeler' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdChemReactions' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rdChemicalFeatures.rst:2: WARNING: Title underline too short. rdkit.Chem.rdChemicalFeatures module ================================= WARNING: autodoc: failed to import module 'Chem.rdChemicalFeatures' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdCoordGen' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdDepictor' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdDeprotect' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdDetermineBonds' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdDistGeom' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdEHTTools' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdFMCS' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdFingerprintGenerator' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rdForceFieldHelpers.rst:2: WARNING: Title underline too short. rdkit.Chem.rdForceFieldHelpers module ================================= WARNING: autodoc: failed to import module 'Chem.rdForceFieldHelpers' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdFreeSASA' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdMHFPFingerprint' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdMMPA' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdMolAlign' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdMolCatalog' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rdMolChemicalFeatures.rst:2: WARNING: Title underline too short. rdkit.Chem.rdMolChemicalFeatures module ================================= WARNING: autodoc: failed to import module 'Chem.rdMolChemicalFeatures' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rdMolDescriptors.rst:2: WARNING: Title underline too short. rdkit.Chem.rdMolDescriptors module ================================= WARNING: autodoc: failed to import module 'Chem.rdMolDescriptors' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdMolEnumerator' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdMolHash' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rdMolInterchange.rst:2: WARNING: Title underline too short. rdkit.Chem.rdMolInterchange module ================================= WARNING: autodoc: failed to import module 'Chem.rdMolInterchange' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdMolTransforms' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rdPartialCharges.rst:2: WARNING: Title underline too short. rdkit.Chem.rdPartialCharges module ================================= WARNING: autodoc: failed to import module 'Chem.rdPartialCharges' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rdRGroupDecomposition.rst:2: WARNING: Title underline too short. rdkit.Chem.rdRGroupDecomposition module ================================= WARNING: autodoc: failed to import module 'Chem.rdRGroupDecomposition' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdReducedGraphs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdSLNParse' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdShapeHelpers' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rdSubstructLibrary.rst:2: WARNING: Title underline too short. rdkit.Chem.rdSubstructLibrary module ================================= WARNING: autodoc: failed to import module 'Chem.rdSubstructLibrary' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdTautomerQuery' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdchem' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdfiltercatalog' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdfragcatalog' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdinchi' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdmolfiles' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdmolops' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdqueries' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdtrajectory' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataManip' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.DataManip.rst:5: WARNING: duplicate label subpackages, other instance in /<>/Docs/Book/source/rdkit.Chem.rst /<>/Docs/Book/source/rdkit.DataManip.rst:12: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.fmcs.rst WARNING: autodoc: failed to import module 'DataManip.Metric' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.DataManip.Metric.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.fmcs.rst /<>/Docs/Book/source/rdkit.DataManip.Metric.rst:12: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.DataManip.rst WARNING: autodoc: failed to import module 'DataManip.Metric.rdMetricMatrixCalc' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataStructs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.DataStructs.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.DataManip.Metric.rst /<>/Docs/Book/source/rdkit.DataStructs.rst:18: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.DataManip.Metric.rst WARNING: autodoc: failed to import module 'DataStructs.BitEnsemble' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataStructs.BitEnsembleDb' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataStructs.BitUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataStructs.LazySignature' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataStructs.TopNContainer' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataStructs.VectCollection' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataStructs.cDataStructs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Dbase' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Dbase.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.DataStructs.rst /<>/Docs/Book/source/rdkit.Dbase.rst:18: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.DataStructs.rst WARNING: autodoc: failed to import module 'Dbase.DbConnection' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Dbase.DbInfo' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Dbase.DbModule' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Dbase.DbReport' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Dbase.DbResultSet' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Dbase.DbUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Dbase.StorageUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DistanceGeometry' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.DistanceGeometry.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Dbase.rst /<>/Docs/Book/source/rdkit.DistanceGeometry.rst:13: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Dbase.rst WARNING: autodoc: failed to import module 'DistanceGeometry.DistGeom' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ForceField.rst:5: WARNING: Block quote ends without a blank line; unexpected unindent. WARNING: autodoc: failed to import module 'ForceField' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ForceField.rst:13: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.DistanceGeometry.rst WARNING: autodoc: failed to import module 'ForceField.rdForceField' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Geometry' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Geometry.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.DistanceGeometry.rst /<>/Docs/Book/source/rdkit.Geometry.rst:12: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.ForceField.rst WARNING: autodoc: failed to import module 'Geometry.rdGeometry' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ML.rst:5: WARNING: duplicate label subpackages, other instance in /<>/Docs/Book/source/rdkit.DataManip.rst /<>/Docs/Book/source/rdkit.ML.rst:24: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Geometry.rst /<>/Docs/Book/source/rdkit.ML.rst:38: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Geometry.rst WARNING: autodoc: failed to import module 'ML.AnalyzeComposite' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.BuildComposite' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ML.Cluster.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.ML.rst /<>/Docs/Book/source/rdkit.ML.Cluster.rst:19: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.ML.rst WARNING: autodoc: failed to import module 'ML.Cluster.Butina' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster.ClusterUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster.ClusterVis' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster.Clustering' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster.Clusters' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster.Murtagh' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster.Resemblance' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster.Standardize' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Composite' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ML.Composite.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.ML.Cluster.rst /<>/Docs/Book/source/rdkit.ML.Composite.rst:14: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.ML.Cluster.rst WARNING: autodoc: failed to import module 'ML.Composite.AdjustComposite' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Composite.BayesComposite' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Composite.Composite' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.CompositeRun' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Data' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ML.Data.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.ML.Composite.rst /<>/Docs/Book/source/rdkit.ML.Data.rst:19: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.ML.Composite.rst WARNING: autodoc: failed to import module 'ML.Data.DataUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Data.FindQuantBounds' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Data.MLData' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Data.Quantize' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Data.SplitData' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Data.Stats' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Data.Transforms' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Data.cQuantize' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ML.DecTree.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.ML.Data.rst /<>/Docs/Book/source/rdkit.ML.DecTree.rst:23: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.ML.Data.rst WARNING: autodoc: failed to import module 'ML.DecTree.BuildQuantTree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.BuildSigTree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.CrossValidate' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.DecTree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.Forest' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.ID3' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.PruneTree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.QuantTree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.SigTree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.Tree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.TreeUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.TreeVis' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Descriptors' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ML.Descriptors.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.ML.DecTree.rst /<>/Docs/Book/source/rdkit.ML.Descriptors.rst:15: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.ML.DecTree.rst WARNING: autodoc: failed to import module 'ML.Descriptors.CompoundDescriptors' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Descriptors.Descriptors' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Descriptors.MoleculeDescriptors' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Descriptors.Parser' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.EnrichPlot' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.GrowComposite' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.InfoTheory' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ML.InfoTheory.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.ML.Descriptors.rst /<>/Docs/Book/source/rdkit.ML.InfoTheory.rst:15: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.ML.Descriptors.rst WARNING: autodoc: failed to import module 'ML.InfoTheory.BitClusterer' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.InfoTheory.BitRank' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.InfoTheory.entropy' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ML.InfoTheory.rdInfoTheory.rst:2: WARNING: Title underline too short. rdkit.ML.InfoTheory.rdInfoTheory module ====================================== WARNING: autodoc: failed to import module 'ML.InfoTheory.rdInfoTheory' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.KNN' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ML.KNN.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.ML.InfoTheory.rst /<>/Docs/Book/source/rdkit.ML.KNN.rst:16: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.ML.InfoTheory.rst WARNING: autodoc: failed to import module 'ML.KNN.CrossValidate' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.KNN.DistFunctions' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.KNN.KNNClassificationModel' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.KNN.KNNModel' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.KNN.KNNRegressionModel' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.MLUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ML.MLUtils.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.ML.KNN.rst /<>/Docs/Book/source/rdkit.ML.MLUtils.rst:12: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.ML.KNN.rst WARNING: autodoc: failed to import module 'ML.MLUtils.VoteImg' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.MatOps' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.ModelPackage' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ML.ModelPackage.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.ML.MLUtils.rst /<>/Docs/Book/source/rdkit.ML.ModelPackage.rst:13: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.ML.MLUtils.rst WARNING: autodoc: failed to import module 'ML.ModelPackage.PackageUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.ModelPackage.Packager' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.NaiveBayes' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ML.NaiveBayes.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.ML.ModelPackage.rst /<>/Docs/Book/source/rdkit.ML.NaiveBayes.rst:13: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.ML.ModelPackage.rst WARNING: autodoc: failed to import module 'ML.NaiveBayes.ClassificationModel' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.NaiveBayes.CrossValidate' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Neural' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ML.Neural.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.ML.NaiveBayes.rst /<>/Docs/Book/source/rdkit.ML.Neural.rst:16: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.ML.NaiveBayes.rst WARNING: autodoc: failed to import module 'ML.Neural.ActFuncs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Neural.CrossValidate' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Neural.NetNode' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Neural.Network' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Neural.Trainers' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.SLT' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ML.SLT.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.ML.Neural.rst /<>/Docs/Book/source/rdkit.ML.SLT.rst:12: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.ML.Neural.rst WARNING: autodoc: failed to import module 'ML.SLT.Risk' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Scoring' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ML.Scoring.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.ML.SLT.rst /<>/Docs/Book/source/rdkit.ML.Scoring.rst:12: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.ML.SLT.rst WARNING: autodoc: failed to import module 'ML.Scoring.Scoring' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.ScreenComposite' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.files' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Numerics' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Numerics.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.ML.Scoring.rst /<>/Docs/Book/source/rdkit.Numerics.rst:12: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.ML.Scoring.rst WARNING: autodoc: failed to import module 'Numerics.rdAlignment' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'RDConfig' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'RDLogger' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'RDPaths' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'RDRandom' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'SimDivFilters' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.SimDivFilters.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Numerics.rst /<>/Docs/Book/source/rdkit.SimDivFilters.rst:13: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Numerics.rst WARNING: autodoc: failed to import module 'SimDivFilters.SimilarityPickers' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'SimDivFilters.rdSimDivPickers' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'TestRunner' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.VLib.rst:5: WARNING: duplicate label subpackages, other instance in /<>/Docs/Book/source/rdkit.ML.rst /<>/Docs/Book/source/rdkit.VLib.rst:12: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.SimDivFilters.rst /<>/Docs/Book/source/rdkit.VLib.rst:23: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.SimDivFilters.rst WARNING: autodoc: failed to import module 'VLib.Filter' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.Node' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.VLib.NodeLib.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.VLib.rst /<>/Docs/Book/source/rdkit.VLib.NodeLib.rst:19: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.VLib.rst WARNING: autodoc: failed to import module 'VLib.NodeLib.DbMolSupply' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib.DbPickleSupplier' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib.SDSupply' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib.SmartsMolFilter' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib.SmartsRemover' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib.SmilesDupeFilter' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib.SmilesOutput' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib.SmilesSupply' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.Output' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.Supply' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.Transform' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'rdBase' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'six' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'utils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.utils.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.VLib.NodeLib.rst /<>/Docs/Book/source/rdkit.utils.rst:16: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.VLib.NodeLib.rst WARNING: autodoc: failed to import module 'utils.cactvs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'utils.chemutils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'utils.fileutils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'utils.listutils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'utils.spiral' from module 'rdkit'; the following exception was raised: No module named 'rdkit' looking for now-outdated files... none found pickling environment... done checking consistency... /<>/Docs/Book/data/README.md: WARNING: document isn't included in any toctree /<>/Docs/Book/source/rdkit.Chem.SpacialScore.rst: WARNING: document isn't included in any toctree done preparing documents... done copying assets... copying downloadable files... 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[100%] images/query_atoms.png dumping search index in English (code: en)... done dumping object inventory... done build succeeded, 444 warnings. The HTML pages are in _build/html. Build finished. The HTML pages are in _build/html. make[2]: Leaving directory '/<>/Docs/Book' (cd /<>/Docs/Book; RDBASE=/<> /usr/bin/make latexpdf) make[2]: Entering directory '/<>/Docs/Book' mkdir -p _build/html/cppapi cp -r /<>/Code/docs/* _build/html/cppapi sphinx-build -b latex -d _build/doctrees . _build/latex Running Sphinx v7.2.6 making output directory... done WARNING: html_static_path entry '_static' does not exist loading pickled environment... done myst v2.0.0: MdParserConfig(commonmark_only=False, gfm_only=False, enable_extensions=set(), disable_syntax=[], all_links_external=False, url_schemes=('http', 'https', 'mailto', 'ftp'), ref_domains=None, fence_as_directive=set(), number_code_blocks=[], title_to_header=False, heading_anchors=0, heading_slug_func=None, html_meta={}, footnote_transition=True, words_per_minute=200, substitutions={}, linkify_fuzzy_links=True, dmath_allow_labels=True, dmath_allow_space=True, dmath_allow_digits=True, dmath_double_inline=False, update_mathjax=True, mathjax_classes='tex2jax_process|mathjax_process|math|output_area', enable_checkboxes=False, suppress_warnings=[], highlight_code_blocks=True) building [mo]: targets for 0 po files that are out of date writing output... building [latex]: all documents updating environment: 0 added, 296 changed, 0 removed reading sources... 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[100%] source/rdkit.utils.spiral WARNING: autodoc: failed to import module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.rst:5: WARNING: duplicate label subpackages, other instance in /<>/Docs/Book/source/rdkit.VLib.rst /<>/Docs/Book/source/rdkit.rst:24: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.utils.rst /<>/Docs/Book/source/rdkit.rst:37: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.utils.rst WARNING: autodoc: failed to import module 'Avalon' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Avalon.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.rst /<>/Docs/Book/source/rdkit.Avalon.rst:12: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.rst WARNING: autodoc: failed to import module 'Avalon.pyAvalonTools' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rst:5: WARNING: duplicate label subpackages, other instance in /<>/Docs/Book/source/rdkit.rst /<>/Docs/Book/source/rdkit.Chem.rst:28: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Avalon.rst /<>/Docs/Book/source/rdkit.Chem.rst:113: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Avalon.rst WARNING: autodoc: failed to import module 'Chem.AllChem' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.AtomPairs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.AtomPairs.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.rst /<>/Docs/Book/source/rdkit.Chem.AtomPairs.rst:15: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.rst WARNING: autodoc: failed to import module 'Chem.AtomPairs.Pairs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.AtomPairs.Sheridan' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.AtomPairs.Torsions' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.AtomPairs.Utils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.BRICS' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.BuildFragmentCatalog' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ChemUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.ChemUtils.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.AtomPairs.rst /<>/Docs/Book/source/rdkit.Chem.ChemUtils.rst:16: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.AtomPairs.rst WARNING: autodoc: failed to import module 'Chem.ChemUtils.AlignDepict' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ChemUtils.BulkTester' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ChemUtils.DescriptorUtilities' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ChemUtils.SDFToCSV' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ChemUtils.TemplateExpand' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ChemicalFeatures' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ChemicalForceFields' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Crippen' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Descriptors' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Descriptors3D' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.Draw.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.ChemUtils.rst /<>/Docs/Book/source/rdkit.Chem.Draw.rst:21: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.ChemUtils.rst WARNING: autodoc: failed to import module 'Chem.Draw.IPythonConsole' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.MolDrawing' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.SimilarityMaps' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.aggCanvas' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.cairoCanvas' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.canvasbase' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.mplCanvas' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.qtCanvas' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.rdMolDraw2D' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.rdMolDraw2DQt' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.EState' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.EState.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.Draw.rst /<>/Docs/Book/source/rdkit.Chem.EState.rst:15: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.Draw.rst WARNING: autodoc: failed to import module 'Chem.EState.AtomTypes' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.EState.EState' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.EState.EState_VSA' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.EState.Fingerprinter' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.EnumerateHeterocycles' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.EnumerateStereoisomers' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FastSDMolSupplier' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FeatFinderCLI' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FeatMaps' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.FeatMaps.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.EState.rst /<>/Docs/Book/source/rdkit.Chem.FeatMaps.rst:15: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.EState.rst WARNING: autodoc: failed to import module 'Chem.FeatMaps.FeatMapParser' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FeatMaps.FeatMapPoint' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FeatMaps.FeatMapUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FeatMaps.FeatMaps' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Features' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.Features.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.FeatMaps.rst /<>/Docs/Book/source/rdkit.Chem.Features.rst:13: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.FeatMaps.rst WARNING: autodoc: failed to import module 'Chem.Features.FeatDirUtilsRD' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Features.ShowFeats' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FilterCatalog' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Fingerprints' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.Fingerprints.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.Features.rst /<>/Docs/Book/source/rdkit.Chem.Fingerprints.rst:16: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.Features.rst WARNING: autodoc: failed to import module 'Chem.Fingerprints.ClusterMols' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Fingerprints.DbFpSupplier' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Fingerprints.FingerprintMols' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Fingerprints.MolSimilarity' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Fingerprints.SimilarityScreener' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Fraggle' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.Fraggle.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.Fingerprints.rst /<>/Docs/Book/source/rdkit.Chem.Fraggle.rst:12: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.Fingerprints.rst WARNING: autodoc: failed to import module 'Chem.Fraggle.FraggleSim' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FragmentCatalog' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FragmentMatcher' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Fragments' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FunctionalGroups' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.GraphDescriptors' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Graphs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Lipinski' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MACCSkeys' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MCS' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolCatalog' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolDb' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.MolDb.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.Fraggle.rst /<>/Docs/Book/source/rdkit.Chem.MolDb.rst:15: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.Fraggle.rst WARNING: autodoc: failed to import module 'Chem.MolDb.FingerprintUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolDb.Loader' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolDb.Loader_orig' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolDb.Loader_sa' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolKey' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.MolKey.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.MolDb.rst /<>/Docs/Book/source/rdkit.Chem.MolKey.rst:13: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.MolDb.rst WARNING: autodoc: failed to import module 'Chem.MolKey.InchiInfo' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolKey.MolKey' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolStandardize.rdMolStandardize' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolSurf' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.PandasTools' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.PeriodicTable' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm2D' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.Pharm2D.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.MolKey.rst /<>/Docs/Book/source/rdkit.Chem.Pharm2D.rst:16: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.MolKey.rst WARNING: autodoc: failed to import module 'Chem.Pharm2D.Generate' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm2D.Gobbi_Pharm2D' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm2D.Matcher' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm2D.SigFactory' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm2D.Utils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm3D' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.Pharm3D.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.Pharm2D.rst /<>/Docs/Book/source/rdkit.Chem.Pharm3D.rst:14: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.Pharm2D.rst WARNING: autodoc: failed to import module 'Chem.Pharm3D.EmbedLib' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm3D.ExcludedVolume' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm3D.Pharmacophore' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.PropertyMol' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.PyMol' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.QED' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Randomize' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Recap' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ReducedGraphs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.RegistrationHash' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.SATIS' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.SaltRemover' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Scaffolds' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.Scaffolds.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.Pharm3D.rst /<>/Docs/Book/source/rdkit.Chem.Scaffolds.rst:13: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.Pharm3D.rst WARNING: autodoc: failed to import module 'Chem.Scaffolds.MurckoScaffold' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Scaffolds.rdScaffoldNetwork' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ShowMols' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.SimpleEnum' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.SimpleEnum.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.Scaffolds.rst /<>/Docs/Book/source/rdkit.Chem.SimpleEnum.rst:12: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.Scaffolds.rst WARNING: autodoc: failed to import module 'Chem.SimpleEnum.Enumerator' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.SpacialScore' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Subshape' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.Subshape.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.SimpleEnum.rst /<>/Docs/Book/source/rdkit.Chem.Subshape.rst:15: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.SimpleEnum.rst WARNING: autodoc: failed to import module 'Chem.Subshape.BuilderUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Subshape.SubshapeAligner' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Subshape.SubshapeBuilder' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Subshape.SubshapeObjects' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Suppliers' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.Suppliers.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.Subshape.rst /<>/Docs/Book/source/rdkit.Chem.Suppliers.rst:13: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.Subshape.rst WARNING: autodoc: failed to import module 'Chem.Suppliers.DbMolSupplier' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Suppliers.MolSupplier' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.TemplateAlign' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.TorsionFingerprints' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.fmcs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.fmcs.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.Suppliers.rst /<>/Docs/Book/source/rdkit.Chem.fmcs.rst:12: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.Suppliers.rst WARNING: autodoc: failed to import module 'Chem.fmcs.fmcs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.inchi' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdAbbreviations' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdCIPLabeler' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdChemReactions' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rdChemicalFeatures.rst:2: WARNING: Title underline too short. rdkit.Chem.rdChemicalFeatures module ================================= WARNING: autodoc: failed to import module 'Chem.rdChemicalFeatures' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdCoordGen' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdDepictor' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdDeprotect' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdDetermineBonds' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdDistGeom' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdEHTTools' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdFMCS' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdFingerprintGenerator' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rdForceFieldHelpers.rst:2: WARNING: Title underline too short. rdkit.Chem.rdForceFieldHelpers module ================================= WARNING: autodoc: failed to import module 'Chem.rdForceFieldHelpers' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdFreeSASA' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdMHFPFingerprint' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdMMPA' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdMolAlign' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdMolCatalog' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rdMolChemicalFeatures.rst:2: WARNING: Title underline too short. rdkit.Chem.rdMolChemicalFeatures module ================================= WARNING: autodoc: failed to import module 'Chem.rdMolChemicalFeatures' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rdMolDescriptors.rst:2: WARNING: Title underline too short. rdkit.Chem.rdMolDescriptors module ================================= WARNING: autodoc: failed to import module 'Chem.rdMolDescriptors' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdMolEnumerator' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdMolHash' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rdMolInterchange.rst:2: WARNING: Title underline too short. rdkit.Chem.rdMolInterchange module ================================= WARNING: autodoc: failed to import module 'Chem.rdMolInterchange' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdMolTransforms' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rdPartialCharges.rst:2: WARNING: Title underline too short. rdkit.Chem.rdPartialCharges module ================================= WARNING: autodoc: failed to import module 'Chem.rdPartialCharges' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rdRGroupDecomposition.rst:2: WARNING: Title underline too short. rdkit.Chem.rdRGroupDecomposition module ================================= WARNING: autodoc: failed to import module 'Chem.rdRGroupDecomposition' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdReducedGraphs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdSLNParse' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdShapeHelpers' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rdSubstructLibrary.rst:2: WARNING: Title underline too short. rdkit.Chem.rdSubstructLibrary module ================================= WARNING: autodoc: failed to import module 'Chem.rdSubstructLibrary' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdTautomerQuery' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdchem' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdfiltercatalog' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdfragcatalog' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdinchi' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdmolfiles' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdmolops' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdqueries' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdtrajectory' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataManip' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.DataManip.rst:5: WARNING: duplicate label subpackages, other instance in /<>/Docs/Book/source/rdkit.Chem.rst /<>/Docs/Book/source/rdkit.DataManip.rst:12: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Chem.fmcs.rst WARNING: autodoc: failed to import module 'DataManip.Metric' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.DataManip.Metric.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Chem.fmcs.rst /<>/Docs/Book/source/rdkit.DataManip.Metric.rst:12: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.DataManip.rst WARNING: autodoc: failed to import module 'DataManip.Metric.rdMetricMatrixCalc' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataStructs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.DataStructs.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.DataManip.Metric.rst /<>/Docs/Book/source/rdkit.DataStructs.rst:18: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.DataManip.Metric.rst WARNING: autodoc: failed to import module 'DataStructs.BitEnsemble' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataStructs.BitEnsembleDb' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataStructs.BitUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataStructs.LazySignature' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataStructs.TopNContainer' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataStructs.VectCollection' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataStructs.cDataStructs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Dbase' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Dbase.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.DataStructs.rst /<>/Docs/Book/source/rdkit.Dbase.rst:18: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.DataStructs.rst WARNING: autodoc: failed to import module 'Dbase.DbConnection' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Dbase.DbInfo' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Dbase.DbModule' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Dbase.DbReport' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Dbase.DbResultSet' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Dbase.DbUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Dbase.StorageUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DistanceGeometry' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.DistanceGeometry.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Dbase.rst /<>/Docs/Book/source/rdkit.DistanceGeometry.rst:13: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Dbase.rst WARNING: autodoc: failed to import module 'DistanceGeometry.DistGeom' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ForceField.rst:5: WARNING: Block quote ends without a blank line; unexpected unindent. WARNING: autodoc: failed to import module 'ForceField' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ForceField.rst:13: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.DistanceGeometry.rst WARNING: autodoc: failed to import module 'ForceField.rdForceField' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Geometry' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Geometry.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.DistanceGeometry.rst /<>/Docs/Book/source/rdkit.Geometry.rst:12: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.ForceField.rst WARNING: autodoc: failed to import module 'Geometry.rdGeometry' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ML.rst:5: WARNING: duplicate label subpackages, other instance in /<>/Docs/Book/source/rdkit.DataManip.rst /<>/Docs/Book/source/rdkit.ML.rst:24: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Geometry.rst /<>/Docs/Book/source/rdkit.ML.rst:38: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Geometry.rst WARNING: autodoc: failed to import module 'ML.AnalyzeComposite' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.BuildComposite' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ML.Cluster.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.ML.rst /<>/Docs/Book/source/rdkit.ML.Cluster.rst:19: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.ML.rst WARNING: autodoc: failed to import module 'ML.Cluster.Butina' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster.ClusterUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster.ClusterVis' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster.Clustering' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster.Clusters' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster.Murtagh' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster.Resemblance' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster.Standardize' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Composite' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ML.Composite.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.ML.Cluster.rst /<>/Docs/Book/source/rdkit.ML.Composite.rst:14: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.ML.Cluster.rst WARNING: autodoc: failed to import module 'ML.Composite.AdjustComposite' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Composite.BayesComposite' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Composite.Composite' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.CompositeRun' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Data' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ML.Data.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.ML.Composite.rst /<>/Docs/Book/source/rdkit.ML.Data.rst:19: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.ML.Composite.rst WARNING: autodoc: failed to import module 'ML.Data.DataUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Data.FindQuantBounds' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Data.MLData' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Data.Quantize' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Data.SplitData' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Data.Stats' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Data.Transforms' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Data.cQuantize' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ML.DecTree.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.ML.Data.rst /<>/Docs/Book/source/rdkit.ML.DecTree.rst:23: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.ML.Data.rst WARNING: autodoc: failed to import module 'ML.DecTree.BuildQuantTree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.BuildSigTree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.CrossValidate' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.DecTree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.Forest' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.ID3' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.PruneTree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.QuantTree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.SigTree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.Tree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.TreeUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.TreeVis' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Descriptors' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ML.Descriptors.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.ML.DecTree.rst /<>/Docs/Book/source/rdkit.ML.Descriptors.rst:15: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.ML.DecTree.rst WARNING: autodoc: failed to import module 'ML.Descriptors.CompoundDescriptors' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Descriptors.Descriptors' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Descriptors.MoleculeDescriptors' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Descriptors.Parser' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.EnrichPlot' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.GrowComposite' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.InfoTheory' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ML.InfoTheory.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.ML.Descriptors.rst /<>/Docs/Book/source/rdkit.ML.InfoTheory.rst:15: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.ML.Descriptors.rst WARNING: autodoc: failed to import module 'ML.InfoTheory.BitClusterer' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.InfoTheory.BitRank' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.InfoTheory.entropy' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ML.InfoTheory.rdInfoTheory.rst:2: WARNING: Title underline too short. rdkit.ML.InfoTheory.rdInfoTheory module ====================================== WARNING: autodoc: failed to import module 'ML.InfoTheory.rdInfoTheory' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.KNN' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ML.KNN.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.ML.InfoTheory.rst /<>/Docs/Book/source/rdkit.ML.KNN.rst:16: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.ML.InfoTheory.rst WARNING: autodoc: failed to import module 'ML.KNN.CrossValidate' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.KNN.DistFunctions' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.KNN.KNNClassificationModel' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.KNN.KNNModel' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.KNN.KNNRegressionModel' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.MLUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ML.MLUtils.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.ML.KNN.rst /<>/Docs/Book/source/rdkit.ML.MLUtils.rst:12: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.ML.KNN.rst WARNING: autodoc: failed to import module 'ML.MLUtils.VoteImg' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.MatOps' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.ModelPackage' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ML.ModelPackage.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.ML.MLUtils.rst /<>/Docs/Book/source/rdkit.ML.ModelPackage.rst:13: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.ML.MLUtils.rst WARNING: autodoc: failed to import module 'ML.ModelPackage.PackageUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.ModelPackage.Packager' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.NaiveBayes' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ML.NaiveBayes.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.ML.ModelPackage.rst /<>/Docs/Book/source/rdkit.ML.NaiveBayes.rst:13: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.ML.ModelPackage.rst WARNING: autodoc: failed to import module 'ML.NaiveBayes.ClassificationModel' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.NaiveBayes.CrossValidate' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Neural' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ML.Neural.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.ML.NaiveBayes.rst /<>/Docs/Book/source/rdkit.ML.Neural.rst:16: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.ML.NaiveBayes.rst WARNING: autodoc: failed to import module 'ML.Neural.ActFuncs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Neural.CrossValidate' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Neural.NetNode' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Neural.Network' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Neural.Trainers' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.SLT' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ML.SLT.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.ML.Neural.rst /<>/Docs/Book/source/rdkit.ML.SLT.rst:12: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.ML.Neural.rst WARNING: autodoc: failed to import module 'ML.SLT.Risk' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Scoring' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ML.Scoring.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.ML.SLT.rst /<>/Docs/Book/source/rdkit.ML.Scoring.rst:12: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.ML.SLT.rst WARNING: autodoc: failed to import module 'ML.Scoring.Scoring' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.ScreenComposite' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.files' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Numerics' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Numerics.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.ML.Scoring.rst /<>/Docs/Book/source/rdkit.Numerics.rst:12: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.ML.Scoring.rst WARNING: autodoc: failed to import module 'Numerics.rdAlignment' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'RDConfig' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'RDLogger' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'RDPaths' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'RDRandom' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'SimDivFilters' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.SimDivFilters.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.Numerics.rst /<>/Docs/Book/source/rdkit.SimDivFilters.rst:13: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.Numerics.rst WARNING: autodoc: failed to import module 'SimDivFilters.SimilarityPickers' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'SimDivFilters.rdSimDivPickers' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'TestRunner' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.VLib.rst:5: WARNING: duplicate label subpackages, other instance in /<>/Docs/Book/source/rdkit.ML.rst /<>/Docs/Book/source/rdkit.VLib.rst:12: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.SimDivFilters.rst /<>/Docs/Book/source/rdkit.VLib.rst:23: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.SimDivFilters.rst WARNING: autodoc: failed to import module 'VLib.Filter' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.Node' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.VLib.NodeLib.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.VLib.rst /<>/Docs/Book/source/rdkit.VLib.NodeLib.rst:19: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.VLib.rst WARNING: autodoc: failed to import module 'VLib.NodeLib.DbMolSupply' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib.DbPickleSupplier' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib.SDSupply' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib.SmartsMolFilter' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib.SmartsRemover' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib.SmilesDupeFilter' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib.SmilesOutput' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib.SmilesSupply' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.Output' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.Supply' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.Transform' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'rdBase' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'six' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'utils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.utils.rst:5: WARNING: duplicate label submodules, other instance in /<>/Docs/Book/source/rdkit.VLib.NodeLib.rst /<>/Docs/Book/source/rdkit.utils.rst:16: WARNING: duplicate label module contents, other instance in /<>/Docs/Book/source/rdkit.VLib.NodeLib.rst WARNING: autodoc: failed to import module 'utils.cactvs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'utils.chemutils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'utils.fileutils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'utils.listutils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'utils.spiral' from module 'rdkit'; the following exception was raised: No module named 'rdkit' looking for now-outdated files... none found pickling environment... done checking consistency... /<>/Docs/Book/data/README.md: WARNING: document isn't included in any toctree /<>/Docs/Book/source/rdkit.Chem.SpacialScore.rst: WARNING: document isn't included in any toctree done copying TeX support files... copying TeX support files... done processing RDKit.tex... index Overview Install GettingStartedInPython RDKit_Book Cookbook Cartridge BackwardsIncompatibleChanges api-docs source/rdkit source/rdkit.Avalon source/rdkit.Avalon.pyAvalonTools source/rdkit.Chem source/rdkit.Chem.AtomPairs source/rdkit.Chem.AtomPairs.Pairs source/rdkit.Chem.AtomPairs.Sheridan source/rdkit.Chem.AtomPairs.Torsions source/rdkit.Chem.AtomPairs.Utils source/rdkit.Chem.ChemUtils source/rdkit.Chem.ChemUtils.AlignDepict source/rdkit.Chem.ChemUtils.BulkTester source/rdkit.Chem.ChemUtils.DescriptorUtilities source/rdkit.Chem.ChemUtils.SDFToCSV source/rdkit.Chem.ChemUtils.TemplateExpand source/rdkit.Chem.Draw source/rdkit.Chem.Draw.IPythonConsole source/rdkit.Chem.Draw.MolDrawing source/rdkit.Chem.Draw.SimilarityMaps source/rdkit.Chem.Draw.rdMolDraw2D source/rdkit.Chem.Draw.rdMolDraw2DQt source/rdkit.Chem.Draw.aggCanvas source/rdkit.Chem.Draw.cairoCanvas source/rdkit.Chem.Draw.canvasbase source/rdkit.Chem.Draw.mplCanvas source/rdkit.Chem.Draw.qtCanvas source/rdkit.Chem.EState source/rdkit.Chem.EState.AtomTypes source/rdkit.Chem.EState.EState source/rdkit.Chem.EState.EState_VSA source/rdkit.Chem.EState.Fingerprinter source/rdkit.Chem.FeatMaps source/rdkit.Chem.FeatMaps.FeatMapParser source/rdkit.Chem.FeatMaps.FeatMapPoint source/rdkit.Chem.FeatMaps.FeatMapUtils source/rdkit.Chem.FeatMaps.FeatMaps source/rdkit.Chem.Features source/rdkit.Chem.Features.FeatDirUtilsRD source/rdkit.Chem.Features.ShowFeats source/rdkit.Chem.Fingerprints source/rdkit.Chem.Fingerprints.ClusterMols source/rdkit.Chem.Fingerprints.DbFpSupplier source/rdkit.Chem.Fingerprints.FingerprintMols source/rdkit.Chem.Fingerprints.MolSimilarity source/rdkit.Chem.Fingerprints.SimilarityScreener source/rdkit.Chem.Fraggle source/rdkit.Chem.Fraggle.FraggleSim source/rdkit.Chem.MolDb source/rdkit.Chem.MolDb.FingerprintUtils source/rdkit.Chem.MolDb.Loader source/rdkit.Chem.MolDb.Loader_orig source/rdkit.Chem.MolDb.Loader_sa source/rdkit.Chem.MolKey source/rdkit.Chem.MolKey.InchiInfo source/rdkit.Chem.MolKey.MolKey source/rdkit.Chem.Pharm2D source/rdkit.Chem.Pharm2D.Generate source/rdkit.Chem.Pharm2D.Gobbi_Pharm2D source/rdkit.Chem.Pharm2D.Matcher source/rdkit.Chem.Pharm2D.SigFactory source/rdkit.Chem.Pharm2D.Utils source/rdkit.Chem.Pharm3D source/rdkit.Chem.Pharm3D.EmbedLib source/rdkit.Chem.Pharm3D.ExcludedVolume source/rdkit.Chem.Pharm3D.Pharmacophore source/rdkit.Chem.Scaffolds source/rdkit.Chem.Scaffolds.MurckoScaffold source/rdkit.Chem.Scaffolds.rdScaffoldNetwork source/rdkit.Chem.SimpleEnum source/rdkit.Chem.SimpleEnum.Enumerator source/rdkit.Chem.Subshape source/rdkit.Chem.Subshape.BuilderUtils source/rdkit.Chem.Subshape.SubshapeAligner source/rdkit.Chem.Subshape.SubshapeBuilder source/rdkit.Chem.Subshape.SubshapeObjects source/rdkit.Chem.Suppliers source/rdkit.Chem.Suppliers.DbMolSupplier source/rdkit.Chem.Suppliers.MolSupplier source/rdkit.Chem.fmcs source/rdkit.Chem.fmcs.fmcs source/rdkit.Chem.AllChem source/rdkit.Chem.BRICS source/rdkit.Chem.BuildFragmentCatalog source/rdkit.Chem.ChemicalFeatures source/rdkit.Chem.ChemicalForceFields source/rdkit.Chem.Crippen source/rdkit.Chem.Descriptors source/rdkit.Chem.Descriptors3D source/rdkit.Chem.EnumerateHeterocycles source/rdkit.Chem.EnumerateStereoisomers source/rdkit.Chem.FastSDMolSupplier source/rdkit.Chem.FeatFinderCLI source/rdkit.Chem.FilterCatalog source/rdkit.Chem.FragmentCatalog source/rdkit.Chem.FragmentMatcher source/rdkit.Chem.Fragments source/rdkit.Chem.FunctionalGroups source/rdkit.Chem.GraphDescriptors source/rdkit.Chem.Graphs source/rdkit.Chem.Lipinski source/rdkit.Chem.MACCSkeys source/rdkit.Chem.MCS source/rdkit.Chem.MolCatalog source/rdkit.Chem.MolStandardize source/rdkit.Chem.MolStandardize.rdMolStandardize source/rdkit.Chem.MolSurf source/rdkit.Chem.PandasTools source/rdkit.Chem.PeriodicTable source/rdkit.Chem.PropertyMol source/rdkit.Chem.PyMol source/rdkit.Chem.QED source/rdkit.Chem.Randomize source/rdkit.Chem.Recap source/rdkit.Chem.ReducedGraphs source/rdkit.Chem.RegistrationHash source/rdkit.Chem.SATIS source/rdkit.Chem.SaltRemover source/rdkit.Chem.ShowMols source/rdkit.Chem.TemplateAlign source/rdkit.Chem.TorsionFingerprints source/rdkit.Chem.inchi source/rdkit.Chem.rdchem source/rdkit.Chem.rdDistGeom source/rdkit.Chem.rdqueries source/rdkit.Chem.rdFMCS source/rdkit.Chem.rdMolAlign source/rdkit.Chem.rdMolHash source/rdkit.Chem.rdReducedGraphs source/rdkit.Chem.rdtrajectory source/rdkit.Chem.rdMolTransforms source/rdkit.Chem.rdmolfiles source/rdkit.Chem.rdPartialCharges source/rdkit.Chem.rdMolCatalog source/rdkit.Chem.rdCoordGen source/rdkit.Chem.rdMolChemicalFeatures source/rdkit.Chem.rdMMPA source/rdkit.Chem.rdRGroupDecomposition source/rdkit.Chem.rdForceFieldHelpers source/rdkit.Chem.rdDepictor source/rdkit.Chem.rdChemicalFeatures source/rdkit.Chem.rdmolops source/rdkit.Chem.rdFreeSASA source/rdkit.Chem.rdMolInterchange source/rdkit.Chem.rdShapeHelpers source/rdkit.Chem.rdinchi source/rdkit.Chem.rdChemReactions source/rdkit.Chem.rdSubstructLibrary source/rdkit.Chem.rdfiltercatalog source/rdkit.Chem.rdfragcatalog source/rdkit.Chem.rdMolDescriptors source/rdkit.Chem.rdFingerprintGenerator source/rdkit.Chem.rdMHFPFingerprint source/rdkit.Chem.rdSLNParse source/rdkit.Chem.rdAbbreviations source/rdkit.Chem.rdDeprotect source/rdkit.Chem.rdMolEnumerator source/rdkit.Chem.rdCIPLabeler source/rdkit.Chem.rdTautomerQuery source/rdkit.Chem.rdEHTTools source/rdkit.Chem.rdDetermineBonds source/rdkit.DataManip source/rdkit.DataManip.Metric source/rdkit.DataManip.Metric.rdMetricMatrixCalc source/rdkit.DataStructs source/rdkit.DataStructs.BitEnsemble source/rdkit.DataStructs.BitEnsembleDb source/rdkit.DataStructs.BitUtils source/rdkit.DataStructs.LazySignature source/rdkit.DataStructs.TopNContainer source/rdkit.DataStructs.VectCollection source/rdkit.DataStructs.cDataStructs source/rdkit.Dbase source/rdkit.Dbase.DbConnection source/rdkit.Dbase.DbInfo source/rdkit.Dbase.DbModule source/rdkit.Dbase.DbReport source/rdkit.Dbase.DbResultSet source/rdkit.Dbase.DbUtils source/rdkit.Dbase.StorageUtils source/rdkit.DistanceGeometry source/rdkit.DistanceGeometry.DistGeom source/rdkit.ForceField source/rdkit.ForceField.rdForceField source/rdkit.Geometry source/rdkit.Geometry.rdGeometry source/rdkit.ML source/rdkit.ML.Cluster source/rdkit.ML.Cluster.Butina source/rdkit.ML.Cluster.ClusterUtils source/rdkit.ML.Cluster.ClusterVis source/rdkit.ML.Cluster.Clusters source/rdkit.ML.Cluster.Murtagh source/rdkit.ML.Cluster.Resemblance source/rdkit.ML.Cluster.Standardize source/rdkit.ML.Cluster.Clustering source/rdkit.ML.Composite source/rdkit.ML.Composite.AdjustComposite source/rdkit.ML.Composite.BayesComposite source/rdkit.ML.Composite.Composite source/rdkit.ML.Data source/rdkit.ML.Data.DataUtils source/rdkit.ML.Data.FindQuantBounds source/rdkit.ML.Data.MLData source/rdkit.ML.Data.Quantize source/rdkit.ML.Data.cQuantize source/rdkit.ML.Data.SplitData source/rdkit.ML.Data.Stats source/rdkit.ML.Data.Transforms source/rdkit.ML.DecTree source/rdkit.ML.DecTree.BuildQuantTree source/rdkit.ML.DecTree.BuildSigTree source/rdkit.ML.DecTree.CrossValidate source/rdkit.ML.DecTree.DecTree source/rdkit.ML.DecTree.Forest source/rdkit.ML.DecTree.ID3 source/rdkit.ML.DecTree.PruneTree source/rdkit.ML.DecTree.QuantTree source/rdkit.ML.DecTree.SigTree source/rdkit.ML.DecTree.Tree source/rdkit.ML.DecTree.TreeUtils source/rdkit.ML.DecTree.TreeVis source/rdkit.ML.Descriptors source/rdkit.ML.Descriptors.CompoundDescriptors source/rdkit.ML.Descriptors.Descriptors source/rdkit.ML.Descriptors.MoleculeDescriptors source/rdkit.ML.Descriptors.Parser source/rdkit.ML.InfoTheory source/rdkit.ML.InfoTheory.BitClusterer source/rdkit.ML.InfoTheory.BitRank source/rdkit.ML.InfoTheory.entropy source/rdkit.ML.InfoTheory.rdInfoTheory source/rdkit.ML.KNN source/rdkit.ML.KNN.CrossValidate source/rdkit.ML.KNN.DistFunctions source/rdkit.ML.KNN.KNNClassificationModel source/rdkit.ML.KNN.KNNModel source/rdkit.ML.KNN.KNNRegressionModel source/rdkit.ML.MLUtils source/rdkit.ML.MLUtils.VoteImg source/rdkit.ML.ModelPackage source/rdkit.ML.ModelPackage.PackageUtils source/rdkit.ML.ModelPackage.Packager source/rdkit.ML.NaiveBayes source/rdkit.ML.NaiveBayes.ClassificationModel source/rdkit.ML.NaiveBayes.CrossValidate source/rdkit.ML.Neural source/rdkit.ML.Neural.ActFuncs source/rdkit.ML.Neural.CrossValidate source/rdkit.ML.Neural.NetNode source/rdkit.ML.Neural.Network source/rdkit.ML.Neural.Trainers source/rdkit.ML.SLT source/rdkit.ML.SLT.Risk source/rdkit.ML.Scoring source/rdkit.ML.Scoring.Scoring source/rdkit.ML.AnalyzeComposite source/rdkit.ML.BuildComposite source/rdkit.ML.CompositeRun source/rdkit.ML.EnrichPlot source/rdkit.ML.GrowComposite source/rdkit.ML.MatOps source/rdkit.ML.ScreenComposite source/rdkit.ML.files source/rdkit.Numerics source/rdkit.Numerics.rdAlignment source/rdkit.SimDivFilters source/rdkit.SimDivFilters.SimilarityPickers source/rdkit.SimDivFilters.rdSimDivPickers source/rdkit.VLib source/rdkit.VLib.NodeLib source/rdkit.VLib.NodeLib.DbMolSupply source/rdkit.VLib.NodeLib.DbPickleSupplier source/rdkit.VLib.NodeLib.SDSupply source/rdkit.VLib.NodeLib.SmartsMolFilter source/rdkit.VLib.NodeLib.SmartsRemover source/rdkit.VLib.NodeLib.SmilesDupeFilter source/rdkit.VLib.NodeLib.SmilesOutput source/rdkit.VLib.NodeLib.SmilesSupply source/rdkit.VLib.Filter source/rdkit.VLib.Node source/rdkit.VLib.Output source/rdkit.VLib.Supply source/rdkit.VLib.Transform source/rdkit.utils source/rdkit.utils.cactvs source/rdkit.utils.chemutils source/rdkit.utils.fileutils source/rdkit.utils.listutils source/rdkit.utils.spiral source/rdkit.rdBase source/rdkit.RDConfig source/rdkit.RDLogger source/rdkit.RDPaths source/rdkit.RDRandom source/rdkit.TestRunner source/rdkit.six GettingStartedInC++ resolving references... WARNING: Could not fetch remote image: https://img.shields.io/badge/Powered%20by-RDKit-3838ff.svg?logo=data:image/png;base64,iVBORw0KGgoAAAANSUhEUgAAABAAAAAQBAMAAADt3eJSAAAABGdBTUEAALGPC/xhBQAAACBjSFJNAAB6JgAAgIQAAPoAAACA6AAAdTAAAOpgAAA6mAAAF3CculE8AAAAFVBMVEXc3NwUFP8UPP9kZP+MjP+0tP////9ZXZotAAAAAXRSTlMAQObYZgAAAAFiS0dEBmFmuH0AAAAHdElNRQfmAwsPGi+MyC9RAAAAQElEQVQI12NgQABGQUEBMENISUkRLKBsbGwEEhIyBgJFsICLC0iIUdnExcUZwnANQWfApKCK4doRBsKtQFgKAQC5Ww1JEHSEkAAAACV0RVh0ZGF0ZTpjcmVhdGUAMjAyMi0wMy0xMVQxNToyNjo0NyswMDowMDzr2J4AAAAldEVYdGRhdGU6bW9kaWZ5ADIwMjItMDMtMTFUMTU6MjY6NDcrMDA6MDBNtmAiAAAAAElFTkSuQmCC [HTTPSConnectionPool(host='img.shields.io', port=443): Max retries exceeded with url: /badge/Powered%20by-RDKit-3838ff.svg?logo=data:image/png;base64,iVBORw0KGgoAAAANSUhEUgAAABAAAAAQBAMAAADt3eJSAAAABGdBTUEAALGPC/xhBQAAACBjSFJNAAB6JgAAgIQAAPoAAACA6AAAdTAAAOpgAAA6mAAAF3CculE8AAAAFVBMVEXc3NwUFP8UPP9kZP+MjP+0tP////9ZXZotAAAAAXRSTlMAQObYZgAAAAFiS0dEBmFmuH0AAAAHdElNRQfmAwsPGi+MyC9RAAAAQElEQVQI12NgQABGQUEBMENISUkRLKBsbGwEEhIyBgJFsICLC0iIUdnExcUZwnANQWfApKCK4doRBsKtQFgKAQC5Ww1JEHSEkAAAACV0RVh0ZGF0ZTpjcmVhdGUAMjAyMi0wMy0xMVQxNToyNjo0NyswMDowMDzr2J4AAAAldEVYdGRhdGU6bW9kaWZ5ADIwMjItMDMtMTFUMTU6MjY6NDcrMDA6MDBNtmAiAAAAAElFTkSuQmCC (Caused by NameResolutionError(": Failed to resolve 'img.shields.io' ([Errno -2] Name or service not known)"))] done writing... done copying images... 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Running LaTeX files through pdflatex... make -C _build/latex all-pdf make[3]: Entering directory '/<>/Docs/Book/_build/latex' latexmk -pdf -dvi- -ps- 'RDKit.tex' Rc files read: /etc/LatexMk latexmkrc Latexmk: This is Latexmk, John Collins, 31 Jan. 2024. Version 4.83. No existing .aux file, so I'll make a simple one, and require run of *latex. Latexmk: applying rule 'pdflatex'... 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[1] [2] Chapter 1. (/usr/share/texmf/tex/latex/tex-gyre/ts1qtm.fd) Underfull \hbox (badness 10000) in paragraph at lines 131--133 []\T1/qtm/m/n/10 Chem-in-for-mat-ics nodes for KN-IME (dis-tributed from the KN -IME com-mu-nity site: [1{/usr/share/texmf/fonts/enc/dvips/tex-gyre/q-ts1.enc}] (/usr/share/texlive/texmf-dist/tex/latex/txfonts/t1txtt.fd) [2] [3] [4] Chapter 2. [5] [6] (/usr/share/texlive/texmf-dist/tex/latex/txfonts/ts1txtt.fd) [7] [8] Underfull \hbox (badness 10000) in paragraph at lines 774--776 []\T1/qtm/m/n/10 If you want to use the python wrap-pers: \T1/txtt/m/n/10 ./boo tstrap.sh [][]with[]libraries=python, [9] [10] Underfull \hbox (badness 10000) in paragraph at lines 941--943 []\T1/qtm/m/n/10 You can en-able sup-port for gen-er-at-ing InChI strings and I nChI keys by adding the ar-gu-ment [11] [12] [13] [14] Underfull \hbox (badness 5490) in paragraph at lines 1192--1194 \T1/qtm/m/n/10 This sec-tion as-sumes that python is in-stalled in \T1/txtt/m/n /10 C:[]Python36 that the boost libraries have been Overfull \hbox (11.99368pt too wide) in paragraph at lines 1243--1246 \T1/txtt/m/n/10 cmake []DRDK_BUILD_PYTHON_WRAPPERS=ON []DBOOST_ROOT=C:/boost [] DRDK_BUILD_INCHI_SUPPORT=ON Underfull \hbox (badness 10000) in paragraph at lines 1243--1246 []\T1/txtt/m/n/10 DRDK_BUILD_AVALON_SUPPORT=ON []DRDK_BUILD_PGSQL=ON []DPostgre SQL_ROOT="C:[]Program Underfull \hbox (badness 10000) in paragraph at lines 1248--1251 \T1/txtt/m/n/10 C:/Windows/Microsoft.NET/Framework64/v4.0.30319/MSBuild.exe /m: 4 / Underfull \hbox (badness 10000) in paragraph at lines 1257--1259 []\T1/txtt/m/n/10 "C:[]Program Files[]PostgreSQL[]9.5[]bin[]pg_ctl.exe" []N "po stgresql[]9.5" []D "C:[] Underfull \hbox (badness 10000) in paragraph at lines 1265--1267 []\T1/txtt/m/n/10 "C:[]Program Files[]PostgreSQL[]9.5[]bin[]pg_ctl.exe" []N "po stgresql[]9.5" []D "C:[] Underfull \hbox (badness 10000) in paragraph at lines 1269--1272 \T1/txtt/m/n/10 ERROR: could not load library "C:/Program Files/PostgreSQL/9.5/ lib/rdkit.dll": [15] [16] Chapter 3. [17] [18 <./Cc1ccccc1.png>] Overfull \vbox (2.32188pt too high) detected at line 1509 [19] [20] LaTeX Warning: Hyper reference `GettingStartedInPython:chem-vs-allchem' on page 21 undefined on input line 1610. [21] [22] [23] [24] LaTeX Warning: Hyper reference `GettingStartedInPython:the-sssr-problem' on pag e 25 undefined on input line 1851. [25] [26] Underfull \hbox (badness 10000) in paragraph at lines 2001--2004 []\T1/qtm/m/n/10 An-other op-tion for Com-pute2DCoords al-lows you to gen-er-at e 2D de-pic-tions for molecules that Underfull \hbox (badness 10000) in paragraph at lines 2001--2004 \T1/qtm/m/n/10 closely mimic 3D con-form-ers. This is avail-able us-ing the fun c-tion \T1/txtt/m/n/10 rdkit.Chem.AllChem. Underfull \hbox (badness 10000) in paragraph at lines 2026--2032 []\T1/qtm/m/n/10 More fine-grained con-trol can be ob-tained us-ing the core fu nc-tion \T1/txtt/m/n/10 rdkit.Chem.rdDepictor. 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[42] [43] [44 <./mcs_example_1.png> <./mcs_example_2.png>] [45 <./mcs_example_3 .png> <./mcs_example_4.png>] [46 <./mcs_example_5.png> <./mcs_example_6.png>] [47] [48] [49] [50] [51] [52] LaTeX Warning: Hyper reference `GettingStartedInPython:feature-definitions-used -in-the-morgan-fingerprints' on page 53 undefined on input line 3520. [53] [54] [55] [56] [57 <./mfp2_bit872.png> <./rdk_bit1553.png>] [58 <./rdk_bit 1553_2.png>] [59] [60 <./similarity_map_fp1.png>] [61 <./similarity_map_fp2.png >] LaTeX Warning: Hyper reference `GettingStartedInPython:list-of-available-descri ptors' on page 62 undefined on input line 4027. Overfull \vbox (1.67828pt too high) detected at line 4040 [62 <./similarity_map_fp3.png>] [63] [64 <./similarity_map_charges.png>] [65 <./similarity_map_crippen.png>] LaTeX Warning: Hyper reference `RDKit_Book::doc' on page 66 undefined on input line 4134. 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[106 <./nontetstereo_oh2.png> <./nontetstereo_oh1.png>] Underfull \hbox (badness 10000) in paragraph at lines 9447--9449 []\T1/qtm/m/n/10 The clas-sic ex-am-ple of this is cis-platin - \T1/txtt/m/n/10 Cl[Pt@SP1](Cl)(<[][NH3])<[][NH3] \T1/qtm/m/n/10 - vs trans-platin - [107 <./nontetstereo_ex1.png> <./nontetstereo_ex2.png> <./nontetstereo_missing1 .png>] [108] [109] [110] [111] [112] [113] [114] LaTeX Warning: Hyper reference `RDKit_Book:ph4-figure' on page 115 undefined on input line 10004. [115 <./picture_10.jpg>] Overfull \vbox (2.86082pt too high) detected at line 10270 [116] [117 <./ary_group.png>] [118] Underfull \hbox (badness 10000) in paragraph at lines 10478--10480 \T1/qtm/m/n/10 Here's the rd-kitj-son rep-re-sen-ta-tion of the stereo groups f rom the molecule [119] Underfull \hbox (badness 10000) in paragraph at lines 10716--10716 []\T1/qtm/m/n/10 _Chi-ral-i-ty-Pos-si- Underfull \hbox (badness 10000) in paragraph at lines 10716--10716 []\T1/qtm/m/n/10 _Re-ac-tion-De- Underfull \hbox (badness 10000) in paragraph at lines 10716--10716 []\T1/qtm/m/n/10 mo-lAtomMap- Underfull \hbox (badness 10000) in paragraph at lines 10716--10716 []\T1/qtm/m/n/10 molFileIn-ver- Underfull \hbox (badness 10000) in paragraph at lines 10716--10716 []\T1/qtm/m/n/10 mol-Rxn-Com-po- [120] [121] [122] Underfull \hbox (badness 10000) in paragraph at lines 10878--10883 []\T1/qtm/m/n/10 By de-fault the \T1/txtt/m/n/10 rdkit.Chem.rdmolfiles.SDMolSup plier \T1/qtm/m/n/10 and \T1/txtt/m/n/10 rdkit.Chem.rdmolfiles. 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[123] Underfull \hbox (badness 10000) in paragraph at lines 11075--11075 []\T1/qhv/m/n/10 Mix- Underfull \hbox (badness 10000) in paragraph at lines 11075--11075 []\T1/qtm/m/n/10 mix- Underfull \hbox (badness 10000) in paragraph at lines 11075--11075 []\T1/qtm/m/n/10 mix- Underfull \hbox (badness 10000) in paragraph at lines 11075--11075 []\T1/qtm/m/n/10 mix- Underfull \hbox (badness 10000) in paragraph at lines 11075--11075 []\T1/qtm/m/n/10 mix- [124] [125 <./enhanced_stereo_and1_and2_base.png> <./enhanced_stereo_and1_and2_ expand.png> <./enhanced_stereo_and1_cis_base.png> <./enhanced_stereo_and1_cis_e xpand.png> <./enhanced_stereo_and1_trans_base.png> <./enhanced_stereo_and1_tran s_expand.png> <./enhanced_stereo_or1_or2_base.png> <./enhanced_stereo_or1_cis_b ase.png> <./enhanced_stereo_or1_trans_base.png> <./enhanced_stereo_abs_and_base .png> <./enhanced_stereo_abs_and_expand.png> <./enhanced_stereo_abs_or_base.png >] Underfull \hbox (badness 10000) in paragraph at lines 11092--11097 []\T1/qtm/m/n/10 It is pos-si-ble to enu-mer-ate the el-e-ments of a \T1/txtt/m /n/10 StereoGroup \T1/qtm/m/n/10 us-ing the func-tion \T1/txtt/m/n/10 rdkit.Che m. [126] [127 <./EnhancedStereoSSS_molA.png> <./EnhancedStereoSSS_molB.png> <./Enh ancedStereoSSS_molC.png> <./EnhancedStereoSSS_molD.png> <./EnhancedStereoSSS_mo lE.png> <./EnhancedStereoSSS_molF.png> <./EnhancedStereoSSS_molG.png>] [128 <./ query_bonds.png>] [129 <./query_bonds.2.png> <./query_atoms.png>] [130] [131] [132] Underfull \hbox (badness 10000) in paragraph at lines 11782--11792 []\T1/txtt/m/n/10 allowNontetrahedralChirality\T1/qtm/m/n/10 : when this is \T1 /txtt/m/n/10 true \T1/qtm/m/n/10 non-tetrahedral chi-ral-ity will be per- Underfull \hbox (badness 10000) in paragraph at lines 11782--11792 \T1/qtm/m/n/10 ceived from 3D co-or-di-nates. The de-fault value is \T1/txtt/m/ n/10 true \T1/qtm/m/n/10 un-less the en-vi-ron-ment vari- Underfull \hbox (badness 10000) in paragraph at lines 11782--11792 \T1/qtm/m/n/10 able \T1/txtt/m/n/10 RDK_ENABLE_NONTETRAHEDRAL_STEREO \T1/qtm/m/ n/10 is set to \T1/txtt/m/n/10 "0"\T1/qtm/m/n/10 . Can set/checked from Underfull \hbox (badness 10000) in paragraph at lines 11782--11792 \T1/qtm/m/n/10 C++ us-ing the func-tions \T1/txtt/m/n/10 RDKit::Chirality::setA llowNontetrahedralChirality() \T1/qtm/m/n/10 / Underfull \hbox (badness 10000) in paragraph at lines 11782--11792 \T1/txtt/m/n/10 RDKit::Chirality::getAllowNontetrahedralChirality() \T1/qtm/m/n /10 or from Python us-ing the func-tions Underfull \hbox (badness 10000) in paragraph at lines 11794--11804 []\T1/txtt/m/n/10 useLegacyStereoPerception\T1/qtm/m/n/10 : when this is \T1/tx tt/m/n/10 true \T1/qtm/m/n/10 the legacy im-ple-men-ta-tion for per- Underfull \hbox (badness 10000) in paragraph at lines 11794--11804 \T1/qtm/m/n/10 ceiv-ing stere-o-chem-istry will be used. The de-fault value is \T1/txtt/m/n/10 true \T1/qtm/m/n/10 un-less the en-vi-ron- Underfull \hbox (badness 10000) in paragraph at lines 11794--11804 \T1/qtm/m/n/10 ment vari-able \T1/txtt/m/n/10 RDK_USE_LEGACY_STEREO_PERCEPTION \T1/qtm/m/n/10 is set to \T1/txtt/m/n/10 "0"\T1/qtm/m/n/10 . Can set/checked Underfull \hbox (badness 10000) in paragraph at lines 11794--11804 \T1/qtm/m/n/10 from C++ us-ing the func-tions \T1/txtt/m/n/10 RDKit::Chirality: :setUseLegacyStereoPerception() \T1/qtm/m/n/10 / [133] [134] Chapter 5. [135] [136 <./RDKitCB_0_im0.png> <./RDKitCB_0_im1.png>] [137 <./RDKitCB_0_im2.p ng>] [138 <./RDKitCB_23_im0.png> <./RDKitCB_23_im1.png>] [139 <./RDKitCB_32_im0 .png> <./RDKitCB_32_im1.png>] [140 <./RDKitCB_1_im0.png (PNG copy)> <./RDKitCB_ 1_im1.png (PNG copy)> <./RDKitCB_1_im2.png (PNG copy)>] [141 <./RDKitCB_1_im3.p ng (PNG copy)>] [142 <./RDKitCB_2_im0.png> <./RDKitCB_2_im1.png>] [143 <./RDKit CB_36_im0.png> <./RDKitCB_36_im1.png>] [144] [145 <./RDKitCB_38_im0.png>] [146 <./RDKitCB_39_im0.png (PNG copy)>] [147 <./RDKitCB_17_im0.png> <./RDKitCB_ 17_im1.png>] Overfull \vbox (2.26639pt too high) detected at line 12381 [148 <./RDKitCB_34_im0.png> <./RDKitCB_34_im1.png> <./RDKitCB_34_im2.png>] [149] Overfull \hbox (396.49246pt too wide) in paragraph at lines 12406--12406 []\T1/txtt/m/n/10 CC(C)C(O)C1C(=O)NC(CC)C(=O)N(C)CC(=O)N(C)C(CC(C)C)C(=O)NC(C(C )C)C(=O)N(C)C(CC(C)C)C(=O)NC(C)C(=O)NC(C)C(=O)N(C)C(CC(C)C)C(=O)N(C)C(CC(C)C)C( =O)N(C)C(C(C)C)C(=O)N1C[][] [150 <./RDKitCB_37_im0.png> <./RDKitCB_37_im1.png>] Overfull \hbox (396.49246pt too wide) in paragraph at lines 12435--12435 []\T1/txtt/m/n/10 CC(C)C(O)C1C(=O)NC(CC)C(=O)N(C)CC(=O)N(C)C(CC(C)C)C(=O)NC(C(C )C)C(=O)N(C)C(CC(C)C)C(=O)NC(C)C(=O)NC(C)C(=O)N(C)C(CC(C)C)C(=O)N(C)C(CC(C)C)C( =O)N(C)C(C(C)C)C(=O)N1C[][] [151 <./RDKitCB_37_im2.png>] [152 <./RDKitCB_35_im0.png>] [153] [154 <./RDKitCB _3_im0.png> <./RDKitCB_8_im0.png>] [155] [156] [157 <./RDKitCB_30_im0.png> <./R DKitCB_30_im1.png>] [158 <./RDKitCB_7_im0.png>] [159 <./RDKitCB_7_im1.png> <./R DKitCB_7_im2.png (PNG copy)>] [160 <./RDKitCB_7_im3.png> <./RDKitCB_7_im4.png> <./RDKitCB_7_im5.png>] [161 <./RDKitCB_7_im6.png (PNG copy)>] [162] [163 <./RDK itCB_29_im0.png (PNG copy)>] [164] [165 <./RDKitCB_33_im0.png (PNG copy)>] [166 <./RDKitCB_33_im1.png (PNG copy)>] [167 <./RDKitCB_33_im2.png (PNG copy)>] Overfull \hbox (490.99219pt too wide) in paragraph at lines 13190--13190 []\T1/txtt/m/n/10 "[][]CC[C@@H]1[C@@]([C@@H]([C@H](C(=O)[C@@H](C[C@@]([C@@H]([C @H]([C@@H]([C@H](C(=O)O1)C)O[C@H]2C[C@@]([C@H]([C@@H](O2)C)O)(C)OC)C)O[C@H]3[C@ @H]([C@H](C[C@H](O3)C)N(C)C)O)(C)O)C)C)O)(C)O[][] [168 <./RDKitCB_13_im0.png> <./RDKitCB_13_im1.png>] [169] [170 <./RDKitCB_20_im 0.png>] [171 <./RDKitCB_21_im0.png>] [172] [173 <./RDKitCB_21_im1.png>] [174 <./RDKitCB_21_im2.png (PNG copy)> <./RDKitCB_21_im3.png>] Overfull \vbox (3.24347pt too high) detected at line 13588 [175 <./RDKitCB_21_im4.png>] [176 <./RDKitCB_21_im5.png (PNG copy)>] [177 <./RD KitCB_22_im0.png>] [178 <./RDKitCB_22_im1.png>] [179] [180 <./RDKitCB_6_im0.png (PNG copy)> <./RDKitCB_6_im1.png (PNG copy)>] [181 <./RDKitCB_6_im2.png (PNG c opy)>] [182] [183] [184] [185] [186 <./RDKitCB_19_im0.png>] [187] [188 <./RDKit CB_28_im0.png (PNG copy)>] [189 <./RDKitCB_28_im1.png (PNG copy)>] [190] [191] [192] Chapter 6. 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[213] [214] [215] Underfull \hbox (badness 10000) in paragraph at lines 15941--15945 \T1/qtm/m/n/10 Un-charger::uncharge() will now neu-tral-ize \T1/txtt/m/n/10 [Cl ,Br,I][O[]], [Cl,Br,I](=O)[O[]], [Cl, Underfull \hbox (badness 10000) in paragraph at lines 15941--15945 \T1/txtt/m/n/10 Br,I](=O)(=O)[O[]], [Cl,Br,I](=O)(=O)(=O)[O[]], [O[]]N=N[O[]], [N,P](=O)[O[]], Underfull \hbox (badness 10000) in paragraph at lines 15941--15945 \T1/txtt/m/n/10 [N+](=O)([O[]])[O[]], P(=O)([O[]])[O[]], P(=O)([O[]])([O[]])[O[ ]], S([O[]])[O[]], S(=O)([O[]])[O[]], [216] [217] [218] Chapter 8. [219] [220] [221] [222] [223] [224] [225] [226] [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] Chapter 9. [237] [238] [239] Underfull \hbox (badness 10000) in paragraph at lines 18109--18113 \T1/qtm/m/n/10 Groups of molecules are read us-ing a Sup-plier (for ex-am-ple, an \T1/txtt/m/n/10 RDKit::SDMolSupplier \T1/qtm/m/n/10 or an [240] [241] [242] [243] [244] [245] [246] Underfull \hbox (badness 6691) in paragraph at lines 18649--18651 []\T1/qtm/m/n/10 The \T1/txtt/m/n/10 auto\TS1/txtt/m/n/10 ' \T1/txtt/m/n/10 key word here is hiding the fact that \T1/qtm/m/n/10 get-Bond-Be-tweenAtoms\T1/txtt /m/n/10 returns the index of the [247] [248] LaTeX Warning: Hyper reference `GettingStartedInC++:the-sssr-problem' on page 2 49 undefined on input line 18777. LaTeX Warning: Hyper reference `GettingStartedInC++:two-add-hs' on page 249 und efined on input line 18807. [249] [250] Overfull \vbox (0.8796pt too high) detected at line 18979 [251] [252] [253] [254] Overfull \vbox (0.87962pt too high) detected at line 19330 [255] [256] [257] [258] [259] [260] [261] [262] Chapter 10. [263] [264] Chapter 11. No file RDKit.ind. Package longtable Warning: Table widths have changed. Rerun LaTeX. [265] (./RDKit.aux) LaTeX Warning: There were undefined references. LaTeX Warning: Label(s) may have changed. Rerun to get cross-references right. Package rerunfilecheck Warning: File `RDKit.out' has changed. (rerunfilecheck) Rerun to get outlines right (rerunfilecheck) or use package `bookmark'. ) (see the transcript file for additional information) Output written on RDKit.pdf (269 pages, 2717739 bytes). Transcript written on RDKit.log. Latexmk: Missing input file 'RDKit.toc' (or dependence on it) from following: No file RDKit.toc. Latexmk: Missing input file 'RDKit.ind' (or dependence on it) from following: No file RDKit.ind. Latexmk: Getting log file 'RDKit.log' Latexmk: Examining 'RDKit.fls' Latexmk: Examining 'RDKit.log' Latexmk: Index file 'RDKit.idx' was written Latexmk: References changed. Latexmk: References changed. 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(/usr/share/texmf/tex/latex/tex-gyre/ts1qtm.fd) Underfull \hbox (badness 10000) in paragraph at lines 131--133 []\T1/qtm/m/n/10 Chem-in-for-mat-ics nodes for KN-IME (dis-tributed from the KN -IME com-mu-nity site: [1{/usr/share/texmf/fonts/enc/dvips/tex-gyre/q-ts1.enc}] [2] [3] [4] Chapter 2. [5] [6] (/usr/share/texlive/texmf-dist/tex/latex/txfonts/ts1txtt.fd) [7] [8] Underfull \hbox (badness 10000) in paragraph at lines 774--776 []\T1/qtm/m/n/10 If you want to use the python wrap-pers: \T1/txtt/m/n/10 ./boo tstrap.sh [][]with[]libraries=python, [9] [10] Underfull \hbox (badness 10000) in paragraph at lines 941--943 []\T1/qtm/m/n/10 You can en-able sup-port for gen-er-at-ing InChI strings and I nChI keys by adding the ar-gu-ment [11] [12] [13] [14] Underfull \hbox (badness 5490) in paragraph at lines 1192--1194 \T1/qtm/m/n/10 This sec-tion as-sumes that python is in-stalled in \T1/txtt/m/n /10 C:[]Python36 that the boost libraries have been Overfull \hbox (11.99368pt too wide) in paragraph at lines 1243--1246 \T1/txtt/m/n/10 cmake []DRDK_BUILD_PYTHON_WRAPPERS=ON []DBOOST_ROOT=C:/boost [] DRDK_BUILD_INCHI_SUPPORT=ON Underfull \hbox (badness 10000) in paragraph at lines 1243--1246 []\T1/txtt/m/n/10 DRDK_BUILD_AVALON_SUPPORT=ON []DRDK_BUILD_PGSQL=ON []DPostgre SQL_ROOT="C:[]Program Underfull \hbox (badness 10000) in paragraph at lines 1248--1251 \T1/txtt/m/n/10 C:/Windows/Microsoft.NET/Framework64/v4.0.30319/MSBuild.exe /m: 4 / Underfull \hbox (badness 10000) in paragraph at lines 1257--1259 []\T1/txtt/m/n/10 "C:[]Program Files[]PostgreSQL[]9.5[]bin[]pg_ctl.exe" []N "po stgresql[]9.5" []D "C:[] Underfull \hbox (badness 10000) in paragraph at lines 1265--1267 []\T1/txtt/m/n/10 "C:[]Program Files[]PostgreSQL[]9.5[]bin[]pg_ctl.exe" []N "po stgresql[]9.5" []D "C:[] Underfull \hbox (badness 10000) in paragraph at lines 1269--1272 \T1/txtt/m/n/10 ERROR: could not load library "C:/Program Files/PostgreSQL/9.5/ lib/rdkit.dll": [15] [16] Chapter 3. [17] [18 <./Cc1ccccc1.png>] Overfull \vbox (2.32188pt too high) detected at line 1509 [19] [20] [21] [22] [23] [24] [25] [26] Underfull \hbox (badness 10000) in paragraph at lines 2001--2004 []\T1/qtm/m/n/10 An-other op-tion for Com-pute2DCoords al-lows you to gen-er-at e 2D de-pic-tions for molecules that Underfull \hbox (badness 10000) in paragraph at lines 2001--2004 \T1/qtm/m/n/10 closely mimic 3D con-form-ers. This is avail-able us-ing the fun c-tion \T1/txtt/m/n/10 rdkit.Chem.AllChem. Underfull \hbox (badness 10000) in paragraph at lines 2026--2032 []\T1/qtm/m/n/10 More fine-grained con-trol can be ob-tained us-ing the core fu nc-tion \T1/txtt/m/n/10 rdkit.Chem.rdDepictor. 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[126] [127 <./EnhancedStereoSSS_molA.png> <./EnhancedStereoSSS_molB.png> <./Enh ancedStereoSSS_molC.png> <./EnhancedStereoSSS_molD.png> <./EnhancedStereoSSS_mo lE.png> <./EnhancedStereoSSS_molF.png> <./EnhancedStereoSSS_molG.png>] [128 <./ query_bonds.png>] [129 <./query_bonds.2.png> <./query_atoms.png>] [130] [131] [132] Underfull \hbox (badness 10000) in paragraph at lines 11782--11792 []\T1/txtt/m/n/10 allowNontetrahedralChirality\T1/qtm/m/n/10 : when this is \T1 /txtt/m/n/10 true \T1/qtm/m/n/10 non-tetrahedral chi-ral-ity will be per- Underfull \hbox (badness 10000) in paragraph at lines 11782--11792 \T1/qtm/m/n/10 ceived from 3D co-or-di-nates. The de-fault value is \T1/txtt/m/ n/10 true \T1/qtm/m/n/10 un-less the en-vi-ron-ment vari- Underfull \hbox (badness 10000) in paragraph at lines 11782--11792 \T1/qtm/m/n/10 able \T1/txtt/m/n/10 RDK_ENABLE_NONTETRAHEDRAL_STEREO \T1/qtm/m/ n/10 is set to \T1/txtt/m/n/10 "0"\T1/qtm/m/n/10 . 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The de-fault value is \T1/txtt/m/n/10 true \T1/qtm/m/n/10 un-less the en-vi-ron- Underfull \hbox (badness 10000) in paragraph at lines 11794--11804 \T1/qtm/m/n/10 ment vari-able \T1/txtt/m/n/10 RDK_USE_LEGACY_STEREO_PERCEPTION \T1/qtm/m/n/10 is set to \T1/txtt/m/n/10 "0"\T1/qtm/m/n/10 . Can set/checked Underfull \hbox (badness 10000) in paragraph at lines 11794--11804 \T1/qtm/m/n/10 from C++ us-ing the func-tions \T1/txtt/m/n/10 RDKit::Chirality: :setUseLegacyStereoPerception() \T1/qtm/m/n/10 / [133] [134] Chapter 5. [135] [136 <./RDKitCB_0_im0.png> <./RDKitCB_0_im1.png>] [137 <./RDKitCB_0_im2.p ng>] [138 <./RDKitCB_23_im0.png> <./RDKitCB_23_im1.png>] [139 <./RDKitCB_32_im0 .png> <./RDKitCB_32_im1.png>] [140 <./RDKitCB_1_im0.png (PNG copy)> <./RDKitCB_ 1_im1.png (PNG copy)> <./RDKitCB_1_im2.png (PNG copy)>] [141 <./RDKitCB_1_im3.p ng (PNG copy)>] [142 <./RDKitCB_2_im0.png> <./RDKitCB_2_im1.png>] [143 <./RDKit CB_36_im0.png> <./RDKitCB_36_im1.png>] [144] [145 <./RDKitCB_38_im0.png>] [146 <./RDKitCB_39_im0.png (PNG copy)>] [147 <./RDKitCB_17_im0.png> <./RDKitCB_ 17_im1.png>] Overfull \vbox (2.26639pt too high) detected at line 12381 [148 <./RDKitCB_34_im0.png> <./RDKitCB_34_im1.png> <./RDKitCB_34_im2.png>] [149] Overfull \hbox (396.49246pt too wide) in paragraph at lines 12406--12406 []\T1/txtt/m/n/10 CC(C)C(O)C1C(=O)NC(CC)C(=O)N(C)CC(=O)N(C)C(CC(C)C)C(=O)NC(C(C )C)C(=O)N(C)C(CC(C)C)C(=O)NC(C)C(=O)NC(C)C(=O)N(C)C(CC(C)C)C(=O)N(C)C(CC(C)C)C( =O)N(C)C(C(C)C)C(=O)N1C[][] [150 <./RDKitCB_37_im0.png> <./RDKitCB_37_im1.png>] Overfull \hbox (396.49246pt too wide) in paragraph at lines 12435--12435 []\T1/txtt/m/n/10 CC(C)C(O)C1C(=O)NC(CC)C(=O)N(C)CC(=O)N(C)C(CC(C)C)C(=O)NC(C(C )C)C(=O)N(C)C(CC(C)C)C(=O)NC(C)C(=O)NC(C)C(=O)N(C)C(CC(C)C)C(=O)N(C)C(CC(C)C)C( =O)N(C)C(C(C)C)C(=O)N1C[][] [151 <./RDKitCB_37_im2.png>] [152 <./RDKitCB_35_im0.png>] [153] [154 <./RDKitCB _3_im0.png> <./RDKitCB_8_im0.png>] [155] [156] [157 <./RDKitCB_30_im0.png> <./R DKitCB_30_im1.png>] [158 <./RDKitCB_7_im0.png>] [159 <./RDKitCB_7_im1.png> <./R DKitCB_7_im2.png (PNG copy)>] [160 <./RDKitCB_7_im3.png> <./RDKitCB_7_im4.png> <./RDKitCB_7_im5.png>] [161 <./RDKitCB_7_im6.png (PNG copy)>] [162] [163 <./RDK itCB_29_im0.png (PNG copy)>] [164] [165 <./RDKitCB_33_im0.png (PNG copy)>] [166 <./RDKitCB_33_im1.png (PNG copy)>] [167 <./RDKitCB_33_im2.png (PNG copy)>] Overfull \hbox (490.99219pt too wide) in paragraph at lines 13190--13190 []\T1/txtt/m/n/10 "[][]CC[C@@H]1[C@@]([C@@H]([C@H](C(=O)[C@@H](C[C@@]([C@@H]([C @H]([C@@H]([C@H](C(=O)O1)C)O[C@H]2C[C@@]([C@H]([C@@H](O2)C)O)(C)OC)C)O[C@H]3[C@ @H]([C@H](C[C@H](O3)C)N(C)C)O)(C)O)C)C)O)(C)O[][] [168 <./RDKitCB_13_im0.png> <./RDKitCB_13_im1.png>] [169] [170 <./RDKitCB_20_im 0.png>] [171 <./RDKitCB_21_im0.png>] [172] [173 <./RDKitCB_21_im1.png>] [174 <./RDKitCB_21_im2.png (PNG copy)> <./RDKitCB_21_im3.png>] Overfull \vbox (3.24347pt too high) detected at line 13588 [175 <./RDKitCB_21_im4.png>] [176 <./RDKitCB_21_im5.png (PNG copy)>] [177 <./RD KitCB_22_im0.png>] [178 <./RDKitCB_22_im1.png>] [179] [180 <./RDKitCB_6_im0.png (PNG copy)> <./RDKitCB_6_im1.png (PNG copy)>] [181 <./RDKitCB_6_im2.png (PNG c opy)>] [182] [183] [184] [185] [186 <./RDKitCB_19_im0.png>] [187] [188 <./RDKit CB_28_im0.png (PNG copy)>] [189 <./RDKitCB_28_im1.png (PNG copy)>] [190] [191] [192] Chapter 6. [193] [194] [195] [196] [197] Overfull \hbox (1052.74055pt too wide) in paragraph at lines 14688--14688 []\T1/txtt/m/n/10 CC[C@H](C)[C@@H]1NC(=O)[C@@H]2CCCN2C(=O)[C@@H]2CCCN2C(=O)[C@H ]([C@@H](C)CC)NC(=O)[C@H](CO)NC(=O)[C@H](C)NC(=O)[C@H]([C@H](C)O)NC(=O)[C@@H]2C SSC[C@H](NC1=O)C(=O)N[C@@H](Cc1cnc[nH]1)C(=O)N[C@H](Cc1ccccc1)C(=O)N[C@@H](CCCN C(=N)N)C(=O)N[C@@H](Cc1c[nH]c3ccccc13)C(=O)N[C@@H](CCCNC(=N)N)C(=O)N2| Overfull \hbox (149.74318pt too wide) in paragraph at lines 14690--14690 []\T1/txtt/m/n/10 CN1C(=O)[C@H](CCCNC(=N)N)NC(=O)[C@@H](Cc2ccc(O)cc2)NC(=O)[C@@ H]2CCCN2C(=O)[C@H](Cc2ccc3ccccc3c2)NC(=O)[C@@H]1CC(=O)O| Overfull \hbox (97.24333pt too wide) in paragraph at lines 14691--14691 []\T1/txtt/m/n/10 NCCCC[C@H](NC(=O)[C@H](Cc1ccc(OP(=O)(O)O)cc1)NC(=O)Cc1ccccc1) C(=O)N1CCC[C@H]1C(=O)N[C@@H](Cc1ccccc1)C(N)=O| Overfull \hbox (643.24174pt too wide) in paragraph at lines 14692--14692 []\T1/txtt/m/n/10 CCCCCCCCCCCCCCCCNC(=O)CN(CC(=O)NC(C)(C)C(=O)N[C@@H](Cc1ccccc1 )C(=O)N[C@@H](CC(C)C)C(=O)N[C@@H](Cc1ccccc1)C(=O)N[C@@H](CCCNC(=N)N)C(=O)N1CCC[ C@H]1C(=O)N[C@@H](CCCNC(=N)N)C(=O)N[C@@H](CC(N)=O)C(N)=O)C(=O)c1cccnc1| Overfull \hbox (464.74226pt too wide) in paragraph at lines 14693--14693 []\T1/txtt/m/n/10 CCCCCCCCCCCCCCCCN(CCCCCCCCCCCCCCCC)CCCCCC(=O)NC(C)(C)C(=O)NC( Cc1ccccc1)C(=O)NC(CC(C)C)C(=O)NC(Cc1ccccc1)C(=O)NC(CCCNC(=N)N)C(=O)N1CCCC1C(=O) NC(CCCNC(=N)N)C(=O)NC(CC(N)=O)C(N)=O| Overfull \hbox (359.74257pt too wide) in paragraph at lines 14694--14694 []\T1/txtt/m/n/10 CC[C@H](C)[C@@H]1NC(=O)[C@H](Cc2ccccc2)NC(=O)[C@H](CC(C)C)NC( =O)[C@@H]2CCCN2C(=O)[C@H](Cc2ccccc2)NC(=O)[C@H](C(C)C)NC(=O)[C@H](CC(C)C)NC(=O) [C@H](CCSC)NC1=O| Overfull \hbox (370.24254pt too wide) in paragraph at lines 14695--14695 []\T1/txtt/m/n/10 CC[C@H](C)[C@@H]1NC(=O)[C@H](Cc2ccccc2)NC(=O)[C@H](CC(C)C)NC( =O)[C@@H]2CCCN2C(=O)[C@H](Cc2ccccc2)NC(=O)[C@H](C(C)C)NC(=O)[C@H](CC(C)C)NC(=O) [C@H](CC[S+](C)[O- Overfull \hbox (422.74239pt too wide) in paragraph at lines 14696--14696 []\T1/txtt/m/n/10 CC[C@H](C)[C@@H]1NC(=O)[C@H](Cc2c[nH]c3ccccc23)NC(=O)[C@H](Cc 2ccccc2)NC(=O)[C@H](Cc2ccccc2)NC(=O)[C@@H]2CCCN2C(=O)[C@H](CCSC)NC(=O)[C@H](CC( C)C)NC(=O)[C@H](CC[S+](C)[O- Overfull \hbox (249.49289pt too wide) in paragraph at lines 14697--14697 []\T1/txtt/m/n/10 ])NC(=O)[C@H](C(C)C)NC(=O)[C@H](Cc2c[nH]c3ccccc23)NC(=O)[C@H] (Cc2ccccc2)NC(=O)[C@H](Cc2ccccc2)NC(=O)[C@@H]2CCCN2C(=O)[C@H](CC[S+](C)[O- Overfull \hbox (1052.74055pt too wide) in paragraph at lines 14711--14711 []\T1/txtt/m/n/10 CC[C@H](C)[C@@H]1NC(=O)[C@@H]2CCCN2C(=O)[C@@H]2CCCN2C(=O)[C@H ]([C@@H](C)CC)NC(=O)[C@H](CO)NC(=O)[C@H](C)NC(=O)[C@H]([C@H](C)O)NC(=O)[C@@H]2C SSC[C@H](NC1=O)C(=O)N[C@@H](Cc1cnc[nH]1)C(=O)N[C@H](Cc1ccccc1)C(=O)N[C@@H](CCCN C(=N)N)C(=O)N[C@@H](Cc1c[nH]c3ccccc13)C(=O)N[C@@H](CCCNC(=N)N)C(=O)N2| Overfull \hbox (149.74318pt too wide) in paragraph at lines 14713--14713 []\T1/txtt/m/n/10 CN1C(=O)[C@H](CCCNC(=N)N)NC(=O)[C@@H](Cc2ccc(O)cc2)NC(=O)[C@@ H]2CCCN2C(=O)[C@H](Cc2ccc3ccccc3c2)NC(=O)[C@@H]1CC(=O)O| Overfull \hbox (97.24333pt too wide) in paragraph at lines 14714--14714 []\T1/txtt/m/n/10 NCCCC[C@H](NC(=O)[C@H](Cc1ccc(OP(=O)(O)O)cc1)NC(=O)Cc1ccccc1) C(=O)N1CCC[C@H]1C(=O)N[C@@H](Cc1ccccc1)C(N)=O| Overfull \hbox (643.24174pt too wide) in paragraph at lines 14715--14715 []\T1/txtt/m/n/10 CCCCCCCCCCCCCCCCNC(=O)CN(CC(=O)NC(C)(C)C(=O)N[C@@H](Cc1ccccc1 )C(=O)N[C@@H](CC(C)C)C(=O)N[C@@H](Cc1ccccc1)C(=O)N[C@@H](CCCNC(=N)N)C(=O)N1CCC[ C@H]1C(=O)N[C@@H](CCCNC(=N)N)C(=O)N[C@@H](CC(N)=O)C(N)=O)C(=O)c1cccnc1| Overfull \hbox (359.74257pt too wide) in paragraph at lines 14716--14716 []\T1/txtt/m/n/10 CC[C@H](C)[C@@H]1NC(=O)[C@H](Cc2ccccc2)NC(=O)[C@H](CC(C)C)NC( =O)[C@@H]2CCCN2C(=O)[C@H](Cc2ccccc2)NC(=O)[C@H](C(C)C)NC(=O)[C@H](CC(C)C)NC(=O) [C@H](CCSC)NC1=O| Overfull \hbox (370.24254pt too wide) in paragraph at lines 14717--14717 []\T1/txtt/m/n/10 CC[C@H](C)[C@@H]1NC(=O)[C@H](Cc2ccccc2)NC(=O)[C@H](CC(C)C)NC( =O)[C@@H]2CCCN2C(=O)[C@H](Cc2ccccc2)NC(=O)[C@H](C(C)C)NC(=O)[C@H](CC(C)C)NC(=O) [C@H](CC[S+](C)[O- Overfull \hbox (422.74239pt too wide) in paragraph at lines 14718--14718 []\T1/txtt/m/n/10 CC[C@H](C)[C@@H]1NC(=O)[C@H](Cc2c[nH]c3ccccc23)NC(=O)[C@H](Cc 2ccccc2)NC(=O)[C@H](Cc2ccccc2)NC(=O)[C@@H]2CCCN2C(=O)[C@H](CCSC)NC(=O)[C@H](CC( C)C)NC(=O)[C@H](CC[S+](C)[O- Overfull \hbox (249.49289pt too wide) in paragraph at lines 14719--14719 []\T1/txtt/m/n/10 ])NC(=O)[C@H](C(C)C)NC(=O)[C@H](Cc2c[nH]c3ccccc23)NC(=O)[C@H] (Cc2ccccc2)NC(=O)[C@H](Cc2ccccc2)NC(=O)[C@@H]2CCCN2C(=O)[C@H](CC[S+](C)[O- Overfull \hbox (522.4921pt too wide) in paragraph at lines 14720--14720 []\T1/txtt/m/n/10 CC[C@H](C)[C@H](N)C(=O)N[C@H](C(=O)N[C@@H](CC(C)C)C(=O)N[C@H] (C(=O)N1CCC[C@H]1C(=O)N1CCC[C@H]1C(=O)N[C@H](CCC(=O)N[C@@H](CCC(=O)N[C@@H](CC(C )C)C(=O)O)Cc1ccccc1)Cc1ccccc1)C(C)C)[C@@H](C)CC| Overfull \vbox (2.7787pt too high) detected at line 14724 [198] [199] [200] [201] [202] [203] Overfull \vbox (1.8739pt too high) detected at line 15088 [204] [205] [206] [207] [208] [209] [210] [211] [212] Chapter 7. [213] [214] [215] Underfull \hbox (badness 10000) in paragraph at lines 15941--15945 \T1/qtm/m/n/10 Un-charger::uncharge() will now neu-tral-ize \T1/txtt/m/n/10 [Cl ,Br,I][O[]], [Cl,Br,I](=O)[O[]], [Cl, Underfull \hbox (badness 10000) in paragraph at lines 15941--15945 \T1/txtt/m/n/10 Br,I](=O)(=O)[O[]], [Cl,Br,I](=O)(=O)(=O)[O[]], [O[]]N=N[O[]], [N,P](=O)[O[]], Underfull \hbox (badness 10000) in paragraph at lines 15941--15945 \T1/txtt/m/n/10 [N+](=O)([O[]])[O[]], P(=O)([O[]])[O[]], P(=O)([O[]])([O[]])[O[ ]], S([O[]])[O[]], S(=O)([O[]])[O[]], [216] [217] [218] Chapter 8. [219] [220] [221] [222] [223] [224] [225] [226] [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] Chapter 9. [237] [238] [239] Underfull \hbox (badness 10000) in paragraph at lines 18109--18113 \T1/qtm/m/n/10 Groups of molecules are read us-ing a Sup-plier (for ex-am-ple, an \T1/txtt/m/n/10 RDKit::SDMolSupplier \T1/qtm/m/n/10 or an [240] [241] [242] [243] [244] [245] [246] Underfull \hbox (badness 6691) in paragraph at lines 18649--18651 []\T1/qtm/m/n/10 The \T1/txtt/m/n/10 auto\TS1/txtt/m/n/10 ' \T1/txtt/m/n/10 key word here is hiding the fact that \T1/qtm/m/n/10 get-Bond-Be-tweenAtoms\T1/txtt /m/n/10 returns the index of the [247] [248] [249] [250] Overfull \vbox (0.8796pt too high) detected at line 18979 [251] [252] [253] [254] Overfull \vbox (0.87962pt too high) detected at line 19330 [255] [256] [257] [258] [259] [260] [261] [262] Chapter 10. [263] [264] Chapter 11. (./RDKit.ind) [265] (./RDKit.aux) ) (see the transcript file for additional information) Output written on RDKit.pdf (275 pages, 2791823 bytes). Transcript written on RDKit.log. Latexmk: Getting log file 'RDKit.log' Latexmk: Examining 'RDKit.fls' Latexmk: Examining 'RDKit.log' Latexmk: Index file 'RDKit.idx' was written Latexmk: Log file says output to 'RDKit.pdf' Latexmk: applying rule 'pdflatex'... Rule 'pdflatex': Reasons for rerun Changed files or newly in use/created: RDKit.aux ------------ Run number 3 of rule 'pdflatex' ------------ ------------ Running 'pdflatex -recorder "RDKit.tex"' ------------ This is pdfTeX, Version 3.141592653-2.6-1.40.25 (TeX Live 2023/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./RDKit.tex LaTeX2e <2023-11-01> patch level 1 L3 programming layer <2024-01-22> (./sphinxmanual.cls Document Class: sphinxmanual 2019/12/01 v2.3.0 Document class (Sphinx manual) (/usr/share/texlive/texmf-dist/tex/latex/base/report.cls Document Class: report 2023/05/17 v1.4n Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/size10.clo))) (/usr/share/texlive/texmf-dist/tex/latex/base/inputenc.sty) (/usr/share/texlive/texmf-dist/tex/latex/cmap/cmap.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/fontenc.sty<>) (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsmath.sty For additional information on amsmath, use the `?' option. 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(/usr/share/texmf/tex/latex/tex-gyre/ts1qtm.fd) Underfull \hbox (badness 10000) in paragraph at lines 131--133 []\T1/qtm/m/n/10 Chem-in-for-mat-ics nodes for KN-IME (dis-tributed from the KN -IME com-mu-nity site: [1{/usr/share/texmf/fonts/enc/dvips/tex-gyre/q-ts1.enc}] [2] [3] [4] Chapter 2. [5] [6] (/usr/share/texlive/texmf-dist/tex/latex/txfonts/ts1txtt.fd) [7] [8] Underfull \hbox (badness 10000) in paragraph at lines 774--776 []\T1/qtm/m/n/10 If you want to use the python wrap-pers: \T1/txtt/m/n/10 ./boo tstrap.sh [][]with[]libraries=python, [9] [10] Underfull \hbox (badness 10000) in paragraph at lines 941--943 []\T1/qtm/m/n/10 You can en-able sup-port for gen-er-at-ing InChI strings and I nChI keys by adding the ar-gu-ment [11] [12] [13] [14] Underfull \hbox (badness 5490) in paragraph at lines 1192--1194 \T1/qtm/m/n/10 This sec-tion as-sumes that python is in-stalled in \T1/txtt/m/n /10 C:[]Python36 that the boost libraries have been Overfull \hbox (11.99368pt too wide) in paragraph at lines 1243--1246 \T1/txtt/m/n/10 cmake []DRDK_BUILD_PYTHON_WRAPPERS=ON []DBOOST_ROOT=C:/boost [] DRDK_BUILD_INCHI_SUPPORT=ON Underfull \hbox (badness 10000) in paragraph at lines 1243--1246 []\T1/txtt/m/n/10 DRDK_BUILD_AVALON_SUPPORT=ON []DRDK_BUILD_PGSQL=ON []DPostgre SQL_ROOT="C:[]Program Underfull \hbox (badness 10000) in paragraph at lines 1248--1251 \T1/txtt/m/n/10 C:/Windows/Microsoft.NET/Framework64/v4.0.30319/MSBuild.exe /m: 4 / Underfull \hbox (badness 10000) in paragraph at lines 1257--1259 []\T1/txtt/m/n/10 "C:[]Program Files[]PostgreSQL[]9.5[]bin[]pg_ctl.exe" []N "po stgresql[]9.5" []D "C:[] Underfull \hbox (badness 10000) in paragraph at lines 1265--1267 []\T1/txtt/m/n/10 "C:[]Program Files[]PostgreSQL[]9.5[]bin[]pg_ctl.exe" []N "po stgresql[]9.5" []D "C:[] Underfull \hbox (badness 10000) in paragraph at lines 1269--1272 \T1/txtt/m/n/10 ERROR: could not load library "C:/Program Files/PostgreSQL/9.5/ lib/rdkit.dll": [15] [16] Chapter 3. [17] [18 <./Cc1ccccc1.png>] Overfull \vbox (2.32188pt too high) detected at line 1509 [19] [20] [21] [22] [23] [24] [25] [26] Underfull \hbox (badness 10000) in paragraph at lines 2001--2004 []\T1/qtm/m/n/10 An-other op-tion for Com-pute2DCoords al-lows you to gen-er-at e 2D de-pic-tions for molecules that Underfull \hbox (badness 10000) in paragraph at lines 2001--2004 \T1/qtm/m/n/10 closely mimic 3D con-form-ers. This is avail-able us-ing the fun c-tion \T1/txtt/m/n/10 rdkit.Chem.AllChem. Underfull \hbox (badness 10000) in paragraph at lines 2026--2032 []\T1/qtm/m/n/10 More fine-grained con-trol can be ob-tained us-ing the core fu nc-tion \T1/txtt/m/n/10 rdkit.Chem.rdDepictor. 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[123] Underfull \hbox (badness 10000) in paragraph at lines 11075--11075 []\T1/qhv/m/n/10 Mix- Underfull \hbox (badness 10000) in paragraph at lines 11075--11075 []\T1/qtm/m/n/10 mix- Underfull \hbox (badness 10000) in paragraph at lines 11075--11075 []\T1/qtm/m/n/10 mix- Underfull \hbox (badness 10000) in paragraph at lines 11075--11075 []\T1/qtm/m/n/10 mix- Underfull \hbox (badness 10000) in paragraph at lines 11075--11075 []\T1/qtm/m/n/10 mix- [124] [125 <./enhanced_stereo_and1_and2_base.png> <./enhanced_stereo_and1_and2_ expand.png> <./enhanced_stereo_and1_cis_base.png> <./enhanced_stereo_and1_cis_e xpand.png> <./enhanced_stereo_and1_trans_base.png> <./enhanced_stereo_and1_tran s_expand.png> <./enhanced_stereo_or1_or2_base.png> <./enhanced_stereo_or1_cis_b ase.png> <./enhanced_stereo_or1_trans_base.png> <./enhanced_stereo_abs_and_base .png> <./enhanced_stereo_abs_and_expand.png> <./enhanced_stereo_abs_or_base.png >] Underfull \hbox (badness 10000) in paragraph at lines 11092--11097 []\T1/qtm/m/n/10 It is pos-si-ble to enu-mer-ate the el-e-ments of a \T1/txtt/m /n/10 StereoGroup \T1/qtm/m/n/10 us-ing the func-tion \T1/txtt/m/n/10 rdkit.Che m. [126] [127 <./EnhancedStereoSSS_molA.png> <./EnhancedStereoSSS_molB.png> <./Enh ancedStereoSSS_molC.png> <./EnhancedStereoSSS_molD.png> <./EnhancedStereoSSS_mo lE.png> <./EnhancedStereoSSS_molF.png> <./EnhancedStereoSSS_molG.png>] [128 <./ query_bonds.png>] [129 <./query_bonds.2.png> <./query_atoms.png>] [130] [131] [132] Underfull \hbox (badness 10000) in paragraph at lines 11782--11792 []\T1/txtt/m/n/10 allowNontetrahedralChirality\T1/qtm/m/n/10 : when this is \T1 /txtt/m/n/10 true \T1/qtm/m/n/10 non-tetrahedral chi-ral-ity will be per- Underfull \hbox (badness 10000) in paragraph at lines 11782--11792 \T1/qtm/m/n/10 ceived from 3D co-or-di-nates. The de-fault value is \T1/txtt/m/ n/10 true \T1/qtm/m/n/10 un-less the en-vi-ron-ment vari- Underfull \hbox (badness 10000) in paragraph at lines 11782--11792 \T1/qtm/m/n/10 able \T1/txtt/m/n/10 RDK_ENABLE_NONTETRAHEDRAL_STEREO \T1/qtm/m/ n/10 is set to \T1/txtt/m/n/10 "0"\T1/qtm/m/n/10 . Can set/checked from Underfull \hbox (badness 10000) in paragraph at lines 11782--11792 \T1/qtm/m/n/10 C++ us-ing the func-tions \T1/txtt/m/n/10 RDKit::Chirality::setA llowNontetrahedralChirality() \T1/qtm/m/n/10 / Underfull \hbox (badness 10000) in paragraph at lines 11782--11792 \T1/txtt/m/n/10 RDKit::Chirality::getAllowNontetrahedralChirality() \T1/qtm/m/n /10 or from Python us-ing the func-tions Underfull \hbox (badness 10000) in paragraph at lines 11794--11804 []\T1/txtt/m/n/10 useLegacyStereoPerception\T1/qtm/m/n/10 : when this is \T1/tx tt/m/n/10 true \T1/qtm/m/n/10 the legacy im-ple-men-ta-tion for per- Underfull \hbox (badness 10000) in paragraph at lines 11794--11804 \T1/qtm/m/n/10 ceiv-ing stere-o-chem-istry will be used. The de-fault value is \T1/txtt/m/n/10 true \T1/qtm/m/n/10 un-less the en-vi-ron- Underfull \hbox (badness 10000) in paragraph at lines 11794--11804 \T1/qtm/m/n/10 ment vari-able \T1/txtt/m/n/10 RDK_USE_LEGACY_STEREO_PERCEPTION \T1/qtm/m/n/10 is set to \T1/txtt/m/n/10 "0"\T1/qtm/m/n/10 . Can set/checked Underfull \hbox (badness 10000) in paragraph at lines 11794--11804 \T1/qtm/m/n/10 from C++ us-ing the func-tions \T1/txtt/m/n/10 RDKit::Chirality: :setUseLegacyStereoPerception() \T1/qtm/m/n/10 / [133] [134] Chapter 5. [135] [136 <./RDKitCB_0_im0.png> <./RDKitCB_0_im1.png>] [137 <./RDKitCB_0_im2.p ng>] [138 <./RDKitCB_23_im0.png> <./RDKitCB_23_im1.png>] [139 <./RDKitCB_32_im0 .png> <./RDKitCB_32_im1.png>] [140 <./RDKitCB_1_im0.png (PNG copy)> <./RDKitCB_ 1_im1.png (PNG copy)> <./RDKitCB_1_im2.png (PNG copy)>] [141 <./RDKitCB_1_im3.p ng (PNG copy)>] [142 <./RDKitCB_2_im0.png> <./RDKitCB_2_im1.png>] [143 <./RDKit CB_36_im0.png> <./RDKitCB_36_im1.png>] [144] [145 <./RDKitCB_38_im0.png>] [146 <./RDKitCB_39_im0.png (PNG copy)>] [147 <./RDKitCB_17_im0.png> <./RDKitCB_ 17_im1.png>] Overfull \vbox (2.26639pt too high) detected at line 12381 [148 <./RDKitCB_34_im0.png> <./RDKitCB_34_im1.png> <./RDKitCB_34_im2.png>] [149] Overfull \hbox (396.49246pt too wide) in paragraph at lines 12406--12406 []\T1/txtt/m/n/10 CC(C)C(O)C1C(=O)NC(CC)C(=O)N(C)CC(=O)N(C)C(CC(C)C)C(=O)NC(C(C )C)C(=O)N(C)C(CC(C)C)C(=O)NC(C)C(=O)NC(C)C(=O)N(C)C(CC(C)C)C(=O)N(C)C(CC(C)C)C( =O)N(C)C(C(C)C)C(=O)N1C[][] [150 <./RDKitCB_37_im0.png> <./RDKitCB_37_im1.png>] Overfull \hbox (396.49246pt too wide) in paragraph at lines 12435--12435 []\T1/txtt/m/n/10 CC(C)C(O)C1C(=O)NC(CC)C(=O)N(C)CC(=O)N(C)C(CC(C)C)C(=O)NC(C(C )C)C(=O)N(C)C(CC(C)C)C(=O)NC(C)C(=O)NC(C)C(=O)N(C)C(CC(C)C)C(=O)N(C)C(CC(C)C)C( =O)N(C)C(C(C)C)C(=O)N1C[][] [151 <./RDKitCB_37_im2.png>] [152 <./RDKitCB_35_im0.png>] [153] [154 <./RDKitCB _3_im0.png> <./RDKitCB_8_im0.png>] [155] [156] [157 <./RDKitCB_30_im0.png> <./R DKitCB_30_im1.png>] [158 <./RDKitCB_7_im0.png>] [159 <./RDKitCB_7_im1.png> <./R DKitCB_7_im2.png (PNG copy)>] [160 <./RDKitCB_7_im3.png> <./RDKitCB_7_im4.png> <./RDKitCB_7_im5.png>] [161 <./RDKitCB_7_im6.png (PNG copy)>] [162] [163 <./RDK itCB_29_im0.png (PNG copy)>] [164] [165 <./RDKitCB_33_im0.png (PNG copy)>] [166 <./RDKitCB_33_im1.png (PNG copy)>] [167 <./RDKitCB_33_im2.png (PNG copy)>] Overfull \hbox (490.99219pt too wide) in paragraph at lines 13190--13190 []\T1/txtt/m/n/10 "[][]CC[C@@H]1[C@@]([C@@H]([C@H](C(=O)[C@@H](C[C@@]([C@@H]([C @H]([C@@H]([C@H](C(=O)O1)C)O[C@H]2C[C@@]([C@H]([C@@H](O2)C)O)(C)OC)C)O[C@H]3[C@ @H]([C@H](C[C@H](O3)C)N(C)C)O)(C)O)C)C)O)(C)O[][] [168 <./RDKitCB_13_im0.png> <./RDKitCB_13_im1.png>] [169] [170 <./RDKitCB_20_im 0.png>] [171 <./RDKitCB_21_im0.png>] [172] [173 <./RDKitCB_21_im1.png>] [174 <./RDKitCB_21_im2.png (PNG copy)> <./RDKitCB_21_im3.png>] Overfull \vbox (3.24347pt too high) detected at line 13588 [175 <./RDKitCB_21_im4.png>] [176 <./RDKitCB_21_im5.png (PNG copy)>] [177 <./RD KitCB_22_im0.png>] [178 <./RDKitCB_22_im1.png>] [179] [180 <./RDKitCB_6_im0.png (PNG copy)> <./RDKitCB_6_im1.png (PNG copy)>] [181 <./RDKitCB_6_im2.png (PNG c opy)>] [182] [183] [184] [185] [186 <./RDKitCB_19_im0.png>] [187] [188 <./RDKit CB_28_im0.png (PNG copy)>] [189 <./RDKitCB_28_im1.png (PNG copy)>] [190] [191] [192] Chapter 6. [193] [194] [195] [196] [197] Overfull \hbox (1052.74055pt too wide) in paragraph at lines 14688--14688 []\T1/txtt/m/n/10 CC[C@H](C)[C@@H]1NC(=O)[C@@H]2CCCN2C(=O)[C@@H]2CCCN2C(=O)[C@H ]([C@@H](C)CC)NC(=O)[C@H](CO)NC(=O)[C@H](C)NC(=O)[C@H]([C@H](C)O)NC(=O)[C@@H]2C SSC[C@H](NC1=O)C(=O)N[C@@H](Cc1cnc[nH]1)C(=O)N[C@H](Cc1ccccc1)C(=O)N[C@@H](CCCN C(=N)N)C(=O)N[C@@H](Cc1c[nH]c3ccccc13)C(=O)N[C@@H](CCCNC(=N)N)C(=O)N2| Overfull \hbox (149.74318pt too wide) in paragraph at lines 14690--14690 []\T1/txtt/m/n/10 CN1C(=O)[C@H](CCCNC(=N)N)NC(=O)[C@@H](Cc2ccc(O)cc2)NC(=O)[C@@ H]2CCCN2C(=O)[C@H](Cc2ccc3ccccc3c2)NC(=O)[C@@H]1CC(=O)O| Overfull \hbox (97.24333pt too wide) in paragraph at lines 14691--14691 []\T1/txtt/m/n/10 NCCCC[C@H](NC(=O)[C@H](Cc1ccc(OP(=O)(O)O)cc1)NC(=O)Cc1ccccc1) C(=O)N1CCC[C@H]1C(=O)N[C@@H](Cc1ccccc1)C(N)=O| Overfull \hbox (643.24174pt too wide) in paragraph at lines 14692--14692 []\T1/txtt/m/n/10 CCCCCCCCCCCCCCCCNC(=O)CN(CC(=O)NC(C)(C)C(=O)N[C@@H](Cc1ccccc1 )C(=O)N[C@@H](CC(C)C)C(=O)N[C@@H](Cc1ccccc1)C(=O)N[C@@H](CCCNC(=N)N)C(=O)N1CCC[ C@H]1C(=O)N[C@@H](CCCNC(=N)N)C(=O)N[C@@H](CC(N)=O)C(N)=O)C(=O)c1cccnc1| Overfull \hbox (464.74226pt too wide) in paragraph at lines 14693--14693 []\T1/txtt/m/n/10 CCCCCCCCCCCCCCCCN(CCCCCCCCCCCCCCCC)CCCCCC(=O)NC(C)(C)C(=O)NC( Cc1ccccc1)C(=O)NC(CC(C)C)C(=O)NC(Cc1ccccc1)C(=O)NC(CCCNC(=N)N)C(=O)N1CCCC1C(=O) NC(CCCNC(=N)N)C(=O)NC(CC(N)=O)C(N)=O| Overfull \hbox (359.74257pt too wide) in paragraph at lines 14694--14694 []\T1/txtt/m/n/10 CC[C@H](C)[C@@H]1NC(=O)[C@H](Cc2ccccc2)NC(=O)[C@H](CC(C)C)NC( =O)[C@@H]2CCCN2C(=O)[C@H](Cc2ccccc2)NC(=O)[C@H](C(C)C)NC(=O)[C@H](CC(C)C)NC(=O) [C@H](CCSC)NC1=O| Overfull \hbox (370.24254pt too wide) in paragraph at lines 14695--14695 []\T1/txtt/m/n/10 CC[C@H](C)[C@@H]1NC(=O)[C@H](Cc2ccccc2)NC(=O)[C@H](CC(C)C)NC( =O)[C@@H]2CCCN2C(=O)[C@H](Cc2ccccc2)NC(=O)[C@H](C(C)C)NC(=O)[C@H](CC(C)C)NC(=O) [C@H](CC[S+](C)[O- Overfull \hbox (422.74239pt too wide) in paragraph at lines 14696--14696 []\T1/txtt/m/n/10 CC[C@H](C)[C@@H]1NC(=O)[C@H](Cc2c[nH]c3ccccc23)NC(=O)[C@H](Cc 2ccccc2)NC(=O)[C@H](Cc2ccccc2)NC(=O)[C@@H]2CCCN2C(=O)[C@H](CCSC)NC(=O)[C@H](CC( C)C)NC(=O)[C@H](CC[S+](C)[O- Overfull \hbox (249.49289pt too wide) in paragraph at lines 14697--14697 []\T1/txtt/m/n/10 ])NC(=O)[C@H](C(C)C)NC(=O)[C@H](Cc2c[nH]c3ccccc23)NC(=O)[C@H] (Cc2ccccc2)NC(=O)[C@H](Cc2ccccc2)NC(=O)[C@@H]2CCCN2C(=O)[C@H](CC[S+](C)[O- Overfull \hbox (1052.74055pt too wide) in paragraph at lines 14711--14711 []\T1/txtt/m/n/10 CC[C@H](C)[C@@H]1NC(=O)[C@@H]2CCCN2C(=O)[C@@H]2CCCN2C(=O)[C@H ]([C@@H](C)CC)NC(=O)[C@H](CO)NC(=O)[C@H](C)NC(=O)[C@H]([C@H](C)O)NC(=O)[C@@H]2C SSC[C@H](NC1=O)C(=O)N[C@@H](Cc1cnc[nH]1)C(=O)N[C@H](Cc1ccccc1)C(=O)N[C@@H](CCCN C(=N)N)C(=O)N[C@@H](Cc1c[nH]c3ccccc13)C(=O)N[C@@H](CCCNC(=N)N)C(=O)N2| Overfull \hbox (149.74318pt too wide) in paragraph at lines 14713--14713 []\T1/txtt/m/n/10 CN1C(=O)[C@H](CCCNC(=N)N)NC(=O)[C@@H](Cc2ccc(O)cc2)NC(=O)[C@@ H]2CCCN2C(=O)[C@H](Cc2ccc3ccccc3c2)NC(=O)[C@@H]1CC(=O)O| Overfull \hbox (97.24333pt too wide) in paragraph at lines 14714--14714 []\T1/txtt/m/n/10 NCCCC[C@H](NC(=O)[C@H](Cc1ccc(OP(=O)(O)O)cc1)NC(=O)Cc1ccccc1) C(=O)N1CCC[C@H]1C(=O)N[C@@H](Cc1ccccc1)C(N)=O| Overfull \hbox (643.24174pt too wide) in paragraph at lines 14715--14715 []\T1/txtt/m/n/10 CCCCCCCCCCCCCCCCNC(=O)CN(CC(=O)NC(C)(C)C(=O)N[C@@H](Cc1ccccc1 )C(=O)N[C@@H](CC(C)C)C(=O)N[C@@H](Cc1ccccc1)C(=O)N[C@@H](CCCNC(=N)N)C(=O)N1CCC[ C@H]1C(=O)N[C@@H](CCCNC(=N)N)C(=O)N[C@@H](CC(N)=O)C(N)=O)C(=O)c1cccnc1| Overfull \hbox (359.74257pt too wide) in paragraph at lines 14716--14716 []\T1/txtt/m/n/10 CC[C@H](C)[C@@H]1NC(=O)[C@H](Cc2ccccc2)NC(=O)[C@H](CC(C)C)NC( =O)[C@@H]2CCCN2C(=O)[C@H](Cc2ccccc2)NC(=O)[C@H](C(C)C)NC(=O)[C@H](CC(C)C)NC(=O) [C@H](CCSC)NC1=O| Overfull \hbox (370.24254pt too wide) in paragraph at lines 14717--14717 []\T1/txtt/m/n/10 CC[C@H](C)[C@@H]1NC(=O)[C@H](Cc2ccccc2)NC(=O)[C@H](CC(C)C)NC( =O)[C@@H]2CCCN2C(=O)[C@H](Cc2ccccc2)NC(=O)[C@H](C(C)C)NC(=O)[C@H](CC(C)C)NC(=O) [C@H](CC[S+](C)[O- Overfull \hbox (422.74239pt too wide) in paragraph at lines 14718--14718 []\T1/txtt/m/n/10 CC[C@H](C)[C@@H]1NC(=O)[C@H](Cc2c[nH]c3ccccc23)NC(=O)[C@H](Cc 2ccccc2)NC(=O)[C@H](Cc2ccccc2)NC(=O)[C@@H]2CCCN2C(=O)[C@H](CCSC)NC(=O)[C@H](CC( C)C)NC(=O)[C@H](CC[S+](C)[O- Overfull \hbox (249.49289pt too wide) in paragraph at lines 14719--14719 []\T1/txtt/m/n/10 ])NC(=O)[C@H](C(C)C)NC(=O)[C@H](Cc2c[nH]c3ccccc23)NC(=O)[C@H] (Cc2ccccc2)NC(=O)[C@H](Cc2ccccc2)NC(=O)[C@@H]2CCCN2C(=O)[C@H](CC[S+](C)[O- Overfull \hbox (522.4921pt too wide) in paragraph at lines 14720--14720 []\T1/txtt/m/n/10 CC[C@H](C)[C@H](N)C(=O)N[C@H](C(=O)N[C@@H](CC(C)C)C(=O)N[C@H] (C(=O)N1CCC[C@H]1C(=O)N1CCC[C@H]1C(=O)N[C@H](CCC(=O)N[C@@H](CCC(=O)N[C@@H](CC(C )C)C(=O)O)Cc1ccccc1)Cc1ccccc1)C(C)C)[C@@H](C)CC| Overfull \vbox (2.7787pt too high) detected at line 14724 [198] [199] [200] [201] [202] [203] Overfull \vbox (1.8739pt too high) detected at line 15088 [204] [205] [206] [207] [208] [209] [210] [211] [212] Chapter 7. [213] [214] [215] Underfull \hbox (badness 10000) in paragraph at lines 15941--15945 \T1/qtm/m/n/10 Un-charger::uncharge() will now neu-tral-ize \T1/txtt/m/n/10 [Cl ,Br,I][O[]], [Cl,Br,I](=O)[O[]], [Cl, Underfull \hbox (badness 10000) in paragraph at lines 15941--15945 \T1/txtt/m/n/10 Br,I](=O)(=O)[O[]], [Cl,Br,I](=O)(=O)(=O)[O[]], [O[]]N=N[O[]], [N,P](=O)[O[]], Underfull \hbox (badness 10000) in paragraph at lines 15941--15945 \T1/txtt/m/n/10 [N+](=O)([O[]])[O[]], P(=O)([O[]])[O[]], P(=O)([O[]])([O[]])[O[ ]], S([O[]])[O[]], S(=O)([O[]])[O[]], [216] [217] [218] Chapter 8. [219] [220] [221] [222] [223] [224] [225] [226] [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] Chapter 9. [237] [238] [239] Underfull \hbox (badness 10000) in paragraph at lines 18109--18113 \T1/qtm/m/n/10 Groups of molecules are read us-ing a Sup-plier (for ex-am-ple, an \T1/txtt/m/n/10 RDKit::SDMolSupplier \T1/qtm/m/n/10 or an [240] [241] [242] [243] [244] [245] [246] Underfull \hbox (badness 6691) in paragraph at lines 18649--18651 []\T1/qtm/m/n/10 The \T1/txtt/m/n/10 auto\TS1/txtt/m/n/10 ' \T1/txtt/m/n/10 key word here is hiding the fact that \T1/qtm/m/n/10 get-Bond-Be-tweenAtoms\T1/txtt /m/n/10 returns the index of the [247] [248] [249] [250] Overfull \vbox (0.8796pt too high) detected at line 18979 [251] [252] [253] [254] Overfull \vbox (0.87962pt too high) detected at line 19330 [255] [256] [257] [258] [259] [260] [261] [262] Chapter 10. [263] [264] Chapter 11. (./RDKit.ind) [265] (./RDKit.aux) ) (see the transcript file for additional information) Output written on RDKit.pdf (275 pages, 2791823 bytes). Transcript written on RDKit.log. Latexmk: Getting log file 'RDKit.log' Latexmk: Examining 'RDKit.fls' Latexmk: Examining 'RDKit.log' Latexmk: Index file 'RDKit.idx' was written Latexmk: Log file says output to 'RDKit.pdf' Latexmk: All targets (RDKit.pdf) are up-to-date make[3]: Leaving directory '/<>/Docs/Book/_build/latex' pdflatex finished; the PDF files are in _build/latex. make[2]: Leaving directory '/<>/Docs/Book' make[1]: Leaving directory '/<>' debian/rules override_dh_auto_test make[1]: Entering directory '/<>' cp -r rdkit obj-*/ find /<> -name rdchem.so /<>/obj-arm-linux-gnueabihf/rdkit/Chem/rdchem.so #export RDBASE=/<> PYTHONPATH=/<>/obj-arm-linux-gnueabihf/ LD_LIBRARY_PATH="/<>/obj-arm-linux-gnueabihf//lib:" PYTHONPATH=/<>/obj-arm-linux-gnueabihf/:/<>/obj-arm-linux-gnueabihf//rdkit/Chem/ LD_LIBRARY_PATH="/<>/obj-arm-linux-gnueabihf//lib:" dh_auto_test cd obj-arm-linux-gnueabihf && make -j4 test ARGS\+=--verbose ARGS\+=-j4 make[2]: Entering directory '/<>/obj-arm-linux-gnueabihf' Running tests... /usr/bin/ctest --force-new-ctest-process --verbose -j4 UpdateCTestConfiguration from :/<>/obj-arm-linux-gnueabihf/DartConfiguration.tcl Parse Config file:/<>/obj-arm-linux-gnueabihf/DartConfiguration.tcl Add coverage exclude regular expressions. UpdateCTestConfiguration from :/<>/obj-arm-linux-gnueabihf/DartConfiguration.tcl Parse Config file:/<>/obj-arm-linux-gnueabihf/DartConfiguration.tcl Test project /<>/obj-arm-linux-gnueabihf Constructing a list of tests Done constructing a list of tests Updating test list for fixtures Added 0 tests to meet fixture requirements Checking test dependency graph... Checking test dependency graph end test 1 Start 1: testCoordGen 1: Test command: /<>/obj-arm-linux-gnueabihf/External/CoordGen/testCoordGen 1: Working Directory: /<>/obj-arm-linux-gnueabihf/External/CoordGen 1: Test timeout computed to be: 1500 test 2 Start 2: pyCoordGen 2: Test command: /usr/bin/python3.12 "/<>/External/CoordGen/Wrap/testCoordGen.py" 2: Working Directory: /<>/obj-arm-linux-gnueabihf/External/CoordGen/Wrap 2: Test timeout computed to be: 1500 test 3 Start 3: testDict 3: Test command: /<>/obj-arm-linux-gnueabihf/Code/RDGeneral/testDict 3: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/RDGeneral 3: Test timeout computed to be: 1500 test 4 Start 4: testRDValue 4: Test command: /<>/obj-arm-linux-gnueabihf/Code/RDGeneral/testRDValue 4: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/RDGeneral 4: Test timeout computed to be: 1500 3: [01:18:45] Testing Github940: property dictionaries leaking memory 3: [01:18:45] done 3: Testing RDValue 3: Testing RDAny 3: dict set int vect 3: dict get int vect 4: -- running tests -- 4: min: -2147483648 -2147483648 4: min: 0 0 4: min: 2.22507e-308 2.22507e-308 4: min: 1.17549e-38 1.17549e-38 4: min: 0 0 4: == int 4: == double 4: == float 4: == unsigned int 4: == bool 4: == std::string 1/222 Test #4: testRDValue ............................ Passed 0.01 sec test 5 Start 5: testConcurrentQueue 5: Test command: /<>/obj-arm-linux-gnueabihf/Code/RDGeneral/testConcurrentQueue 5: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/RDGeneral 5: Test timeout computed to be: 1500 5: [01:18:45] 5: ----------------------------------------- 5: [01:18:45] Finished: testPushAndPop() 5: [01:18:45] 5: ----------------------------------------- 5: [01:18:45] 5: ----------------------------------------- 1: core 1: RDKit 2D 1: 1: 4 4 0 0 0 0 0 0 0 0999 V2000 1: 0.6824 0.1850 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.1850 -0.6824 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.6824 -0.1850 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.1850 0.6824 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 1 1 0 1: M END 1: 1: core+sidechain 1: RDKit 2D 1: 1: 7 7 0 0 0 0 0 0 0 0999 V2000 1: 0.6496 0.9080 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.3926 -0.0584 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4726 -0.5600 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.3396 -0.0616 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.2048 -0.5634 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.3590 -0.3156 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.6160 0.6508 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 2 6 1 0 1: 6 7 1 0 1: 7 1 1 0 1: M END 1: 1: templated 1: RDKit 2D 1: 1: 7 7 0 0 0 0 0 0 0 0999 V2000 1: 0.6824 0.1850 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.1850 -0.6824 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0000 0.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0000 0.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0000 0.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.6824 -0.1850 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.1850 0.6824 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 2 6 1 0 1: 6 7 1 0 1: 7 1 1 0 1: M END 1: 1: core 1: RDKit 2D 1: 1: 10 10 0 0 0 0 0 0 0 0999 V2000 1: -1.2956 -1.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.2984 -0.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4338 0.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4366 1.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4280 1.7512 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.2956 1.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.2984 0.2536 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4338 -0.2488 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4366 -1.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4280 -1.7512 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 5 6 1 0 1: 6 7 1 0 1: 7 8 1 0 1: 8 9 1 0 1: 9 10 1 0 1: 10 1 1 0 1: M END 1: 1: core+sidechain 1: RDKit 2D 1: 1: 12 12 0 0 0 0 0 0 0 0999 V2000 1: 0.2846 -0.7516 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.2790 -1.7516 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.5898 -2.2466 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.4530 -1.7418 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.4476 -0.7418 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.5788 -0.2468 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.5732 0.7532 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.2956 1.2484 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.3012 2.2482 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.1700 2.7434 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.1590 0.7434 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.1534 -0.2564 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 5 6 1 0 1: 6 7 1 0 1: 7 8 1 0 1: 8 9 1 0 1: 9 10 1 0 1: 8 11 1 0 1: 11 12 1 0 1: 12 1 1 0 1: M END 1: 1: templated 1: RDKit 2D 1: 1: 12 12 0 0 0 0 0 0 0 0999 V2000 1: -1.2984 -0.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4338 0.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4366 1.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4280 1.7512 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.2956 1.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.2984 0.2536 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4338 -0.2488 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4366 -1.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0000 0.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0000 0.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4280 -1.7512 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.2956 -1.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 5 6 1 0 1: 6 7 1 0 1: 7 8 1 0 1: 8 9 1 0 1: 9 10 1 0 1: 8 11 1 0 1: 11 12 1 0 1: 12 1 1 0 1: M END 1: 1: core 1: RDKit 2D 1: 1: 10 10 0 0 0 0 0 0 0 0999 V2000 1: -1.2956 -1.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.2984 -0.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4338 0.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4366 1.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4280 1.7512 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.2956 1.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.2984 0.2536 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4338 -0.2488 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4366 -1.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4280 -1.7512 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 5 6 1 0 1: 6 7 1 0 1: 7 8 1 0 1: 8 9 1 0 1: 9 10 1 0 1: 10 1 1 0 1: M END 1: 1: core+sidechain 1: RDKit 2D 1: 1: 16 16 0 0 0 0 0 0 0 0999 V2000 1: 1.7868 0.7799 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.6532 1.2791 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 3.5187 0.7785 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 3.5180 -0.2215 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.6515 -0.7209 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.7860 -0.2201 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.9195 -0.7195 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0539 -0.2189 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.8124 -0.7181 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.6780 -0.2175 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.5445 -0.7167 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -3.4101 -0.2161 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -4.2764 -0.7153 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -5.1421 -0.2147 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0547 0.7811 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.9211 1.2805 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 5 6 1 0 1: 6 7 1 0 1: 7 8 1 0 1: 8 9 1 0 1: 9 10 1 0 1: 10 11 1 0 1: 11 12 1 0 1: 12 13 1 0 1: 13 14 1 0 1: 8 15 1 0 1: 15 16 1 0 1: 16 1 1 0 1: M END 1: 1: templated 1: RDKit 2D 1: 1: 16 16 0 0 0 0 0 0 0 0999 V2000 1: -1.2984 -0.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4338 0.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4366 1.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4280 1.7512 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.2956 1.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.2984 0.2536 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4338 -0.2488 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4366 -1.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0000 0.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0000 0.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0000 0.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0000 0.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0000 0.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0000 0.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4280 -1.7512 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.2956 -1.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 5 6 1 0 1: 6 7 1 0 1: 7 8 1 0 1: 8 9 1 0 1: 9 10 1 0 1: 10 11 1 0 1: 11 12 1 0 1: 12 13 1 0 1: 13 14 1 0 1: 8 15 1 0 1: 15 16 1 0 1: 16 1 1 0 1: M END 1: 1: core 1: RDKit 2D 1: 1: 9 10 0 0 0 0 0 0 0 0999 V2000 1: 0.6718 -0.9994 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.5374 -0.4988 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.5366 0.5012 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.6702 1.0006 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.1954 0.4998 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.1946 -0.5002 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.1454 -0.8098 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.7338 -0.0014 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.1466 0.8082 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 5 6 1 0 1: 6 7 1 0 1: 7 8 1 0 1: 8 9 1 0 1: 6 1 1 0 1: 9 5 1 0 1: M END 1: 1: core+sidechain 1: RDKit 2D 1: 1: 19 21 0 0 0 0 0 0 0 0999 V2000 1: -0.5657 -0.9286 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.4321 -0.4294 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.2977 -0.9300 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.2969 -1.9300 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -3.1625 -2.4306 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.4329 0.5708 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.5673 1.0714 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.5681 2.0714 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.2975 2.5720 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.2975 2.5728 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.7969 3.4386 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.2991 0.5720 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.2999 -0.4278 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.2513 -0.7362 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.5609 -1.6870 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.5393 -1.8942 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.8923 -2.4306 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.8381 0.0734 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.2499 0.8820 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 2 6 1 0 1: 6 7 1 0 1: 7 8 1 0 1: 8 9 1 0 1: 9 10 1 0 1: 10 11 1 0 1: 7 12 1 0 1: 12 13 1 0 1: 13 14 1 0 1: 14 15 1 0 1: 15 16 1 0 1: 15 17 1 0 1: 14 18 1 0 1: 18 19 1 0 1: 13 1 1 0 1: 19 12 1 0 1: 11 9 1 0 1: M END 1: 1: templated 1: RDKit 2D 1: 1: 19 21 0 0 0 0 0 0 0 0999 V2000 1: 0.5360 -0.9365 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.4021 -0.4366 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.2680 -0.9366 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.2680 -1.9366 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.4020 -2.4366 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.4021 0.5634 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.5360 1.0633 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.5360 2.0634 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.3300 2.5633 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.3300 2.5633 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.8300 3.4295 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.3300 0.5634 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.3300 -0.4366 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.2812 -0.7457 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.5900 -1.6966 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.9208 -2.4398 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.5682 -1.9046 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.8686 0.0634 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.2812 0.8725 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 2 6 1 0 1: 6 7 1 0 1: 7 8 1 0 1: 8 9 1 0 1: 9 10 1 0 1: 10 11 1 0 1: 7 12 1 0 1: 12 13 1 0 1: 13 14 1 0 1: 14 15 1 0 1: 15 16 1 0 1: 15 17 1 0 1: 14 18 1 0 1: 18 19 1 0 1: 13 1 1 0 1: 19 12 1 0 1: 11 9 1 0 1: M END 1: 1: core 1: RDKit 2D 1: 1: 5 4 0 0 0 0 0 0 0 0999 V2000 1: 1.2134 -0.4976 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.3464 0.0006 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.3444 1.0006 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.5186 -0.5010 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.3856 -0.0028 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 2 4 1 0 1: 4 5 1 0 1: M END 1: 1: core+sidechain 1: RDKit 2D 1: 1: 7 6 0 0 0 0 0 0 0 0999 V2000 1: -1.7333 -0.5679 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.8661 -0.0697 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.8641 0.9303 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.0011 -0.5713 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.8659 -0.0731 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.8679 0.9269 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.7309 -0.5749 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 2 4 1 0 1: 4 5 1 0 1: 5 6 1 0 1: 5 7 1 0 1: M END 1: 1: templated 1: RDKit 2D 1: 1: 7 6 0 0 0 0 0 0 0 0999 V2000 1: 1.2227 -0.4921 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.3464 0.0006 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.3350 1.0058 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.5185 -0.5117 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.3902 -0.0216 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.2506 -0.5314 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.4014 0.9784 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 2 4 1 0 1: 4 5 1 0 1: 5 6 1 0 1: 5 7 1 0 1: M END 1: 1: test1 1: RDKit 2D 1: 1: 12 12 0 0 0 0 0 0 0 0999 V2000 1: -0.2902 0.4155 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.5740 0.9187 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.4418 0.4219 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.3060 0.9249 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.3024 1.9249 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.4454 -0.5781 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.5812 -1.0813 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.2866 -0.5843 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.1508 -1.0875 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.0186 -0.5905 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.0222 0.4095 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.8828 -1.0937 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 2 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 3 6 2 0 1: 6 7 1 0 1: 7 8 2 0 1: 8 9 1 0 1: 9 10 1 0 1: 10 11 2 0 1: 10 12 1 0 1: 8 1 1 0 1: M END 1: 1: test2 1: RDKit 2D 1: 1: 5 4 0 0 0 0 0 0 0 0999 V2000 1: -0.4980 0.7210 0.0000 Cl 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.0004 -0.1464 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.8678 -0.6440 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.5020 0.7182 0.0000 F 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.8642 -0.6488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 2 4 1 0 1: 2 5 1 0 1: M END 1: 3: static boost any:0.126154 s 1: cyclosporine a 1: RDKit 2D 1: 1: 85 85 0 0 0 0 0 0 0 0999 V2000 1: 1.4840 -0.8529 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.6174 -1.3521 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.6176 -2.3509 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.4860 -2.8479 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.4912 -3.8491 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.3504 -2.3385 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.3352 -1.3311 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 3.1902 -0.7993 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 3.1580 0.1961 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 4.0642 -1.2607 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 4.9260 -0.7295 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 4.9144 0.3303 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 5.7766 0.8337 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 4.0008 0.8409 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 3.8596 1.9125 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.8162 2.2071 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.2038 1.4219 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.2560 3.1855 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.5280 4.2325 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.7128 4.8927 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.8530 5.8895 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.7676 4.5077 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.0820 5.0835 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.9744 4.6151 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.8344 5.1337 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.9792 3.6203 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.8192 3.0813 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.7974 3.5817 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.7998 4.5809 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: -3.7790 3.0789 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -3.8812 2.0705 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -3.1202 1.6015 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.4194 2.0931 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: -3.0590 0.6211 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -3.8626 0.0983 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -3.8096 -0.8961 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -4.6470 -1.4375 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.9122 -1.3587 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.8776 -2.3565 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.9982 -2.8425 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.1382 -2.3311 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.9886 -3.8459 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.1202 -4.3461 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.2526 -3.8491 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.6116 -4.3521 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.2494 -2.8505 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.1228 -5.3475 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.2584 -5.8507 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.6092 -5.3541 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.2624 -6.8511 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.6018 -7.3547 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.5982 -8.3547 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.4624 -8.8579 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.9906 -5.8449 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.8520 -4.3501 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -3.7288 -2.8719 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -3.7098 -3.8701 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -4.6032 -2.3871 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.0646 -0.8235 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -4.7362 0.5679 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -5.5794 0.0605 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -5.5618 -0.9361 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -6.4498 0.5487 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.1628 0.1727 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -4.7698 1.6253 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -5.5952 2.1745 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -6.4896 1.7311 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -5.5292 3.1711 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -4.6054 3.6407 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.7186 2.0867 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.0328 6.0847 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 3.4396 4.6417 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 3.4580 5.6909 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 4.3220 6.1985 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.5836 6.2065 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.2682 3.0557 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 4.6630 2.5215 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 5.5876 2.1073 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 4.5648 3.5065 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 5.7968 -1.2481 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 6.6786 -0.7913 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 7.5218 -1.3355 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 6.7252 0.2017 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 4.0970 -2.2659 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 3.2220 -2.8307 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 3 2 1 1 1: 3 4 1 0 1: 4 5 2 0 1: 4 6 1 0 1: 6 7 1 0 1: 7 8 1 0 1: 8 9 2 0 1: 8 10 1 0 1: 10 11 1 0 1: 11 12 1 0 1: 12 13 2 0 1: 12 14 1 0 1: 14 15 1 0 1: 15 16 1 0 1: 16 17 2 0 1: 16 18 1 0 1: 18 19 1 0 1: 19 20 1 0 1: 20 21 2 0 1: 20 22 1 0 1: 22 23 1 0 1: 23 24 1 0 1: 24 25 2 0 1: 24 26 1 0 1: 26 27 1 0 1: 27 28 1 0 1: 28 29 2 0 1: 28 30 1 0 1: 30 31 1 0 1: 31 32 1 0 1: 32 33 2 0 1: 32 34 1 0 1: 34 35 1 0 1: 35 36 1 0 1: 36 37 2 0 1: 36 38 1 0 1: 38 39 1 0 1: 39 40 1 0 1: 40 41 2 0 1: 40 42 1 0 1: 43 42 1 6 1: 43 44 1 0 1: 44 45 2 0 1: 44 46 1 0 1: 43 47 1 0 1: 47 48 1 0 1: 48 49 1 6 1: 48 50 1 0 1: 50 51 1 0 1: 51 52 2 0 1: 52 53 1 0 1: 47 54 1 1 1: 42 55 1 0 1: 39 56 1 6 1: 56 57 1 0 1: 56 58 1 0 1: 38 59 1 0 1: 35 60 1 6 1: 60 61 1 0 1: 61 62 1 0 1: 61 63 1 0 1: 34 64 1 0 1: 31 65 1 6 1: 65 66 1 0 1: 66 67 1 0 1: 66 68 1 0 1: 30 69 1 0 1: 27 70 1 6 1: 23 71 1 6 1: 19 72 1 6 1: 72 73 1 0 1: 73 74 1 0 1: 73 75 1 0 1: 18 76 1 0 1: 15 77 1 6 1: 77 78 1 0 1: 77 79 1 0 1: 11 80 1 6 1: 80 81 1 0 1: 81 82 1 0 1: 81 83 1 0 1: 10 84 1 0 1: 6 85 1 0 1: 46 3 1 0 1: M END 1: 1: single-double 1: RDKit 2D 1: 1: 17 16 0 0 0 0 0 0 0 0999 V2000 1: -6.9282 -0.2298 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -6.0618 0.2696 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -5.1962 -0.2312 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -4.3298 0.2682 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -3.4642 -0.2326 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.5978 0.2668 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.7322 -0.2340 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.8658 0.2654 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.0002 -0.2352 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.8662 0.2640 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.7318 -0.2366 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.5982 0.2626 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 3.4638 -0.2380 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 4.3302 0.2612 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 5.1958 -0.2394 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 6.0622 0.2598 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 6.9278 -0.2408 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 5 6 2 3 1: 6 7 1 0 1: 7 8 1 0 1: 8 9 1 0 1: 9 10 1 0 1: 10 11 2 3 1: 11 12 1 0 1: 12 13 2 3 1: 13 14 1 0 1: 14 15 2 3 1: 15 16 1 0 1: 16 17 1 0 1: M END 1: 1: cis-trans 1: RDKit 2D 1: 1: 10 9 0 0 0 0 0 0 0 0999 V2000 1: -3.6370 -0.2028 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.7706 -0.7022 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.9050 -0.2016 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.0386 -0.7008 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.1730 -0.2002 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.6934 -0.6994 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.5590 -0.1988 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.5582 0.8012 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.4238 1.3020 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 3.2902 0.8026 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 2 0 1: 3 4 1 0 1: 4 5 2 0 1: 5 6 1 0 1: 6 7 2 0 1: 7 8 1 0 1: 8 9 2 0 1: 9 10 1 0 1: M END 1: 1: admntn 1: RDKit 2D 1: 1: 10 12 0 0 0 0 0 0 0 0999 V2000 1: 1.3505 -0.5360 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.5267 -1.1020 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4629 -1.0366 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.7523 0.0052 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.4741 0.5660 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4761 0.5032 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.3505 1.0730 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.0611 0.5080 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0643 0.5686 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.1877 -0.5490 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 5 6 1 0 1: 6 7 1 0 1: 7 8 1 0 1: 8 9 1 0 1: 6 10 1 0 1: 8 1 1 0 1: 9 4 1 0 1: 10 2 1 0 1: M END 1: 1: github 4845 - nan coordinates but no crash 1: RDKit 2D 1: 1: 42 44 0 0 0 0 0 0 0 0999 V2000 1: nan nan nan H 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan H 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan H 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan H 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan H 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan H 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan O 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan H 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan H 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan O 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan H 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan H 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 2 4 2 0 1: 4 5 1 0 1: 5 6 3 0 1: 6 7 1 0 1: 7 8 2 0 1: 8 9 1 0 1: 9 10 3 0 1: 10 11 1 0 1: 11 12 2 0 1: 12 13 1 0 1: 13 14 3 0 1: 14 15 1 0 1: 15 16 2 0 1: 16 17 1 0 1: 16 18 1 0 1: 12 19 1 0 1: 19 20 2 0 1: 20 21 1 0 1: 20 22 1 0 1: 19 23 1 0 1: 23 24 3 0 1: 24 25 1 0 1: 25 26 1 0 1: 26 27 2 0 1: 27 28 2 0 1: 26 29 1 0 1: 29 30 3 0 1: 8 31 1 0 1: 31 32 2 0 1: 32 33 1 0 1: 32 34 1 0 1: 31 35 1 0 1: 35 36 3 0 1: 36 37 1 0 1: 37 38 2 0 1: 37 39 1 0 1: 39 40 2 0 1: 40 41 1 0 1: 40 42 1 0 1: 39 4 1 0 1: 15 7 1 0 1: 30 11 1 0 1: M END 1: 2/222 Test #1: testCoordGen ........................... Passed 0.71 sec test 6 Start 6: dictTestsCatch 6: Test command: /<>/obj-arm-linux-gnueabihf/Code/RDGeneral/dictTestsCatch 6: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/RDGeneral 6: Test timeout computed to be: 1500 6: Randomness seeded to: 1992153207 6: =============================================================================== 6: All tests passed (32 assertions in 2 test cases) 6: 3/222 Test #6: dictTestsCatch ......................... Passed 0.01 sec test 7 Start 7: logTestsCatch 7: Test command: /<>/obj-arm-linux-gnueabihf/Code/RDGeneral/logTestsCatch 7: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/RDGeneral 7: Test timeout computed to be: 1500 7: [01:18:45] should not be silent 7: [01:18:45] should not be silent 7: Randomness seeded to: 4002765803 7: [01:18:45] should not be silent 7: [01:18:45] should not be silent 7: [01:18:45] should not be silent 7: [01:18:45] should not be silent 7: [01:18:45] should not be silent 7: [01:18:45] should not be silent 7: [01:18:45] should not be silent 7: [01:18:45] should not be silent 7: =============================================================================== 7: All tests passed (26 assertions in 3 test cases) 7: 4/222 Test #7: logTestsCatch .......................... Passed 0.01 sec test 8 Start 8: testDataStructs 8: Test command: /<>/obj-arm-linux-gnueabihf/Code/DataStructs/testDataStructs 8: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/DataStructs 8: Test timeout computed to be: 1500 8: 10, 11, 14, 8: t1: 10, 11, 14, 8: t2: 10, 11, 15, 17, 8: t1|t2: 10, 11, 14, 15, 17, 8: t1&t2: 10, 11, 8: t1^t2: 14, 15, 17, 8: ~t1: 0, 1, 2, 3, 4, 5, 6, 7, 8, 9, 12, 13, 15, 16, 17, 18, 19, 8: except 8: 10, 11, 14, 8: t1: 10, 11, 14, 8: t2: 10, 11, 15, 17, 8: t1|t2: 10, 11, 14, 15, 17, 8: t1&t2: 10, 11, 8: t1^t2: 14, 15, 17, 8: ~t1: 0, 1, 2, 3, 4, 5, 6, 7, 8, 9, 12, 13, 15, 16, 17, 18, 19, 8: except 5/222 Test #8: testDataStructs ........................ Passed 0.02 sec test 9 Start 9: testFPB 9: Test command: /<>/obj-arm-linux-gnueabihf/Code/DataStructs/testFPB 9: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/DataStructs 9: Test timeout computed to be: 1500 6/222 Test #9: testFPB ................................ Passed 0.01 sec test 10 Start 10: testMultiFPB 10: Test command: /<>/obj-arm-linux-gnueabihf/Code/DataStructs/testMultiFPB 10: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/DataStructs 10: Test timeout computed to be: 1500 7/222 Test #10: testMultiFPB ........................... Passed 0.02 sec test 11 Start 11: pyBV 11: Test command: /usr/bin/python3.12 "/<>/Code/DataStructs/Wrap/testBV.py" 11: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/DataStructs/Wrap 11: Test timeout computed to be: 1500 3: dynamic boost any:0.679915 s 3: static RDAny:0.058704 s 8/222 Test #2: pyCoordGen .............................***Exception: SegFault 1.27 sec test 12 Start 12: pyDiscreteValueVect 12: Test command: /usr/bin/python3.12 "/<>/Code/DataStructs/Wrap/testDiscreteValueVect.py" 12: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/DataStructs/Wrap 12: Test timeout computed to be: 1500 3: dynamic RDAny:0.7688 s 3: static RDValue:2e-06 s 12: ...... 12: ---------------------------------------------------------------------- 12: Ran 6 tests in 0.006s 12: 12: OK 3: dynamic RDValue:0.117774 s 3: deleted! 3: [01:18:46] ------------------------------------- 3: [01:18:46] Testing String Pickle Roundtrips. 3: [01:18:46] done 3: [01:18:46] ------------------------------------- 3: [01:18:46] Testing conversion of vect to string. 3: [01:18:46] done 3: [01:18:46] ------------------------------------- 3: [01:18:46] Testing returning const references. 3: [01:18:46] any cast 3: [01:18:46] done: 0.001073 300000 3: [01:18:46] copy 3: [01:18:46] done: 0.001067 300000 3: [01:18:46] ref 3: [01:18:46] done: 0.001044 300000 3: [01:18:46] dict 3: [01:18:46] done: 0.008868 300000 3: [01:18:46] ref with hasVal 3: [01:18:46] done: 0.003073 300000 3: [01:18:46] done 3: [01:18:46] ------------------------------------- 3: [01:18:46] Testing dict update. 3: [01:18:46] done 3: deleted! 3: deleted! 3: deleted! 3: deleted! 3: deleted! 3: deleted! 9/222 Test #3: testDict ............................... Passed 1.79 sec test 13 Start 13: pySparseIntVect 13: Test command: /usr/bin/python3.12 "/<>/Code/DataStructs/Wrap/testSparseIntVect.py" 13: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/DataStructs/Wrap 13: Test timeout computed to be: 1500 10/222 Test #12: pyDiscreteValueVect .................... Passed 0.57 sec test 14 Start 14: pyFPB 14: Test command: /usr/bin/python3.12 "/<>/Code/DataStructs/Wrap/testFPB.py" 14: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/DataStructs/Wrap 14: Test timeout computed to be: 1500 13: ......... 13: ---------------------------------------------------------------------- 13: Ran 9 tests in 0.018s 13: 13: OK 14: ......... 14: ---------------------------------------------------------------------- 14: Ran 9 tests in 0.010s 14: 14: OK 11/222 Test #13: pySparseIntVect ........................ Passed 0.57 sec test 15 Start 15: testTransforms 15: Test command: /<>/obj-arm-linux-gnueabihf/Code/Geometry/testTransforms 15: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/Geometry 15: Test timeout computed to be: 1500 15: **************************************** 15: testPointND 15: **************************************** 15: testPointOps3D 15: **************************************** 15: testPointOps2D 15: **************************************** 15: test12D 15: ref1: 0.955177 3.3186 ref2: 1.88724 0.711525 15: pt1: 3.53837 0.462033 pt2: 3.22243 4.36345 15: **************************************** 15: test23D 15: **************************************** 15: test3MatMultiply 15: Pt1: 1 0 0 Pt2: 2 0 0 15: -Pt1: -1 -0 -0 15: tp1: 0 0 0 tp2: 0 0 0 15: tp1: 0 0 0 tp2: 0 0 0 15: tp1: 0 0 3 tp2: 0 0 3 15: npt1: 0 0 3 npt2: 0 0 4 15: Pt1: 0 0 3 Pt2: 6.12323e-17 0 4 15: **************************************** 15: testFromQuaternion 15: **************************************** 12/222 Test #15: testTransforms ......................... Passed 0.02 sec test 16 Start 16: testGrid 16: Test command: /<>/obj-arm-linux-gnueabihf/Code/Geometry/testGrid 16: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/Geometry 16: Test timeout computed to be: 1500 13/222 Test #14: pyFPB .................................. Passed 0.55 sec test 17 Start 17: geometryTestsCatch 17: Test command: /<>/obj-arm-linux-gnueabihf/Code/Geometry/geometryTestsCatch 17: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/Geometry 17: Test timeout computed to be: 1500 17: Randomness seeded to: 1250002315 17: =============================================================================== 17: All tests passed (50 assertions in 5 test cases) 17: 14/222 Test #17: geometryTestsCatch ..................... Passed 0.01 sec test 18 Start 18: testPyGeometry 18: Test command: /usr/bin/python3.12 "/<>/Code/Geometry/Wrap/testGeometry.py" 18: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/Geometry/Wrap 18: Test timeout computed to be: 1500 16: *********************************************************** 16: Testing Grid 16: --------------------------------- 16: testUniformGrid1 16: 16: --------------------------------- 16: testUniformGrid2 16: 16: --------------------------------- 16: testUniformGridPickling 16: 16: --------------------------------- 16: testGridOps 16: 16: --------------------------------- 16: testUniformGridIndexing 16: 15/222 Test #16: testGrid ............................... Passed 0.11 sec test 19 Start 19: testMatrices 19: Test command: /<>/obj-arm-linux-gnueabihf/Code/Numerics/testMatrices 19: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/Numerics 19: Test timeout computed to be: 1500 19: [01:18:47] ----------------------------------------- 19: [01:18:47] Testing RDNumerics: vectors and matrices Code 19: [01:18:47] --------------------------------------- 19: [01:18:47] test1Vector 19: [01:18:47] --------------------------------------- 19: [01:18:47] test2Matrix 19: [01:18:47] --------------------------------------- 19: [01:18:47] test3SquareMatrix 19: [01:18:47] --------------------------------------- 19: [01:18:47] test4SymmMatrix 16/222 Test #19: testMatrices ........................... Passed 0.01 sec test 20 Start 20: testConrec 20: Test command: /<>/obj-arm-linux-gnueabihf/Code/Numerics/testConrec 20: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/Numerics 20: Test timeout computed to be: 1500 20: Randomness seeded to: 1676932936 20: =============================================================================== 20: All tests passed (76 assertions in 3 test cases) 20: 17/222 Test #20: testConrec ............................. Passed 0.09 sec test 21 Start 21: testAlignment 21: Test command: /<>/obj-arm-linux-gnueabihf/Code/Numerics/Alignment/testAlignment 21: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/Numerics/Alignment 21: Test timeout computed to be: 1500 21: ----------------------------------------- 21: Testing Alignment Code 21: --------------------------------------- 21: testBasic 21: --------------------------------------- 21: testTriangle 21: --------------------------------------- 21: testFourPts 21: --------------------------------------- 21: testReflection 21: --------------------------------------- 18/222 Test #21: testAlignment .......................... Passed 0.01 sec test 22 Start 22: pyAlignment 22: Test command: /usr/bin/python3.12 "/<>/Code/Numerics/Alignment/Wrap/testAlignment.py" 22: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/Numerics/Alignment/Wrap 22: Test timeout computed to be: 1500 18: ........... 18: ---------------------------------------------------------------------- 18: Ran 11 tests in 0.108s 18: 18: OK 18: Testing Geometry wrapper 19/222 Test #18: testPyGeometry ......................... Passed 0.66 sec test 23 Start 23: testOptimizer 23: Test command: /<>/obj-arm-linux-gnueabihf/Code/Numerics/Optimizer/testOptimizer 23: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/Numerics/Optimizer 23: Test timeout computed to be: 1500 23: ------------------------------------- 23: Testing linear search. 23: done 23: ------------------------------------- 23: Testing BFGS optimization. 23: done 20/222 Test #23: testOptimizer .......................... Passed 0.01 sec test 24 Start 24: testUFFForceField 24: Test command: /<>/obj-arm-linux-gnueabihf/Code/ForceField/UFF/testUFFForceField 24: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/ForceField/UFF 24: Test timeout computed to be: 1500 24: ------------------------------------- 24: Unit tests for force field basics. 24: done 24: ------------------------------------- 24: Unit tests for basics of UFF bond-stretch terms. 24: done 24: ------------------------------------- 24: Unit tests for UFF bond-stretch terms. 24: done 24: ------------------------------------- 24: Unit tests for basics of UFF angle terms. 24: done 24: ------------------------------------- 24: Unit tests for UFF angle-bend terms. 24: theta = 3.14159; theta0 = 3.14159 24: theta = 2.094395, param1.theta0 = 2.094395 24: done 24: ------------------------------------- 24: Test Simple UFF molecule optimizations. 24: done 24: ------------------------------------- 24: Unit tests for UFF nonbonded terms. 24: done 24: ------------------------------------- 24: Test UFF torsional terms. 24: done 24: ------------------------------------- 24: Test UFF Parameter objects 24: ------------------------------------- 24: Test Simple UFF molecule optimization, part 2. 24: done 24: ------------------------------------- 24: Test UFF Torsion Conflicts. 24: C 0.4783 -0.7477 -0.0753 24: C -0.5465 -0.0176 0.3519 24: C -0.5114 1.4472 0.0870 24: H -1.5201 -0.4838 0.2485 24: H 0.4696 1.8363 0.3367 24: O -1.2618 1.9423 0.6934 24: F -0.7163 1.6298 -0.9622 24: done 24: ------------------------------------- 24: Unit tests for UFF distance constraint terms. 24: done 24: ------------------------------------- 24: Unit tests for all UFF constraint terms. 22: ..... 22: ---------------------------------------------------------------------- 22: Ran 5 tests in 0.004s 22: 22: OK 22: Testing Alignment Wrapper code: 21/222 Test #22: pyAlignment ............................ Passed 0.57 sec test 25 Start 25: testMMFFForceField 25: Test command: /<>/obj-arm-linux-gnueabihf/Code/ForceField/MMFF/testMMFFForceField 25: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/ForceField/MMFF 25: Test timeout computed to be: 1500 25: ------------------------------------- 25: Official MMFF validation suite. 24: done 24: ------------------------------------- 24: Unit tests for copying UFF ForceFields. 24: done 24: ------------------------------------- 24: Unit test for UFF butane scan. 25: 25: Computing MMFF94 energies for /<>/Code/ForceField/MMFF/test_data/MMFF94_dative.sdf... 24: done 22/222 Test #24: testUFFForceField ...................... Passed 0.70 sec test 26 Start 26: pyForceFieldConstraints 26: Test command: /usr/bin/python3.12 "/<>/Code/ForceField/Wrap/testConstraints.py" 26: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/ForceField/Wrap 26: Test timeout computed to be: 1500 23/222 Test #26: pyForceFieldConstraints ................***Exception: SegFault 1.21 sec test 27 Start 27: testDistGeom 27: Test command: /<>/obj-arm-linux-gnueabihf/Code/DistGeom/testDistGeom 27: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/DistGeom 27: Test timeout computed to be: 1500 27: *********************************************************** 27: test1 27: *********************************************************** 27: testIssue216 27: Rows: 4 Columns: 4 27: 0 1 1 1 27: 1 0 1 1 27: 1 1 0 1 27: 1 1 1 0 27: *********************************************************** 27: 24/222 Test #27: testDistGeom ........................... Passed 0.02 sec test 28 Start 28: pyDistGeom 28: Test command: /usr/bin/python3.12 "/<>/Code/DistGeom/Wrap/rough_test.py" 28: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/DistGeom/Wrap 28: Test timeout computed to be: 1500 28: ...... 28: ---------------------------------------------------------------------- 28: Ran 6 tests in 0.003s 28: 28: OK 25/222 Test #28: pyDistGeom ............................. Passed 0.56 sec test 29 Start 29: graphmolTest1 29: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/graphmolTest1 29: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol 29: Test timeout computed to be: 1500 29: Atoms: 29: 0 8 O chg: 0 deg: 2 exp: 2 imp: 0 hyb: 0 arom?: 0 chi: 0 29: 1 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: 0 arom?: 0 chi: 0 29: 2 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 0 arom?: 0 chi: 0 29: 3 6 C chg: 0 deg: 1 exp: 1 imp: 3 hyb: 0 arom?: 0 chi: 0 29: 4 6 C chg: 0 deg: 1 exp: 1 imp: 3 hyb: 0 arom?: 0 chi: 0 29: 5 6 C chg: 0 deg: 1 exp: 3 imp: 1 hyb: 0 arom?: 0 chi: 0 29: 6 6 C chg: 0 deg: 2 exp: 4 imp: 0 hyb: 0 arom?: 0 chi: 0 29: 7 7 N chg: 0 deg: 2 exp: 1 imp: 2 hyb: 0 arom?: 1 chi: 0 29: 8 22 Ti chg: 0 deg: 1 exp: [01:18:50] 29: 29: **** 29: Pre-condition Violation 29: getExplicitValence() called without call to calcExplicitValence() 29: Violation occurred on line 298 in file ./Code/GraphMol/Atom.cpp 29: Failed Expression: d_explicitValence > -1 29: **** 29: 29: N/A imp: -1 hyb: 0 arom?: 0 chi: 0 29: Bonds: 29: 0 0->1 order: 1 conj?: 0 aromatic?: 0 29: 1 1->2 order: 2 conj?: 0 aromatic?: 0 29: 2 2->3 order: 1 conj?: 0 aromatic?: 0 29: 3 0->4 order: 1 conj?: 0 aromatic?: 0 29: 4 5->6 order: 3 conj?: 0 aromatic?: 0 29: 5 6->7 order: 1 conj?: 0 aromatic?: 0 29: 6 7->8 order: 2 conj?: 0 aromatic?: 0 29: [01:18:50] 29: 29: **** 29: Pre-condition Violation 29: bond already exists 29: Violation occurred on line 380 in file ./Code/GraphMol/RWMol.cpp 29: Failed Expression: !(boost::edge(atomIdx1, atomIdx2, d_graph).second) 29: **** 29: 29: [01:18:50] 29: 29: **** 29: Pre-condition Violation 29: bond already exists 29: Violation occurred on line 380 in file ./Code/GraphMol/RWMol.cpp 29: Failed Expression: !(boost::edge(atomIdx1, atomIdx2, d_graph).second) 29: **** 29: 29: [01:18:50] 29: 29: **** 29: Pre-condition Violation 29: attempt to add self-bond 29: Violation occurred on line 379 in file ./Code/GraphMol/RWMol.cpp 29: Failed Expression: atomIdx1 != atomIdx2 29: **** 29: 29: [01:18:50] 29: 29: **** 29: Pre-condition Violation 29: bond already exists 29: Violation occurred on line 441 in file ./Code/GraphMol/ROMol.cpp 29: Failed Expression: !(boost::edge(bond_pin->getBeginAtomIdx(), bond_pin->getEndAtomIdx(), d_graph) .second) 29: **** 29: 29: [01:18:50] 29: 29: **** 29: Pre-condition Violation 29: attempt to add self-bond 29: Violation occurred on line 439 in file ./Code/GraphMol/ROMol.cpp 29: Failed Expression: bond_pin->getBeginAtomIdx() != bond_pin->getEndAtomIdx() 29: **** 29: 29: [01:18:50] Explicit valence for atom # 0 B, 4, is greater than permitted 29: [01:18:50] Explicit valence for atom # 0 B, 5, is greater than permitted 29: [01:18:50] 29: 29: **** 29: Post-condition Violation 29: Element 'Xx' not found 29: Violation occurred on line 93 in file ./Code/GraphMol/PeriodicTable.h 29: Failed Expression: anum > -1 29: **** 29: 29: [01:18:50] ------------------------------------- 29: [01:18:50] Test github381: thread-safe initialization of the periodic table 29: [01:18:50] done 29: [01:18:50] ------------------------------------- 29: [01:18:50] Test github1041: Segfault for atom with no owner (expect some warnings) 29: [01:18:50] 29: 29: **** 29: Pre-condition Violation 29: no owner 29: Violation occurred on line 138 in file ./Code/GraphMol/Atom.h 29: Failed Expression: dp_mol 29: **** 29: 29: [01:18:50] 29: 29: **** 29: Pre-condition Violation 29: no owner 29: Violation occurred on line 185 in file ./Code/GraphMol/Bond.h 29: Failed Expression: dp_mol 29: **** 29: 29: [01:18:50] done 29: [01:18:50] ------------------------------------- 29: [01:18:50] Test github1041: Segfault for atom with no owner (expect some warnings) 29: [01:18:50] 29: 29: **** 29: Pre-condition Violation 29: no owner 29: Violation occurred on line 138 in file ./Code/GraphMol/Atom.h 29: Failed Expression: dp_mol 29: **** 29: 29: [01:18:50] 29: 29: **** 29: Pre-condition Violation 29: no owner 29: Violation occurred on line 185 in file ./Code/GraphMol/Bond.h 29: Failed Expression: dp_mol 29: **** 29: 29: [01:18:50] done 29: [01:18:50] ------------------------------------- 29: [01:18:50] Test github1453: RWMol.clear() should reset the numBonds count. 29: [01:18:50] done 29: [01:18:50] ------------------------------------- 29: [01:18:50] Test range-based for loops. 29: [01:18:50] done 29: [01:18:50] ------------------------------------- 29: [01:18:50] Test github1642: Atom index type is too low for big molecules. 25: Checking against /<>/Code/ForceField/MMFF/test_data/MMFF94_reference.log... 25: All 191 tests passed 25: 25: Computing MMFF94 energies for /<>/Code/ForceField/MMFF/test_data/MMFF94_hypervalent.sdf... 11: .................. 11: ---------------------------------------------------------------------- 11: Ran 18 tests in 9.541s 11: 11: OK 26/222 Test #11: pyBV ................................... Passed 10.11 sec test 30 Start 30: graphmolcpTest 30: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/graphmolcpTest 30: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol 30: Test timeout computed to be: 1500 30: 30: 30: 30: COPY 27/222 Test #30: graphmolcpTest ......................... Passed 0.03 sec test 31 Start 31: graphmolqueryTest 31: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/graphmolqueryTest 31: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol 31: Test timeout computed to be: 1500 31: [01:18:56] ---------------------- Test1 31: [01:18:56] Done! 31: [01:18:56] ---------------------- Test2 31: [01:18:56] Done! 31: [01:18:56] ---------------------- Test3 31: [01:18:56] Done! 31: [01:18:56] ---------------------- Test4 31: [01:18:56] Done! 31: [01:18:56] ---------------------- Test5 31: [01:18:56] Done! 31: [01:18:56] Done! 31: [01:18:56] ---------------------- Test issue 2892580 31: [01:18:56] Done! 31: [01:18:56] ---------------------- Test github issue 53: query molecules not matching [R] 31: [01:18:56] Done! 31: [01:18:56] ---------------------- Test queries using qualifiers instead of == 31: [01:18:56] Done! 31: [01:18:56] ---------------------- Test Github issue 165: radicals not used in atom-atom matching 31: [01:18:56] Done! 31: [01:18:56] ---------------------- Test extra atom queries 31: [01:18:56] Done! 31: [01:18:56] ---------------------- Test extra bond queries 31: [01:18:56] Done! 31: [01:18:56] ---------------------- Test num heteroatom neighbor queries 31: [01:18:56] Done! 31: [01:18:56] ---------------------- Test atom type queries 31: [01:18:56] Done! 31: [01:18:56] ---------------------- Test Github #2471: dummy atom queries are flagged as complex 31: [01:18:56] Done! 31: [01:18:56] ---------------------- Testing hasBondTypeQuery() and hasComplexBondTypeQuery() 31: [01:18:56] Done! 28/222 Test #31: graphmolqueryTest ...................... Passed 0.04 sec test 32 Start 32: graphmolMolOpsTest 32: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/graphmolMolOpsTest 32: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol 32: Test timeout computed to be: 1500 32: 1 1 2 32: 1 1 1 32: 2 1 0.75 32: path: 2 32: [01:18:56] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 10 ignored 32: [01:18:56] Warning: ambiguous stereochemistry - linear bond arrangement - at atom 13 ignored 32: [01:18:56] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 10 ignored 32: [01:18:56] Explicit valence for atom # 0 B, 5, is greater than permitted 32: [01:18:56] Explicit valence for atom # 1 C, 5, is greater than permitted 32: [01:18:56] Explicit valence for atom # 1 C, 5, is greater than permitted 32: [01:18:56] Explicit valence for atom # 1 C, 5, is greater than permitted 32: [01:18:56] Explicit valence for atom # 1 Si, 7, is greater than permitted 32: smi: Cc1ccc(S(=O)(=O)/N=C2\CC(=N\C(C)(C)C)/C2=N\C(C)(C)C)cc1 32: [01:18:56] non-ring atom 0 marked aromatic 32: [01:18:56] non-ring atom 0 marked aromatic 32: [01:18:56] Conflicting single bond directions around double bond at index 17. 32: [01:18:56] BondStereo set to STEREONONE and single bond directions set to NONE. 32: starting ring finding 32: done 32: starting ring finding 32: done 32: starting ring finding 32: done 32: C/C=N/c1ccc(cc1)c1cc2cc(c1)c1ccc(cc1)N=Cc1ccc(cc1)c1cc(cc(c1)c1ccc(cc1)C)c1ccc(cc1)C=Nc1ccc(cc1)c1cc(cc(c1)c1ccc(cc1)/N=C/C)c1ccc(cc1)N=Cc1ccc(cc1)c1cc(c3ccc(C=Nc4ccc(c5cc6c7ccc(N=Cc8ccc(c9cc(c%10ccc(C=Nc%11ccc2cc%11)cc%10)cc(c9)c2ccc(cc2)C=Nc2ccc(cc2)c2cc(cc(c2)c2ccc(cc2)N=Cc2ccc(cc2)c2cc(cc(c2)c2ccc(cc2)C)c2ccc(cc2)C=Nc2ccc(cc2)c2cc(c9ccc(N=Cc%10ccc(c%11cc(c%12ccc(C=Nc%13ccc(c(c6)c5)cc%13)cc%12)cc(c%11)c5ccc(cc5)C)cc%10)cc9)cc(c2)c2ccc(cc2)/N=C/C)c2ccc(cc2)/N=C/C)cc8)cc7)cc4)cc3)cc(c1)c1ccc(cc1)C 32: starting sanitization 32: done 32: starting sanitization 32: done 32: starting ring finding 32: done 32: starting ring finding 32: done 32: smiles: CC[C@]1(C(=O)c([nH])n)CC[C@](C)(O)CC1 32: [01:18:56] WARNING: not removing hydrogen atom with dummy atom neighbors 32: ------------------------------- 32: [01:18:56] Explicit valence for atom # 0 N, 4, is greater than permitted 32: [01:18:56] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 32: [01:18:56] Can't kekulize mol. Unkekulized atoms: 6 7 8 9 10 32: [01:18:56] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 32: [01:18:56] WARNING: merging explicit H queries involved in ORs is not supported. This query will not be merged 32: [01:18:56] WARNING: not removing hydrogen atom with dummy atom neighbors 32: [01:18:57] Maximum BFS search size exceeded. 32: This is likely due to a highly symmetric fused ring system. 32: [01:18:57] Maximum BFS search size exceeded. 32: This is likely due to a highly symmetric fused ring system. 32: F/C=C/Cl 32: [H]/C(F)=C(/[H])Cl 32: F/C=C/Cl 32: F/C=C/Cl 32: C/C(F)=C(/C)Cl 29/222 Test #32: graphmolMolOpsTest ..................... Passed 1.90 sec test 33 Start 33: graphmoltestChirality 33: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/graphmoltestChirality 33: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol 33: Test timeout computed to be: 1500 33: -------------------------- 33: -------------------------- 33: C/C=C/C(C)Cl 33: [01:18:58] Conflicting single bond directions around double bond at index 2. 33: [01:18:58] BondStereo set to STEREONONE and single bond directions set to NONE. 33: [01:18:58] Conflicting single bond directions around double bond at index 4. 33: [01:18:58] BondStereo set to STEREONONE and single bond directions set to NONE. 33: [01:18:58] Conflicting single bond directions around double bond at index 15. 33: [01:18:58] BondStereo set to STEREONONE and single bond directions set to NONE. 33: [01:18:58] Conflicting single bond directions around double bond at index 2. 33: [01:18:58] BondStereo set to STEREONONE and single bond directions set to NONE. 33: [01:18:58] Conflicting single bond directions around double bond at index 1. 33: [01:18:58] BondStereo set to STEREONONE and single bond directions set to NONE. 33: -------------------------------------------------- 30/222 Test #33: graphmoltestChirality .................. Passed 0.12 sec test 34 Start 34: graphmoltestPickler 34: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/graphmoltestPickler 34: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol 34: Test timeout computed to be: 1500 34: [01:18:58] ------------------------------------- 34: [01:18:58] Testing String Pickle Roundtrips. 34: [01:18:58] done 34: [01:18:58] ------------------------------------- 34: [01:18:58] Testing reading existing pickle file (v2). 34: [01:18:58] done 34: [01:18:58] ------------------------------------- 34: [01:18:58] Testing combining molecules using pickles. 34: Atoms: 34: 0 6 C chg: 0 deg: 2 exp: 2 imp: 2 hyb: 4 arom?: 0 chi: 0 34: 1 6 C chg: 0 deg: 2 exp: 2 imp: 2 hyb: 4 arom?: 0 chi: 0 34: 2 6 C chg: 0 deg: 2 exp: 2 imp: 2 hyb: 4 arom?: 0 chi: 0 34: 3 6 C chg: 0 deg: 2 exp: 2 imp: 2 hyb: 4 arom?: 0 chi: 0 34: 4 6 C chg: 0 deg: 2 exp: 2 imp: 2 hyb: 4 arom?: 0 chi: 0 34: 5 8 O chg: 0 deg: 2 exp: 2 imp: 0 hyb: 4 arom?: 0 chi: 0 34: 6 6 C chg: 0 deg: 2 exp: 2 imp: 2 hyb: 4 arom?: 0 chi: 0 34: Bonds: 34: 0 0->1 order: 1 conj?: 0 aromatic?: 0 34: 1 1->2 order: 1 conj?: 0 aromatic?: 0 34: 2 2->0 order: 1 conj?: 0 aromatic?: 0 34: 3 3->4 order: 1 conj?: 0 aromatic?: 0 34: 4 4->5 order: 1 conj?: 0 aromatic?: 0 34: 5 5->6 order: 1 conj?: 0 aromatic?: 0 34: 6 6->3 order: 1 conj?: 0 aromatic?: 0 34: [01:18:58] done 34: [01:18:58] ------------------------------------- 34: [01:18:58] Testing Issue164: Roundtrip Pickle Failure. 34: [01:18:58] done 34: [01:18:58] ------------------------------------- 34: [01:18:58] Testing Issue219: Pickle Failure with Conformations. 34: [01:18:58] done 34: [01:18:58] ------------------------------------- 34: [01:18:58] Testing Issue220: Pickle problems with bond stereochemistry. 34: [01:18:58] done 34: [01:18:58] ------------------------------------- 34: [01:18:58] Testing query serialization. 34: [01:18:58] C=[$(C=O)] 34: [01:18:58] S(=O)(=O)-[C&H2][F,Br,I,Cl] S(=O)(=O)-[C&H2][F,Br,I,Cl] 34: [01:18:58] done 34: [01:18:58] ------------------------------------- 34: [01:18:58] Testing radical handling in pickles. 34: [01:18:58] done 34: [01:18:58] done 34: [01:18:58] ------------------------------------- 34: [01:18:58] Testing sf.net issue 2788233. 34: [01:18:58] done 34: [01:18:58] ------------------------------------- 34: [01:18:58] Testing sf.net issue 3202580. 34: mass! 13.0034 34: [01:18:58] done 34: [01:18:58] ------------------------------------- 34: [01:18:58] Testing sf.net issue 3316407. 34: [01:18:58] done 34: [01:18:58] ------------------------------------- 34: [01:18:58] Testing sf.net issue 3496759. 34: smi match: *C *C 34: smi match: **=* **=* 34: smi match: [N-]=[N+]=NC=O [N-]=[N+]=NC=O 34: smi match: *OS(=O)OC *OS(=O)OC 34: smi match: *S(=O)(=O)OC *S(=O)(=O)OC 34: smi match: O=COC=O O=COC=O 34: smi match: OO OO 34: smi match: O=COc1c(F)c(F)c(F)c(F)c1F O=COc1c(F)c(F)c(F)c(F)c1F 34: smi match: O=COc1ccc(N(=O)=O)cc1 O=COc1ccc(N(=O)=O)cc1 34: smi match: nnnOC=O nnnOC=O 34: smi match: *=C=N *=C=N 34: smi match: OS(=O)(=O)C(F)(F)F OS(=O)(=O)C(F)(F)F 34: smi match: SP(S)=S SP(S)=S 34: smi match: NP(N)(N)=O NP(N)(N)=O 34: smi match: cN=[N+]=[N-] cN=[N+]=[N-] 34: smi match: *CC=O *CC=O 34: smi match: NNC=O NNC=O 34: smi match: * * 34: smi match: C=P C=P 34: smi match: CC(=N)Cl CC(=N)Cl 34: smi match: N=O N=O 34: smi match: ** ** 34: smi match: N=C=N N=C=N 34: smi match: [C-]#[NH+] [C-]#[NH+] 34: smi match: O=CON(C=O)C=O O=CON(C=O)C=O 34: smi match: N#CC[OH] N#CC[OH] 34: smi match: N#CC=O N#CC=O 34: smi match: N#CS(=O)=O N#CS(=O)=O 34: smi match: CCOP(=O)(C#N)OCC CCOP(=O)(C#N)OCC 34: smi match: N#CN=N N#CN=N 34: smi match: N=NCC=O N=NCC=O 34: smi match: CCCCCCC CCCCCCC 34: smi match: OCCOCCO OCCOCCO 34: smi match: SS SS 34: smi match: [SH] [SH] 34: smi match: *1CC1 *1CC1 34: smi match: [OH]ccc([OH])c[OH] [OH]ccc([OH])c[OH] 34: smi match: [OH]cc([OH])c[OH] [OH]cc([OH])c[OH] 34: smi match: NC(=S)N=N NC(=S)N=N 34: smi match: N#CS N#CS 34: smi match: cC[N+] cC[N+] 34: smi match: C*C=S C*C=S 34: smi match: N[CH2]C#N N[CH2]C#N 34: smi match: O=C1CCO1 O=C1CCO1 34: smi match: O=P([OH])OP(=O)[OH] O=P([OH])OP(=O)[OH] 34: smi match: O=C1CCN1 O=C1CCN1 34: smi match: O=C1C~CC(=O)C~C1 O=C1C~CC(=O)C~C1 34: smi match: C=CC=CC=CC=C C=CC=CC=CC=C 34: smi match: C1CCC(OC2CCC3CCCCC3C2)OC1 C1CCC(OC2CCC3CCCCC3C2)OC1 34: smi match: O=C1NCC2CCCCC21 O=C1NCC2CCCCC21 34: smi match: O=C1CCCC(=O)N1 O=C1CCCC(=O)N1 34: smi match: C1CCC(C2CCCO2)OC1 C1CCC(C2CCCO2)OC1 34: smi match: [OH]C1Cc2c([OH])cc([OH])cc2OC1c1ccc([OH])c([OH])c1 [OH]C1Cc2c([OH])cc([OH])cc2OC1c1ccc([OH])c([OH])c1 34: smi match: C1CC2CCC(O1)O2 C1CC2CCC(O1)O2 34: smi match: cN(=O)~O cN(=O)~O 34: smi match: *[CH2]N1C(=O)CCC1=O *[CH2]N1C(=O)CCC1=O 34: smi match: N~NC=O N~NC=O 34: smi match: *=N~C *=N~C 34: smi match: CO*(=O)=O CO*(=O)=O 34: smi match: * * 34: smi match: * * 34: smi match: *C=C *C=C 34: smi match: N#CS N#CS 34: smi match: *C=S *C=S 34: smi match: *N *N 34: smi match: *C(=C)C=O *C(=C)C=O 34: smi match: *C#C *C#C 34: smi match: N#CCO N#CCO 34: smi match: O=N(=O)CCO O=N(=O)CCO 34: smi match: N=CS N=CS 34: smi match: O=CNC(O)C=O O=CNC(O)C=O 34: smi match: C=C(C=O)C=O C=C(C=O)C=O 34: smi match: N=CC=O N=CC=O 34: smi match: *C(C=O)C=O *C(C=O)C=O 34: smi match: *C(C=O)=C(*)C=O *C(C=O)=C(*)C=O 34: smi match: O=CC=CC=O O=CC=CC=O 34: smi match: O=CN(O)C=O O=CN(O)C=O 34: smi match: O=CN(S)C=O O=CN(S)C=O 34: smi match: O=CNC=O O=CNC=O 34: smi match: O=CNN=O O=CNN=O 34: smi match: O=CNNC=O O=CNNC=O 34: smi match: O=CNOC=O O=CNOC=O 34: smi match: O=CS O=CS 34: smi match: O=CSC=S O=CSC=S 34: smi match: S=CS S=CS 34: smi match: C=O C=O 34: smi match: *C=N *C=N 34: smi match: CCCCCCC CCCCCCC 34: smi match: CN=O CN=O 34: smi match: CS(=O)(=O)O CS(=O)(=O)O 34: smi match: O=C1CCO1 O=C1CCO1 34: smi match: C=C(S)[SH]=O C=C(S)[SH]=O 34: smi match: C=CCO C=CCO 34: smi match: C=CC=N C=CC=N 34: smi match: C=CC=O C=CC=O 34: smi match: C=CC(=O)C=C C=CC(=O)C=C 34: smi match: C=CC=S C=CC=S 34: smi match: C=CC(=S)S C=CC(=S)S 34: smi match: *C=C(*)C=C *C=C(*)C=C 34: smi match: C=CC=N C=CC=N 34: smi match: *N(*)C=C *N(*)C=C 34: smi match: C=CN(=O)=O C=CN(=O)=O 34: smi match: C=CN(O)=O C=CN(O)=O 34: smi match: C=CO C=CO 34: smi match: C=COC=O C=COC=O 34: smi match: C=CS C=CS 34: smi match: C=C[SH](=O)=O C=C[SH](=O)=O 34: smi match: C=NCO C=NCO 34: smi match: C=NC=O C=NC=O 34: smi match: C=NN C=NN 34: smi match: C=NN=C C=NN=C 34: smi match: C=NO C=NO 34: smi match: C=NOC=O C=NOC=O 34: smi match: C=N=O C=N=O 34: smi match: N#CS N#CS 34: smi match: *CN=O *CN=O 34: smi match: NCN NCN 34: smi match: ON=CCN=O ON=CCN=O 34: smi match: NC(S)=N[SH](=O)=O NC(S)=N[SH](=O)=O 34: smi match: N=C(N)S N=C(N)S 34: smi match: NC(=O)Oc1ccccc1 NC(=O)Oc1ccccc1 34: smi match: NC=S NC=S 34: smi match: NC(N)=S NC(N)=S 34: smi match: C=CN C=CN 34: smi match: NOC=O NOC=O 34: smi match: C1CN1 C1CN1 34: smi match: O=C1NNNN1 O=C1NNNN1 34: smi match: N=C(N)C(=N)N N=C(N)C(=N)N 34: smi match: N=C(N)O N=C(N)O 34: smi match: N=C(N)C(=N)S N=C(N)C(=N)S 34: smi match: *C=N *C=N 34: smi match: N=CC=O N=CC=O 34: smi match: N=CS N=CS 34: smi match: N=C=N N=C=N 34: smi match: N=C=O N=C=O 34: smi match: N=C=S N=C=S 34: smi match: NOC(=O)O NOC(=O)O 34: smi match: *C(O)=S *C(O)=S 34: smi match: C=CO C=CO 34: smi match: ON=CC=NO ON=CC=NO 34: smi match: *C[SH](=O)=O *C[SH](=O)=O 34: smi match: OS(=O)=O OS(=O)=O 34: smi match: N#CS N#CS 34: smi match: C=C(S)S C=C(S)S 34: smi match: N=C(N)S N=C(N)S 34: smi match: N=C(S)S N=C(S)S 34: smi match: NC(=S)S NC(=S)S 34: smi match: O=CNS O=CNS 34: smi match: S S 34: smi match: [SiH4] [SiH4] 34: smi match: NS NS 34: smi match: NCN NCN 34: smi match: cC(c)(O)O cC(c)(O)O 34: smi match: *C(c)O *C(c)O 34: smi match: C=CS(c)(=O)=O C=CS(c)(=O)=O 34: smi match: cS(=O)(=O)O cS(=O)(=O)O 34: smi match: *c1ccccn1=O *c1ccccn1=O 34: smi match: *c1ccccn1 *c1ccccn1 34: smi match: *c1nccccn1 *c1nccccn1 34: smi match: C1COCOC1 C1COCOC1 34: smi match: C=S C=S 34: smi match: c=S c=S 34: smi match: S=CS S=CS 34: smi match: C=CN(=O)=O C=CN(=O)=O 34: smi match: C=CN(=O)O C=CN(=O)O 34: smi match: N=CC=O N=CC=O 34: smi match: C=CS C=CS 34: smi match: SC(S)(S)S SC(S)(S)S 34: smi match: OS(O)(O)O OS(O)(O)O 34: smi match: O=N(=O)C[SH](=O)=O O=N(=O)C[SH](=O)=O 34: smi match: O=N(O)C[SH](=O)=O O=N(O)C[SH](=O)=O 34: smi match: N#CS N#CS 34: smi match: C=NO C=NO 34: smi match: C=N[SH]=N C=N[SH]=N 34: smi match: O=C(S)S O=C(S)S 34: smi match: N=C(S)S N=C(S)S 34: smi match: N=C(=N)S N=C(=N)S 34: smi match: O=N=O O=N=O 34: smi match: O=NO O=NO 34: smi match: ONO ONO 34: smi match: C1SCS1 C1SCS1 34: smi match: N=C=S N=C=S 34: smi match: N=C=N N=C=N 34: smi match: C1N=N1 C1N=N1 34: smi match: *CS *CS 34: smi match: SC(S)=C(S)S SC(S)=C(S)S 34: smi match: N=CC=NO N=CC=NO 34: smi match: N#CCC#N N#CCC#N 34: smi match: CON=O CON=O 34: smi match: C=CN C=CN 34: smi match: C=N[SH](=O)=O C=N[SH](=O)=O 34: smi match: NN=O NN=O 34: smi match: NC(=O)S NC(=O)S 34: smi match: N#CS N#CS 34: smi match: NC(=O)C(N)=O NC(=O)C(N)=O 34: smi match: c=N c=N 34: smi match: C1COCO1 C1COCO1 34: smi match: C=NN[SH](=O)=O C=NN[SH](=O)=O 34: smi match: O=CC=O O=CC=O 34: smi match: O=CNOC=O O=CNOC=O 34: smi match: O=C1C=CC(=O)C=C1 O=C1C=CC(=O)C=C1 34: smi match: ONO ONO 34: smi match: ON(~O)~O ON(~O)~O 34: smi match: OC1COC(O)C1 OC1COC(O)C1 34: smi match: OC1CCOC1O OC1CCOC1O 34: smi match: OC1CCOC(O)C1 OC1CCOC(O)C1 34: smi match: N=[N+]=N N=[N+]=N 34: smi match: N#CN N#CN 34: smi match: C=NN=C C=NN=C 34: smi match: *CCN(C)C *CCN(C)C 34: smi match: CNN CNN 34: smi match: *CC *CC 34: smi match: OCS OCS 34: smi match: C1NO1 C1NO1 34: smi match: COS(C)(=O)=O COS(C)(=O)=O 34: smi match: C1CO1 C1CO1 34: smi match: *c1-c-c-ccN1 *c1-c-c-ccN1 34: smi match: *C(*)=C *C(*)=C 34: smi match: N#[NH+] N#[NH+] 34: smi match: C#NO C#NO 34: smi match: OOO OOO 34: smi match: OO OO 34: smi match: O~Cl(~O)~O O~Cl(~O)~O 34: smi match: O~Cl(~O)(~O)~O O~Cl(~O)(~O)~O 34: smi match: [OH]~C(~O)~O [OH]~C(~O)~O 34: smi match: *N *N 34: smi match: *P *P 34: smi match: *S *S 34: smi match: *C(*)(*)C=C *C(*)(*)C=C 34: smi match: *C(*)(*)C=C *C(*)(*)C=C 34: smi match: *C(*)C=C *C(*)C=C 34: smi match: *CC=C *CC=C 34: smi match: CN=C=O CN=C=O 34: smi match: CN=C=S CN=C=S 34: smi match: *C=O *C=O 34: smi match: N=N N=N 34: smi match: SS SS 34: smi match: O=C1CCNC(=O)O1 O=C1CCNC(=O)O1 34: smi match: CSC(C)=N CSC(C)=N 34: smi match: COC(C)=N COC(C)=N 34: smi match: C=C=C C=C=C 34: smi match: *C(=O)OC=O *C(=O)OC=O 34: smi match: C=CC#N C=CC#N 34: smi match: C=CC=O C=CC=O 34: smi match: CC=CC(C)=O CC=CC(C)=O 34: smi match: CC=CC(=O)OCC CC=CC(=O)OCC 34: smi match: C#CC#N C#CC#N 34: smi match: C#CC=O C#CC=O 34: smi match: C#CC(=O)OCC C#CC(=O)OCC 34: smi match: C#CC=O C#CC=O 34: smi match: *C(=O)C#C *C(=O)C#C 34: smi match: C=CC=O C=CC=O 34: smi match: *C(*)(*)O *C(*)(*)O 34: smi match: COS(O)(=O)=O COS(O)(=O)=O 34: smi match: CS(=O)(=O)[O-] CS(=O)(=O)[O-] 34: smi match: NS(=O)(=O)[O-] NS(=O)(=O)[O-] 34: smi match: *C(*)(*)C=O *C(*)(*)C=O 34: smi match: *C(*)(*)C=O *C(*)(*)C=O 34: smi match: *C(*)C=O *C(*)C=O 34: smi match: *CC=O *CC=O 34: smi match: *C(*)(*)[SH](=O)=O *C(*)(*)[SH](=O)=O 34: smi match: *C(*)(*)[SH](=O)=O *C(*)(*)[SH](=O)=O 34: smi match: *C(*)[SH](=O)=O *C(*)[SH](=O)=O 34: smi match: *C[SH](=O)=O *C[SH](=O)=O 34: smi match: * * 34: smi match: *1CC1 *1CC1 34: smi match: O=COC=O O=COC=O 34: smi match: N=C=O N=C=O 34: smi match: N=C=S N=C=S 34: smi match: O~O O~O 34: smi match: N~[SiH4] N~[SiH4] 34: smi match: *P *P 34: smi match: C=N=N C=N=N 34: smi match: *N#[NH+] *N#[NH+] 34: smi match: *S* *S* 34: smi match: ** ** 34: smi match: *CC* *CC* 34: smi match: *O[SiH3] *O[SiH3] 34: smi match: *OS(*)~O *OS(*)~O 34: smi match: N~N~O N~N~O 34: smi match: *N(~O)(~O)~O *N(~O)(~O)~O 34: smi match: *[N+](=C)[O-] *[N+](=C)[O-] 34: smi match: * * 34: smi match: *C(*)NCN(*)* *C(*)NCN(*)* 34: smi match: *OCC#N *OCC#N 34: smi match: **C=C **C=C 34: smi match: C=C[O-] C=C[O-] 34: smi match: C=CO C=CO 34: smi match: * * 34: smi match: O=CON1C(=O)CCC1=O O=CON1C(=O)CCC1=O 34: smi match: O=COn1ccnc1 O=COn1ccnc1 34: smi match: O=COc1c(F)c(F)c(F)c(F)c1F O=COc1c(F)c(F)c(F)c(F)c1F 34: smi match: CC(C)(C)S CC(C)(C)S 34: smi match: [CH2][CH]~[CH]~[CH]~[CH]~[CH]~[CH]~[CH]~[CH]~[CH]~[CH]~C [CH2][CH]~[CH]~[CH]~[CH]~[CH]~[CH]~[CH]~[CH]~[CH]~[CH]~C 34: smi match: [CH]=O [CH]=O 34: smi match: C~[CH2]~[CH2]~[CH2]~[CH2]~[CH2]~C C~[CH2]~[CH2]~[CH2]~[CH2]~[CH2]~C 34: smi match: SS SS 34: smi match: [SH] [SH] 34: smi match: *C* *C* 34: smi match: * * 34: smi match: C[nH3+] C[nH3+] 34: smi match: cC(=N)[NH2] cC(=N)[NH2] 34: smi match: O=CN[OH] O=CN[OH] 34: smi match: NN NN 34: smi match: * * 34: smi match: *OP(=O)O* *OP(=O)O* 34: smi match: * * 34: smi match: * * 34: smi match: * * 34: smi match: *N=C(*)* *N=C(*)* 34: smi match: *C(*)(*)C=O *C(*)(*)C=O 34: smi match: CSC=O CSC=O 34: smi match: * * 34: smi match: O=CCl O=CCl 34: smi match: *** *** 34: smi match: *C=O *C=O 34: smi match: C[OH] C[OH] 34: smi match: C[OH] C[OH] 34: smi match: C[OH] C[OH] 34: smi match: C[OH] C[OH] 34: smi match: C[CH]=O C[CH]=O 34: smi match: *=* *=* 34: smi match: *C *C 34: smi match: C#C C#C 34: smi match: *[CH]C=C *[CH]C=C 34: smi match: cCC(=O)[OH] cCC(=O)[OH] 34: smi match: *C(*)(*)C(=O)[OH] *C(*)(*)C(=O)[OH] 34: smi match: CC(=O)C(=O)[OH] CC(=O)C(=O)[OH] 34: smi match: C=CC(=O)[OH] C=CC(=O)[OH] 34: smi match: N#CC(=O)[OH] N#CC(=O)[OH] 34: smi match: O=C([OH])CN(~O)~O O=C([OH])CN(~O)~O 34: smi match: *N(*)C*=O *N(*)C*=O 34: smi match: O=*C[OH] O=*C[OH] 34: smi match: *=C*=O *=C*=O 34: smi match: *=CC#N *=CC#N 34: smi match: *C[OH] *C[OH] 34: smi match: ** ** 34: smi match: *C[OH] *C[OH] 34: smi match: *C(*)=O *C(*)=O 34: smi match: * * 34: smi match: *CC(=O)[OH] *CC(=O)[OH] 34: smi match: CC(=O)OC(C)=O CC(=O)OC(C)=O 34: smi match: *c *c 34: smi match: CN(C)c CN(C)c 34: smi match: c c 34: smi match: *c *c 34: smi match: *c *c 34: smi match: **:*cF **:*cF 34: smi match: cB([OH])[OH] cB([OH])[OH] 34: smi match: N~N~N N~N~N 34: smi match: *N=N* *N=N* 34: smi match: *CC[OH] *CC[OH] 34: smi match: *CC[OH] *CC[OH] 34: smi match: *=CCC(=O)[OH] *=CCC(=O)[OH] 34: smi match: O=C([OH])CC[OH] O=C([OH])CC[OH] 34: smi match: *CCC(=O)[OH] *CCC(=O)[OH] 34: smi match: CC(=O)CC(=O)[OH] CC(=O)CC(=O)[OH] 34: smi match: *OC(=O)CC(C)=O *OC(=O)CC(C)=O 34: smi match: *OC(*)=O *OC(*)=O 34: smi match: *C(=O)[OH] *C(=O)[OH] 34: smi match: O=C[OH] O=C[OH] 34: smi match: *OC(=O)O* *OC(=O)O* 34: smi match: * * 34: smi match: *OC(=O)Cl *OC(=O)Cl 34: smi match: *C#N *C#N 34: smi match: NCC(=O)NCC=O NCC(=O)NCC=O 34: smi match: SS SS 34: smi match: * * 34: smi match: *=* *=* 34: smi match: *=* *=* 34: smi match: *=* *=* 34: smi match: *=* *=* 34: smi match: C1CO1 C1CO1 34: smi match: *OC(*)=O *OC(*)=O 34: smi match: * * 34: smi match: *O*[OH] *O*[OH] 34: smi match: COC(C)(C)O COC(C)(C)O 34: smi match: *[OH] *[OH] 34: smi match: ** ** 34: smi match: C=N[NH2] C=N[NH2] 34: smi match: C=NC=O C=NC=O 34: smi match: * * 34: smi match: C#NC C#NC 34: smi match: CN=C=O CN=C=O 34: smi match: CN=C=S CN=C=S 34: smi match: *OC(*)(*)O* *OC(*)(*)O* 34: smi match: *C(*)=O *C(*)=O 34: smi match: C~C~C~C~C~C~C C~C~C~C~C~C~C 34: smi match: *~*=O *~*=O 34: smi match: *~*=O *~*=O 34: smi match: OC(=O)CC(=O)[OH] OC(=O)CC(=O)[OH] 34: smi match: * * 34: smi match: *C#N *C#N 34: smi match: *N(=O)~O *N(=O)~O 34: smi match: N N 34: smi match: OC(=O)C(O)=O OC(=O)C(O)=O 34: smi match: C=NO C=NO 34: smi match: O~O O~O 34: smi match: c[OH] c[OH] 34: smi match: O=P(~[OH])~O O=P(~[OH])~O 34: smi match: CO~P(=O)~O CO~P(=O)~O 34: smi match: O=P(~[OH])(~O)~O O=P(~[OH])(~O)~O 34: smi match: CO~P(=O)(~O)~O CO~P(=O)(~O)~O 34: smi match: O=P(~O)~O O=P(~O)~O 34: smi match: O=P(~O)(~O)~O O=P(~O)(~O)~O 34: smi match: C[NH2] C[NH2] 34: smi match: O~*1~**~*(~O)~**~1 O~*1~**~*(~O)~**~1 34: smi match: * * 34: smi match: *1~*~*~C2~C(~*~1)~*~*~C1~C3~*~*~*~C~3~*~*~C~2~1 *1~*~*~C2~C(~*~1)~*~*~C1~C3~*~*~*~C~3~*~*~C~2~1 34: smi match: CS(C)~O CS(C)~O 34: smi match: CS(C)(~O)~O CS(C)(~O)~O 34: smi match: CS(N)(~O)~O CS(N)(~O)~O 34: smi match: CS([OH])(~O)~O CS([OH])(~O)~O 34: smi match: COS(C)(~O)~O COS(C)(~O)~O 34: smi match: *S(C)(~O)~O *S(C)(~O)~O 34: smi match: CN(C)C CN(C)C 34: smi match: *c1nnc(=N)s1 *c1nnc(=N)s1 34: smi match: *C(*)=S *C(*)=S 34: smi match: *OC(*)=S *OC(*)=S 34: smi match: * * 34: smi match: C[SH] C[SH] 34: smi match: c[SH] c[SH] 34: smi match: NC(N)=S NC(N)=S 34: smi match: * * 34: smi match: ***** ***** 34: smi match: NC(N)=O NC(N)=O 34: [01:18:58] done 34: [01:18:58] ------------------------------------- 34: [01:18:58] Testing sf.net issue 280. 34: [01:18:58] done 34: [01:18:58] ------------------------------------- 34: [01:18:58] Testing sf.net issue 285. 34: [01:18:58] done 34: [01:18:58] done 34: [01:18:58] done 34: [01:18:58] done 34: [01:18:58] done 34: [01:18:58] done 34: [01:18:58] done 34: [01:18:58] ------------------------------------- 34: [01:18:58] Testing Github2441: Add RDProps interface to Conformers. 34: [01:18:58] done 34: [01:18:58] ------------------------------------- 34: [01:18:58] Testing Issue2510: Pickle Confs as double. 34: [01:18:58] done 34: [01:18:58] ------------------------------------- 34: [01:18:58] Testing Github #2465: Negative atom-map numbers cause depickling to fail. 34: [01:18:58] done 34: [01:18:58] ------------------------------------- 34: [01:18:58] Testing loading pickled mols with conformers 34: [01:18:58] done 34: [01:18:58] ------------------------------------- 34: [01:18:58] Testing conformer reading/writing options 34: [01:18:58] done 34: [01:18:58] ------------------------------------- 34: [01:18:58] Testing property reading options 34: [01:18:58] done 34: [01:18:58] ------------------------------------- 34: [01:18:58] Testing property reading options 34: [01:18:58] done 34: [01:18:58] ------------------------------------- 34: [01:18:58] Testing boost::serialization integration 34: [01:18:58] done 34: [01:18:58] ------------------------------------- 34: [01:18:58] Testing github issue 6036 31/222 Test #34: graphmoltestPickler .................... Passed 0.55 sec test 35 Start 35: graphmoltestPicklerGlobalSetting 35: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/graphmoltestPicklerGlobalSetting 35: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol 35: Test timeout computed to be: 1500 35: [01:18:58] done 32/222 Test #35: graphmoltestPicklerGlobalSetting ....... Passed 0.04 sec test 36 Start 36: graphmolIterTest 36: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/graphmolIterTest 36: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol 36: Test timeout computed to be: 1500 33/222 Test #36: graphmolIterTest ....................... Passed 0.04 sec test 37 Start 37: hanoiTest 37: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/hanoiTest 37: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol 37: Test timeout computed to be: 1500 25: Checking against /<>/Code/ForceField/MMFF/test_data/MMFF94_reference.log... 25: All 191 tests passed 25: 25: Computing MMFF94 energies for /<>/Code/ForceField/MMFF/test_data/MMFF94_dative.smi... 34/222 Test #37: hanoiTest .............................. Passed 4.80 sec test 38 Start 38: graphmolMemTest1 38: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/graphmolMemTest1 38: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol 38: Test timeout computed to be: 1500 35/222 Test #38: graphmolMemTest1 ....................... Passed 0.01 sec test 39 Start 39: resMolSupplierTest 39: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/resMolSupplierTest 39: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol 39: Test timeout computed to be: 1500 25: Checking against /<>/Code/ForceField/MMFF/test_data/MMFF94_reference.log... 36/222 Test #39: resMolSupplierTest ..................... Passed 8.35 sec test 40 Start 40: molBundleTest 40: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/molBundleTest 40: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol 40: Test timeout computed to be: 1500 37/222 Test #40: molBundleTest .......................... Passed 0.04 sec test 41 Start 41: testSGroup 41: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/testSGroup 41: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol 41: Test timeout computed to be: 1500 38/222 Test #41: testSGroup ............................. Passed 0.05 sec test 42 Start 42: test-valgrind 42: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/test-valgrind 42: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol 42: Test timeout computed to be: 1500 39/222 Test #42: test-valgrind .......................... Passed 0.04 sec test 43 Start 43: graphmolTestsCatch 43: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/graphmolTestsCatch 43: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol 43: Test timeout computed to be: 1500 43: Randomness seeded to: 4284047212 43: [01:19:12] WARNING: not removing hydrogen atom without neighbors 43: [01:19:12] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 43: [01:19:12] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 43: [01:19:12] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 43: [01:19:12] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 43: [01:19:12] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 43: [01:19:12] Explicit valence for atom # 1 N, 5, is greater than permitted 43: [01:19:12] Explicit valence for atom # 1 N, 6, is greater than permitted 43: [01:19:12] Explicit valence for atom # 1 N, 5, is greater than permitted 43: [01:19:12] Explicit valence for atom # 1 N, 5, is greater than permitted 43: [01:19:12] Explicit valence for atom # 2 O, 3, is greater than permitted 43: [01:19:12] Explicit valence for atom # 2 O, 3, is greater than permitted 43: [01:19:12] non-ring atom 2 marked aromatic 43: [01:19:12] non-ring atom 2 marked aromatic 43: [01:19:12] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 43: [01:19:12] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 43: [01:19:12] Can't kekulize mol. Unkekulized atoms: 1 2 3 43: [01:19:12] Can't kekulize mol. Unkekulized atoms: 1 2 3 43: [01:19:12] Can't kekulize mol. Unkekulized atoms: 0 1 2 43: [01:19:12] Can't kekulize mol. Unkekulized atoms: 0 1 2 43: [01:19:12] Explicit valence for atom # 1 O, 3, is greater than permitted 43: [01:19:12] Explicit valence for atom # 4 F, 2, is greater than permitted 43: [01:19:12] Can't kekulize mol. Unkekulized atoms: 6 7 8 43: [01:19:12] Explicit valence for atom # 1 C, 5, is greater than permitted 43: [01:19:12] WARNING: not removing hydrogen atom with dummy atom neighbors 43: [01:19:12] WARNING: not removing hydrogen atom with dummy atom neighbors 43: [01:19:12] WARNING: not removing hydrogen atom with wedged bond 43: [01:19:12] WARNING: not removing hydrogen atom without neighbors 43: [01:19:12] WARNING: not removing hydrogen atom without neighbors 43: [01:19:12] WARNING: not removing hydrogen atom without neighbors 43: [01:19:12] WARNING: not removing hydrogen atom without neighbors 43: [01:19:12] Unreasonable formal charge on hydrogen # 0. 43: [01:19:12] batchEdit mode already enabled, ignoring additional call to beginBatchEdit() 43: [01:19:12] batchEdit mode already enabled, ignoring additional call to beginBatchEdit() 43: [01:19:12] 43: 43: **** 43: Pre-condition Violation 43: no atom 43: Violation occurred on line 185 in file ./Code/GraphMol/ROMol.cpp 43: Failed Expression: at 43: **** 43: 43: [01:19:12] 43: 43: **** 43: Pre-condition Violation 43: no owner 43: Violation occurred on line 138 in file ./Code/GraphMol/Atom.h 43: Failed Expression: dp_mol 43: **** 43: 43: [01:19:12] 43: 43: **** 43: Pre-condition Violation 43: atom not associated with this molecule 43: Violation occurred on line 186 in file ./Code/GraphMol/ROMol.cpp 43: Failed Expression: &at->getOwningMol() == this 43: **** 43: 43: [01:19:12] 43: 43: **** 43: Pre-condition Violation 43: no atom 43: Violation occurred on line 385 in file ./Code/GraphMol/ROMol.cpp 43: Failed Expression: at 43: **** 43: 43: [01:19:12] 43: 43: **** 43: Pre-condition Violation 43: no owner 43: Violation occurred on line 138 in file ./Code/GraphMol/Atom.h 43: Failed Expression: dp_mol 43: **** 43: 43: [01:19:12] 43: 43: **** 43: Pre-condition Violation 43: atom not associated with this molecule 43: Violation occurred on line 386 in file ./Code/GraphMol/ROMol.cpp 43: Failed Expression: &at->getOwningMol() == this 43: **** 43: 43: [01:19:12] 43: 43: **** 43: Pre-condition Violation 43: no atom 43: Violation occurred on line 392 in file ./Code/GraphMol/ROMol.cpp 43: Failed Expression: at 43: **** 43: 43: [01:19:12] 43: 43: **** 43: Pre-condition Violation 43: no owner 43: Violation occurred on line 138 in file ./Code/GraphMol/Atom.h 43: Failed Expression: dp_mol 43: **** 43: 43: [01:19:12] 43: 43: **** 43: Pre-condition Violation 43: atom not associated with this molecule 43: Violation occurred on line 393 in file ./Code/GraphMol/ROMol.cpp 43: Failed Expression: &at->getOwningMol() == this 43: **** 43: 43: [01:19:12] 43: 43: **** 43: Pre-condition Violation 43: null atom passed in 43: Violation occurred on line 407 in file ./Code/GraphMol/ROMol.cpp 43: Failed Expression: atom_pin 43: **** 43: 43: [01:19:12] 43: 43: **** 43: Pre-condition Violation 43: cannot take ownership of an atom which already has an owner 43: Violation occurred on line 408 in file ./Code/GraphMol/ROMol.cpp 43: Failed Expression: !takeOwnership || !atom_pin->hasOwningMol() || &atom_pin->getOwningMol() == this 43: **** 43: 43: [01:19:12] 43: 43: **** 43: Pre-condition Violation 43: cannot take ownership of an bond which already has an owner 43: Violation occurred on line 434 in file ./Code/GraphMol/ROMol.cpp 43: Failed Expression: !takeOwnership || !bond_pin->hasOwningMol() || &bond_pin->getOwningMol() == this 43: **** 43: 43: [01:19:12] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 43: [01:19:12] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 43: [01:19:12] WARNING: not removing hydrogen atom without neighbors 43: [01:19:12] Explicit valence for atom # 1 F greater than permitted 43: [01:19:12] 43: 43: **** 43: Pre-condition Violation 43: plain atoms have no Query 43: Violation occurred on line 610 in file ./Code/GraphMol/Atom.cpp 43: Failed Expression: 0 43: **** 43: 43: [01:19:12] 43: 43: **** 43: Pre-condition Violation 43: plain atoms have no Query 43: Violation occurred on line 615 in file ./Code/GraphMol/Atom.cpp 43: Failed Expression: 0 43: **** 43: 43: [01:19:12] 43: 43: **** 43: Pre-condition Violation 43: plain bonds have no Query 43: Violation occurred on line 206 in file ./Code/GraphMol/Bond.cpp 43: Failed Expression: 0 43: **** 43: 43: [01:19:12] 43: 43: **** 43: Pre-condition Violation 43: plain bonds have no query 43: Violation occurred on line 227 in file ./Code/GraphMol/Bond.cpp 43: Failed Expression: 0 43: **** 43: 43: [01:19:12] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 43: [01:19:12] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 43: [01:19:12] Can't kekulize mol. Unkekulized atoms: 6 7 8 9 10 43: [01:19:12] Can't kekulize mol. Unkekulized atoms: 6 7 8 9 10 43: [01:19:12] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 25: All 191 tests passed 43: [01:19:12] Unusual charge on atom 0 number of radical electrons set to zero 43: [01:19:12] Unusual charge on atom 0 number of radical electrons set to zero 43: [01:19:12] Unusual charge on atom 0 number of radical electrons set to zero 43: [01:19:12] non-ring atom 0 marked aromatic 43: [01:19:12] non-ring atom 0 marked aromatic 43: [01:19:12] Explicit valence for atom # 1 C, 5, is greater than permitted 43: [01:19:12] Explicit valence for atom # 9 C, 5, is greater than permitted 43: [01:19:12] Explicit valence for atom # 3 N, 4, is greater than permitted 43: [01:19:12] Explicit valence for atom # 15 C, 5, is greater than permitted 43: [01:19:12] Explicit valence for atom # 11 C, 5, is greater than permitted 43: [01:19:12] Explicit valence for atom # 9 C, 5, is greater than permitted 43: [01:19:12] Explicit valence for atom # 9 C, 5, is greater than permitted 43: [01:19:12] Explicit valence for atom # 9 C, 6, is greater than permitted 43: [01:19:12] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 43: [01:19:12] Can't kekulize mol. Unkekulized atoms: 7 43: [01:19:12] Can't kekulize mol. Unkekulized atoms: 3 43: [01:19:12] Can't kekulize mol. Unkekulized atoms: 3 7 43: [01:19:12] Can't kekulize mol. Unkekulized atoms: 3 7 43: [01:19:12] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 43: [01:19:12] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 43: [01:19:12] Explicit valence for atom # 1 O, 3, is greater than permitted 43: [01:19:12] WARNING: merging explicit H queries involved in ORs is not supported. This query will not be merged 43: [01:19:12] WARNING: merging explicit H queries involved in ORs is not supported. This query will not be merged 43: [01:19:12] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 43: [01:19:12] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 43: =============================================================================== 43: All tests passed (1630 assertions in 89 test cases) 43: 40/222 Test #43: graphmolTestsCatch ..................... Passed 0.27 sec test 44 Start 44: graphmolOrganometallicsCatch 44: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/graphmolOrganometallicsCatch 44: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol 44: Test timeout computed to be: 1500 25: 25: Computing MMFF94 energies for /<>/Code/ForceField/MMFF/test_data/MMFF94_hypervalent.smi... 44: Randomness seeded to: 750493991 44: =============================================================================== 44: All tests passed (62 assertions in 6 test cases) 44: 41/222 Test #44: graphmolOrganometallicsCatch ........... Passed 0.09 sec test 45 Start 45: graphmolSGroupCatch 45: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/graphmolSGroupCatch 45: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol 45: Test timeout computed to be: 1500 45: Randomness seeded to: 3739487274 45: =============================================================================== 45: All tests passed (120 assertions in 6 test cases) 45: 42/222 Test #45: graphmolSGroupCatch .................... Passed 0.05 sec test 46 Start 46: graphmolAdjustQueryCatch 46: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/graphmolAdjustQueryCatch 46: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol 46: Test timeout computed to be: 1500 46: Randomness seeded to: 2408351453 46: =============================================================================== 46: All tests passed (281 assertions in 10 test cases) 46: 43/222 Test #46: graphmolAdjustQueryCatch ............... Passed 0.09 sec test 47 Start 47: chiralityTestsCatch 47: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/chiralityTestsCatch 47: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol 47: Test timeout computed to be: 1500 47: Randomness seeded to: 424735989 47: [01:19:12] unable to set wavy bonds for double bonds: 3 47: [01:19:12] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 47: [01:19:12] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 47: [01:19:12] Warning: ambiguous stereochemistry - zero-length (or near zero-length) bond - at atom 1 ignored. 47: [01:19:12] Warning: ambiguous stereochemistry - zero-length (or near zero-length) bond - at atom 1 ignored. 47: [01:19:12] Warning: ambiguous stereochemistry - linear bond arrangement - at atom 1 ignored 47: [01:19:12] Warning: ambiguous stereochemistry - linear bond arrangement - at atom 1 ignored 47: [01:19:12] Warning: ambiguous stereochemistry - overlapping neighbors - at atom 2 ignored 47: =============================================================================== 47: All tests passed (1845 assertions in 63 test cases) 47: 44/222 Test #47: chiralityTestsCatch .................... Passed 0.19 sec test 48 Start 48: canonTestsCatch 48: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/canonTestsCatch 48: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol 48: Test timeout computed to be: 1500 48: Randomness seeded to: 25392853 48: =============================================================================== 48: All tests passed (137 assertions in 7 test cases) 48: 45/222 Test #48: canonTestsCatch ........................ Passed 0.06 sec test 49 Start 49: moliteratorTestsCatch 49: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/moliteratorTestsCatch 49: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol 49: Test timeout computed to be: 1500 49: Randomness seeded to: 2943876156 49: =============================================================================== 49: All tests passed (14 assertions in 4 test cases) 49: 46/222 Test #49: moliteratorTestsCatch .................. Passed 0.04 sec test 50 Start 50: queryTestsCatch 50: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/queryTestsCatch 50: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol 50: Test timeout computed to be: 1500 50: Randomness seeded to: 3419184155 50: =============================================================================== 50: All tests passed (10 assertions in 1 test case) 50: 47/222 Test #50: queryTestsCatch ........................ Passed 0.04 sec test 51 Start 51: molbundleTestsCatch 51: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/molbundleTestsCatch 51: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol 51: Test timeout computed to be: 1500 51: Randomness seeded to: 1412608267 51: =============================================================================== 51: All tests passed (6 assertions in 1 test case) 51: 48/222 Test #51: molbundleTestsCatch .................... Passed 0.04 sec test 52 Start 52: pickleTestsCatch 52: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/pickleTestsCatch 52: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol 52: Test timeout computed to be: 1500 52: Randomness seeded to: 2976093126 52: =============================================================================== 52: All tests passed (34 assertions in 1 test case) 52: 49/222 Test #52: pickleTestsCatch ....................... Passed 0.05 sec test 53 Start 53: smiTest1 53: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse/smiTest1 53: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse 53: Test timeout computed to be: 1500 53: [01:19:12] WARNING: not removing hydrogen atom without neighbors 53: [01:19:12] WARNING: not removing hydrogen atom without neighbors 53: [01:19:12] WARNING: not removing hydrogen atom without neighbors 53: [01:19:12] WARNING: not removing hydrogen atom without neighbors 53: [01:19:12] WARNING: not removing hydrogen atom without neighbors 53: [01:19:12] WARNING: not removing hydrogen atom without neighbors 53: [01:19:12] WARNING: not removing hydrogen atom without neighbors 53: [01:19:12] WARNING: not removing hydrogen atom without neighbors 53: [01:19:12] WARNING: not removing hydrogen atom without neighbors 53: [01:19:12] WARNING: not removing hydrogen atom without neighbors 53: [01:19:12] WARNING: not removing hydrogen atom without neighbors 53: [01:19:12] Invalid chiral specification on atom 0 53: [01:19:12] Invalid chiral specification on atom 0 53: [01:19:12] Invalid chiral specification on atom 0 53: [01:19:12] Invalid chiral specification on atom 0 53: [01:19:12] Invalid chiral specification on atom 0 53: [01:19:13] SMILES Parse Error: unclosed ring for input: 'C1.C11.C' 53: [01:19:13] SMILES Parse Error: unclosed ring for input: 'C1C.CC11CCC' 53: --C1CCC2(CC1)CCCCC2CCC1CCCC1 53: smi: ClC1CCCCC1 53: smi: ClC1CCCCC1 53: smi: ClC1CCCCC1Br 53: smi: c1ccccc1 53: smi: c1ccncc1 53: smi: c1cc[nH]c1 53: smi: c1cc[nH]c1 53: smi: c1cc[pH]c1 53: CbC(aC)aC 53: CaC(bC)aC 53: CbC(bC)aC 53: O.C 53: C=C1CC[C@@H]2O[C@@]2(C)CC[C@@](N)(C(C)C)C=C[C@](C)(O)CC[C@@H]1O C=C1CC[C@@H]2O[C@@]2(C)CC[C@@](N)(C(C)C)C=C[C@](C)(O)CC[C@@H]1O 53: [01:19:13] SMILES Parse Error: syntax error while parsing: c%()ccccc%() 53: [01:19:13] SMILES Parse Error: Failed parsing SMILES 'c%()ccccc%()' for input: 'c%()ccccc%()' 53: [01:19:13] SMILES Parse Error: syntax error while parsing: c%(100000)ccccc%(100000) 53: [01:19:13] SMILES Parse Error: Failed parsing SMILES 'c%(100000)ccccc%(100000)' for input: 'c%(100000)ccccc%(100000)' 53: [01:19:13] SMILES Parse Error: duplicated ring closure 1 bonds atom 2 to itself for input: 'C1CC111' 53: [01:19:13] SMILES Parse Error: ring closure 1 duplicates bond between atom 0 and atom 1 for input: 'C1C1' 53: [01:19:13] SMILES Parse Error: syntax error while parsing: COc(c1)cccc1C# 53: [01:19:13] SMILES Parse Error: Failed parsing SMILES 'COc(c1)cccc1C#' for input: 'COc(c1)cccc1C#' 53: [01:19:13] SMARTS Parse Error: syntax error while parsing: COc(c1)cccc1C# 53: [01:19:13] SMARTS Parse Error: Failed parsing SMARTS 'COc(c1)cccc1C#' for input: 'COc(c1)cccc1C#' 53: [01:19:13] SMILES Parse Error: syntax error while parsing: COc(c1)cccc1C# 53: [01:19:13] SMILES Parse Error: Failed parsing SMILES 'COc(c1)cccc1C#' for input: 'COc(c1)cccc1C#' 53: [01:19:13] SMARTS Parse Error: syntax error while parsing: COc(c1)cccc1C# 53: [01:19:13] SMARTS Parse Error: Failed parsing SMARTS 'COc(c1)cccc1C#' for input: 'COc(c1)cccc1C#' 53: [01:19:13] SMILES Parse Error: syntax error while parsing: COc(c1)cccc1C# 53: [01:19:13] SMILES Parse Error: Failed parsing SMILES 'COc(c1)cccc1C#' for input: 'COc(c1)cccc1C#' 53: [01:19:13] SMARTS Parse Error: syntax error while parsing: COc(c1)cccc1C# 53: [01:19:13] SMARTS Parse Error: Failed parsing SMARTS 'COc(c1)cccc1C#' for input: 'COc(c1)cccc1C#' 53: C=c1s/c2n(c1=O)CCCCCCC\N=2 53: C1=C\C/C=C2C3=C\C/C=C\C=C/C/3C\2\C=C/1 53: [01:19:13] SMILES Parse Error: extra close parentheses while parsing: C) 53: [01:19:13] SMILES Parse Error: Failed parsing SMILES 'C)' for input: 'C)' 50/222 Test #53: smiTest1 ............................... Passed 0.44 sec test 54 Start 54: smiTest2 54: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse/smiTest2 54: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse 54: Test timeout computed to be: 1500 54: [01:19:13] SMILES Parse Error: Failed parsing SMILES 'CO' for input: 'CO' 54: [01:19:13] SMILES Parse Error: Failed parsing SMILES 'C-O' for input: 'C-O' 54: [01:19:13] SMILES Parse Error: syntax error while parsing: - 54: [01:19:13] SMILES Parse Error: Failed parsing SMILES '-' for input: '-' 54: [01:19:13] SMILES Parse Error: Failed parsing SMILES '[Bg]' for input: '[Bg]' 54: [01:19:13] SMILES Parse Error: Failed parsing SMILES 'C' for input: 'C' 54: [01:19:13] SMILES Parse Error: Failed parsing SMILES 'C-O' for input: 'C-O' 54: [01:19:13] SMILES Parse Error: Failed parsing SMILES '*' for input: '*' 54: [01:19:13] SMARTS Parse Error: Failed parsing SMARTS 'CO' for input: 'CO' 54: [01:19:13] SMARTS Parse Error: Failed parsing SMARTS 'C-O' for input: 'C-O' 54: [01:19:13] SMARTS Parse Error: Failed parsing SMARTS '-' for input: '-' 54: [01:19:13] SMARTS Parse Error: Failed parsing SMARTS '[Bg]' for input: '[Bg]' 54: [01:19:13] SMARTS Parse Error: Failed parsing SMARTS 'C' for input: 'C' 54: [01:19:13] SMARTS Parse Error: Failed parsing SMARTS '-O' for input: '-O' 54: [01:19:13] SMARTS Parse Error: Failed parsing SMARTS '*' for input: '*' 51/222 Test #54: smiTest2 ............................... Passed 0.04 sec test 55 Start 55: cxsmilesTest 55: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse/cxsmilesTest 55: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse 55: Test timeout computed to be: 1500 55: Randomness seeded to: 1263714110 55: =============================================================================== 55: All tests passed (1902 assertions in 21 test cases) 55: 52/222 Test #55: cxsmilesTest ........................... Passed 1.51 sec test 56 Start 56: smaTest1 56: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse/smaTest1 56: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse 56: Test timeout computed to be: 1500 56: [01:19:15] SMARTS Parse Error: syntax error while parsing: [C:10H3]CC 56: [01:19:15] SMARTS Parse Error: Failed parsing SMARTS '[C:10H3]CC' for input: '[C:10H3]CC' 56: [01:19:15] SMARTS Parse Error: syntax error while parsing: [C:10:3]ON 56: [01:19:15] SMARTS Parse Error: Failed parsing SMARTS '[C:10:3]ON' for input: '[C:10:3]ON' 56: [01:19:15] WARNING: merging explicit H queries involved in ORs is not supported. This query will not be merged 56: [01:19:15] WARNING: merging explicit H queries involved in ORs is not supported. This query will not be merged 53/222 Test #56: smaTest1 ............................... Passed 0.27 sec test 57 Start 57: smiTestCatch 57: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse/smiTestCatch 57: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse 57: Test timeout computed to be: 1500 57: Randomness seeded to: 1135850011 57: [01:19:15] SMILES Parse Error: unclosed ring for input: 'c1ccccc' 57: [01:19:15] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 57: [01:19:15] SMARTS Parse Error: unclosed ring for input: 'c1ccccc' 57: [01:19:15] SMARTS Parse Error: unclosed ring for input: 'C1C' 57: [01:19:15] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 57: [01:19:15] SMARTS Parse Error: syntax error while parsing: C)foo 57: [01:19:15] SMARTS Parse Error: Failed parsing SMARTS 'C)foo' for input: 'C)foo' 57: [01:19:15] SMARTS Parse Error: syntax error while parsing: CCC |$foo;;bar$| 57: [01:19:15] SMARTS Parse Error: Failed parsing SMARTS 'CCC |$foo;;bar$|' for input: 'CCC |$foo;;bar$|' 57: [01:19:15] unrecognized CXSMILES CONNECT value: 'EU'. Assuming 'eu' 57: [01:19:15] w block attempts to set wedging on bond 0 more than once. 57: [01:19:15] improperly formatted w block 57: [01:19:15] atom 3 is not associated with bond 1 in w block 57: =============================================================================== 57: All tests passed (1516 assertions in 53 test cases) 57: 54/222 Test #57: smiTestCatch ........................... Passed 0.30 sec test 58 Start 58: nontetrahedralCatch 58: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse/nontetrahedralCatch 58: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse 58: Test timeout computed to be: 1500 58: Randomness seeded to: 4027930335 58: [01:19:15] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 58: [01:19:15] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 58: [01:19:15] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 58: [01:19:15] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 58: [01:19:15] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 58: [01:19:15] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 58: [01:19:15] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 58: [01:19:15] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 58: [01:19:15] ignoring non-tetrahedral stereo specification since setAllowNontetrahedralChirality() is false. 58: =============================================================================== 58: All tests passed (308 assertions in 9 test cases) 58: 55/222 Test #58: nontetrahedralCatch .................... Passed 0.12 sec test 59 Start 59: testDepictor 59: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor/testDepictor 59: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor 59: Test timeout computed to be: 1500 59: [01:19:16] Warning: stereochemistry around double bond may be incorrect in depiction. 56/222 Test #59: testDepictor ........................... Passed 0.79 sec test 60 Start 60: depictorCatch 60: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor/depictorCatch 60: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor 60: Test timeout computed to be: 1500 60: Randomness seeded to: 2967416759 60: =============================================================================== 60: All tests passed (571 assertions in 14 test cases) 60: 57/222 Test #60: depictorCatch .......................... Passed 0.29 sec test 61 Start 61: pyDepictor 61: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/Depictor/Wrap/testDepictor.py" 61: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor/Wrap 61: Test timeout computed to be: 1500 58/222 Test #61: pyDepictor .............................***Exception: SegFault 1.37 sec test 62 Start 62: testMrvToMol 62: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MarvinParse/testMrvToMol 62: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MarvinParse 62: Test timeout computed to be: 1500 62: Using new chirality perception 62: Test 62: 62: NewChiralTest.sdf 62: 62: Test 62: 62: NewChiralTest.sdf 62: 62: Test 62: 62: NewChiralTestNoChiral.sdf 62: 62: Test 62: 62: NewChiralTestNoChiral.sdf 62: 62: Test 62: 62: NewChiralTestAllChiral.sdf 62: 62: Test 62: 62: NewChiralTestAllChiral.sdf 62: 62: Test 62: 62: ProblemShort.mol 62: 62: [01:19:18] For a MultipleSgroup expansion, the matching orphaned bond was not found 62: The multiple sgroup will be ignored 62: Test 62: 62: lostStereoAnd.sdf 62: 62: Test 62: 62: DoubleBondChain.sdf 62: 62: Test 62: 62: UnitsError.sdf 62: 62: Test 62: 62: StarAtom.sdf 62: 62: Test 62: 62: nonProprietary.mol 62: 62: Test 62: 62: ChiralTest.sdf 62: 62: Test 62: 62: TestBond1.mol 62: 62: Test 62: 62: Sgroup_MUL_ParentInMiddle.sdf 62: 62: Test 62: 62: Cubane.mrv 62: 62: Test 62: 62: NewChiralTest.mrv 62: 62: Test 62: 62: NewChiralTest.mrv 62: 62: Test 62: 62: NewChiralTestNoChiral.mrv 62: 62: Test 62: 62: NewChiralTestNoChiral.mrv 62: 62: Test 62: 62: NewChiralTestAllChiral.mrv 62: 62: Test 62: 62: NewChiralTestAllChiral.mrv 62: 62: Test 62: 62: lostStereoAnd.mrv 62: 62: Test 62: 62: DoubleBondChain.mrv 62: 62: Test 62: 62: WigglyAndCrossed.mrv 62: 62: Test 62: 62: BondTypes.mrv 62: 62: Test 62: 62: EmbeddedSGroupSUP_MUL.mrv 62: 62: Test 62: 62: EmbeddedSgroupCOP_SUP.mrv 62: 62: Test 62: 62: EmbeddedSgroupDAT_SUP.mrv 62: 62: Test 62: 62: EmbeddedSgroupMULTICENTER_SUP.mrv 62: 62: Test 62: 62: EmbeddedSgroupMUL_MUL.mrv 62: 62: Test 62: 62: EmbeddedSgroupMUL_MUL2.mrv 62: 62: Test 62: 62: EmbeddedSgroupMUL_SUP.mrv 62: 62: Test 62: 62: EmbeddedSgroupSRU_SUP.mrv 62: 62: Test 62: 62: EmbeddedSgroupSUPEXP_SUP.mrv 62: 62: Test 62: 62: EmbeddedSgroupSUPEXP_SUP2.mrv 62: 62: Test 62: 62: EmbeddedSgroupSUP_MULTICENTER.mrv 62: 62: Test 62: 62: EmbeddedSgroupSUP_SUP.mrv 62: 62: Test 62: 62: EmbeddedSgroupSUP_SUP2.mrv 62: 62: Test 62: 62: RgroupBad.mrv 62: 62: Test 62: 62: valenceLessThanDrawn.mrv 62: 62: Test 62: 62: data_sgroup_no_fieldname.mrv 62: 62: Test 62: 62: data_sgroup_empty_field_data.mrv 62: 62: Test 62: 62: radical_value.mrv 62: 62: Test 62: 62: emptyOneLineAtomList.mrv 62: 62: Test 62: 62: mrvValence_value.mrv 62: 62: Test 62: 62: ChiralTest2.mrv 62: 62: Test 62: 62: ChiralTest.mrv 62: 62: Test 62: 62: SnCl2.mrv 62: 62: Test 62: 62: SnH2Cl2.mrv 62: 62: Test 62: 62: marvin01.mrv 62: 62: Test 62: 62: marvin02.mrv 62: 62: Test 62: 62: marvin07.mrv 62: 62: Test 62: 62: marvin10.mrv 62: 62: Test 62: 62: marvin06.mrv 62: 62: Test 62: 62: marvin12.mrv 62: 62: Test 62: 62: EmptyMol.mrv 62: 62: Test 62: 62: Sparse.mrv 62: 62: Test 62: 62: Sparse2.mrv 62: 62: Test 62: 62: Sparse3.mrv 62: 62: Test 62: 62: MarvinNoCoords.mrv 62: 62: Test 62: 62: aspirin.mrv 62: 62: Test 62: 62: MarvinStereoGroupsZeros.mrv 62: 62: Test 62: 62: MarvinStereoGroupsAbs.mrv 62: 62: Test 62: 62: triphenylphosphine.mrv 62: 62: Test 62: 62: MarvinOldSuperGroupTest.mrv 62: 62: Test 62: 62: RadicalTests.mrv 62: 62: Test 62: 62: AnyBond.mrv 62: 62: Test 62: 62: cisBenzene.mrv 62: 62: Test 62: 62: DativeBond.mrv 62: 62: Test 62: 62: MultipleSgroup.mrv 62: 62: Test 62: 62: SgroupExpanded.mrv 62: 62: Test 62: 62: SgroupMultAttach.mrv 62: 62: Test 62: 62: MarvinMissingX2.mrv 62: 62: Test 62: 62: MarvinMissingY2.mrv 62: 62: Test 62: 62: DataSgroup.mrv 62: 62: Test 62: 62: MulticenterSgroup.mrv 62: 62: [01:19:18] Can't kekulize mol. Unkekulized atoms: 6 7 8 9 10 62: [01:19:18] Can't kekulize mol. Unkekulized atoms: 6 7 8 9 10 62: Test 62: 62: GenericSgroup.mrv 62: 62: Test 62: 62: MonomerSgroup.mrv 62: 62: Test 62: 62: modification_sgroup.mrv 62: 62: Test 62: 62: copolymer_sgroup.mrv 62: 62: Test 62: 62: MultipleSgroupParentInMiddleOfAtomBlock.mrv 62: 62: Test 62: 62: EmbeddedSgroups.mrv 62: 62: Test 62: 62: marvin03.mrv 62: 62: Test 62: 62: MarvinBadMissingMolID.mrv 62: 62: [01:19:18] 62: 62: **** 62: Test Assert 62: Expression Failed: 62: Violation occurred on line 309 in file ./Code/GraphMol/MarvinParse/testMrvToMol.cpp 62: Failed Expression: GetExpectedValue(expectedMrvName) == outMolStr 62: **** 62: 62: Test 62: 62: MarvinBadMissingAtomID.mrv 62: 62: Expected id, elementType for an atom definition in MRV file 62: Test 62: 62: MarvinBadX2.mrv 62: 62: The values x2 and y2 must be large floats in MRV file 62: Test 62: 62: MarvinBadY2.mrv 62: 62: The values x2 and y2 must be large floats in MRV file 62: Test 62: 62: MarvinBadStereoGroupsAbs.mrv 62: 62: Unrecognized group definition 62: Test 62: 62: MarvinBadElementType.mrv 62: 62: Test 62: 62: MarvinBadMissingBondID.mrv 62: 62: Test 62: 62: MarvinBadMissingBondAtomRefs 62: 62: Test 62: 62: MarvinBadMissingBondOrder.mrv 62: 62: bond must have one of: order, queryType, or convention in MRV File 62: Test 62: 62: MarvinBadMissingSruMolID.mrv 62: 62: Expected a molID in MRV file 62: Test 62: 62: MarvinBadMissingSruID.mrv 62: 62: Test 62: 62: MarvinBadMissingSruRole.mrv 62: 62: Test 62: 62: MarvinBadMissingSruAtomRef.mrv 62: 62: Test 62: 62: MarvinBadMissingSruTitle.mrv 62: 62: Test 62: 62: MarvinBadSruAtomRef.mrv 62: 62: AtomRef specification for an SRU, Copolymer, or Modification group definition was not found in any parent 62: Test 62: 62: MarvinBadSruID.mrv 62: 62: Test 62: 62: MarvinBadSruRole.mrv 62: 62: Test 62: 62: MarvinBadSruAtomRef.mrv 62: 62: AtomRef specification for an SRU, Copolymer, or Modification group definition was not found in any parent 62: Test 62: 62: MarvinBadSruAtomRef.mrv 62: 62: AtomRef specification for an SRU, Copolymer, or Modification group definition was not found in any parent 62: Test 62: 62: MarvinBadSruConnect.mrv 62: 62: Expected a connect string of "hh, ht, eu" for a SruSgroup definition in MRV file 62: Test 62: 62: MarvinBadSupAttachAtom.mrv 62: 62: Atom specification for an AttachmentPoint definition must be in the parent's atom array in MRV file 62: Test 62: 62: MarvinBadSupAttachBond.mrv 62: 62: Bond specification for an AttachmentPoint definition must be in the bond array in MRV file 62: Test 62: 62: MarvinBadSupAttachOrder.mrv 62: 62: Order for an AttachmentPoint definition must be an integer in MRV file 62: Test 62: 62: MarvinBadSupAttachAtom.mrv 62: 62: Atom specification for an AttachmentPoint definition must be in the parent's atom array in MRV file 62: Test 62: 62: MarvinBadSupAttachAtom.mrv 62: 62: Atom specification for an AttachmentPoint definition must be in the parent's atom array in MRV file 62: Test 62: 62: MarvinBadSupAttachAtom.mrv 62: 62: Atom specification for an AttachmentPoint definition must be in the parent's atom array in MRV file 62: Test 62: 62: MarvinBadSupMissingAttachBond.mrv 62: 62: No attachment point found for bond to the condensed atom in a superatomSgroup 62: Test 62: 62: MarvinBadSupMissingAttachOrder.mrv 62: 62: Expected atom, order and bond, for an AttachmentPoint definition in MRV file 62: Test 62: 62: marvin03.mrv 62: 62: Test 62: 62: AlexRxn.mrv 62: 62: Test 62: 62: BadReactionSign.mrv 62: 62: Test 62: 62: bondArray_node.mrv 62: 62: Test 62: 62: marvin03.mrv 62: 62: Test 62: 62: marvin04.mrv 62: 62: Test 62: 62: marvin08.mrv 62: 62: Test 62: 62: marvin09.mrv 62: 62: Test 62: 62: marvin11.mrv 62: 62: Test 62: 62: marvin05.mrv 62: 62: Test 62: 62: EmptyRxn.mrv 62: 62: [01:19:18] initialization failed 62: Test 62: 62: RxnNoCoords.mrv 62: 62: Test 62: 62: mrvValenceZero.mrv 62: 62: Test 62: 62: condition_coordinates_mpoint.mrv 62: 62: Test 62: 62: marvin01.mrv 62: 62: Test 62: 62: aspirineSynthesisWithAttributes.mrv 62: 62: Test 62: 62: marvin01.mrv 62: 62: Test 62: 62: NewChiralTest 62: 62: Test 62: 62: NewChiralTest 62: 62: Test 62: 62: NewChiralTestNoChiral 62: 62: Test 62: 62: NewChiralTestNoChiral 62: 62: Test 62: 62: NewChiralTest2 62: 62: Test 62: 62: NewChiralTest2 62: 62: Test 62: 62: NewChiralTest2AllChiral 62: 62: Test 62: 62: NewChiralTest2AllChiral 62: 62: Test 62: 62: DoubleBondChain 62: 62: Test 62: 62: Na_Mg_Al_OH 62: 62: Test 62: 62: Pb 62: 62: Test 62: 62: O_Mg_Si 62: 62: Test 62: 62: SquiggleBond 62: 62: Test 62: 62: BigMacrocycle 62: 62: Test 62: 62: Smiles1 62: 59/222 Test #62: testMrvToMol ........................... Passed 0.79 sec test 63 Start 63: fileParsersTest1 63: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/fileParsersTest1 63: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers 63: Test timeout computed to be: 1500 63: *************************************** 63: *************************************** 63: [01:19:18] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 63: [01:19:18] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 63: [01:19:18] bond with order 0 found on line 7. This is not part of the MDL specification. 63: [01:19:18] Skipping unrecognized collection type at line 26: MDLV30/HILITE BONDS=(1 7) 63: [01:19:18] Skipping unrecognized collection type at line 27: MDLV30/HILITE ATOMS=(1 7) 63: [01:19:18] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 63: generating smiles 63: smiles: c12n(C3OC(COP(OC4C(O)C(n5c(=O)[nH]c(=O)cc5)OC4COP(OC4C(O)C(n5c(=O)nc(N)cc5)OC4COP(OC4C(O)C(n5c6c(cc5)c(=O)[nH]c(N)n6)OC4COP(OC4C(O)C(n5c(=O)nc(N)cc5)OC4COP(OC4C(O)C(n5c6c(nc5)c(N)ncn6)OC4COP(OC4C(O)C(n5c6c(cc5)c(=O)[nH]c(N)n6)OC4COP(OC4C(O)C(n5c(=O)[nH]c(=O)cc5)OC4COP(OC4C(O)C(n5c(=O)nc(N)cc5)OC4COP(OC4C(O)C(n5c6c(nc5)c(N)ncn6)OC4COP(OC4C(O)C(n5c6c(nc5)c(N)ncn6)OC4CO)(=O)S)(=O)S)(=O)S)(S)=O)(S)=O)(=O)S)(=O)S)(S)=O)(=O)S)(S)=O)C(OP(S)(=O)OCC(COP(OC4C(O)C(n5c6c(cc5)c(=O)[nH]c(N)n6)OC4COP(OC4C(O)C(n5c(=O)[nH]c(=O)cc5)OC4COP(OC4C(O)C(n5c(=O)nc(N)cc5)OC4COP(OC4C(O)C(n5c6c(cc5)c(=O)[nH]c(N)n6)OC4COP(OC4C(O)C(n5c(=O)nc(N)cc5)OC4COP(OC4C(O)C(n5c6c(nc5)c(N)ncn6)OC4COP(OC4C(O)C(n5c6c(cc5)c(=O)[nH]c(N)n6)OC4COP(OC4C(O)C(n5c(=O)[nH]c(=O)cc5)OC4COP(OC4C(O)C(n5c(=O)nc(N)cc5)OC4COP(OC4C(O)C(n5c6c(nc5)c(N)ncn6)OC4COP(OC4C(O)C(n5c6c(nc5)c(N)ncn6)OC4CO)(=O)S)(=O)S)(=O)S)(S)=O)(S)=O)(=O)S)(=O)S)(S)=O)(=O)S)(S)=O)(S)=O)O)C3O)ccc1c(=O)[nH]c(N)n2 63: converting back 63: check isomorphism 63: [01:19:20] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 1 ignored 63: [01:19:20] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 1 ignored 63: [01:19:20] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 1 ignored 63: [01:19:20] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 1 ignored 63: [01:19:20] deprecated group abbreviation ignored on line 24 63: smiles: [1*]c1c([2*])c([3*])c([4*])c(-c2c([9*])oc3c([8*])c([7*])c([6*])c([5*])c3c2=O)c1[10*] 63: [01:19:20] 63: 63: **** 63: Post-condition Violation 63: Element 'Mv' not found 63: Violation occurred on line 93 in file ./Code/GraphMol/PeriodicTable.h 63: Failed Expression: anum > -1 63: **** 63: 63: [01:19:23] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 63: [01:19:23] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 63: ---------------------------------- 63: ---------------------------------- 63: [01:19:24] 63: 63: **** 63: Pre-condition Violation 63: rlabel out of range for MDL files 63: Violation occurred on line 776 in file ./Code/GraphMol/Atom.cpp 63: Failed Expression: rlabel >= 0 && rlabel < 100 63: **** 63: 63: [01:19:24] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 25: Checking against /<>/Code/ForceField/MMFF/test_data/MMFF94_reference.log... 25: All 191 tests passed 25: done 25: ------------------------------------- 25: Unit tests for all MMFF constraint terms. 63: [01:19:24] SMARTS Parse Error: syntax error while parsing: MyDogHasFleas 63: [01:19:24] SMARTS Parse Error: Failed parsing SMARTS 'MyDogHasFleas' for input: 'MyDogHasFleas' 25: 10.0003 63: [01:19:24] Empty atom list: 'M ALS 1 0 F' on line 8. 63: C 63: [01:19:24] ------------------------------------- 25: done 25: ------------------------------------- 25: Unit test for MMFF TorsionConstraint close to 0 degrees. 63: [01:19:24] Test multithreading Locale Switching 25: done 25: ------------------------------------- 25: Unit tests for copying MMFF ForceFields. 63: [01:19:24] Test multithreading (Done) 63: [01:19:24] ------------------------------------- 25: done 25: ------------------------------------- 63: *************************************** 63: *************************************** 25: Unit test for MMFF butane scan. 63: [01:19:24] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 63: [01:19:24] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 63: [01:19:24] bond with order 0 found on line 7. This is not part of the MDL specification. 63: [01:19:24] Skipping unrecognized collection type at line 26: MDLV30/HILITE BONDS=(1 7) 63: [01:19:24] Skipping unrecognized collection type at line 27: MDLV30/HILITE ATOMS=(1 7) 63: [01:19:24] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 63: generating smiles 63: smiles: c12n(C3OC(COP(OC4C(O)C(n5c(=O)[nH]c(=O)cc5)OC4COP(OC4C(O)C(n5c(=O)nc(N)cc5)OC4COP(OC4C(O)C(n5c6c(cc5)c(=O)[nH]c(N)n6)OC4COP(OC4C(O)C(n5c(=O)nc(N)cc5)OC4COP(OC4C(O)C(n5c6c(nc5)c(N)ncn6)OC4COP(OC4C(O)C(n5c6c(cc5)c(=O)[nH]c(N)n6)OC4COP(OC4C(O)C(n5c(=O)[nH]c(=O)cc5)OC4COP(OC4C(O)C(n5c(=O)nc(N)cc5)OC4COP(OC4C(O)C(n5c6c(nc5)c(N)ncn6)OC4COP(OC4C(O)C(n5c6c(nc5)c(N)ncn6)OC4CO)(=O)S)(=O)S)(=O)S)(S)=O)(S)=O)(=O)S)(=O)S)(S)=O)(=O)S)(S)=O)C(OP(S)(=O)OCC(COP(OC4C(O)C(n5c6c(cc5)c(=O)[nH]c(N)n6)OC4COP(OC4C(O)C(n5c(=O)[nH]c(=O)cc5)OC4COP(OC4C(O)C(n5c(=O)nc(N)cc5)OC4COP(OC4C(O)C(n5c6c(cc5)c(=O)[nH]c(N)n6)OC4COP(OC4C(O)C(n5c(=O)nc(N)cc5)OC4COP(OC4C(O)C(n5c6c(nc5)c(N)ncn6)OC4COP(OC4C(O)C(n5c6c(cc5)c(=O)[nH]c(N)n6)OC4COP(OC4C(O)C(n5c(=O)[nH]c(=O)cc5)OC4COP(OC4C(O)C(n5c(=O)nc(N)cc5)OC4COP(OC4C(O)C(n5c6c(nc5)c(N)ncn6)OC4COP(OC4C(O)C(n5c6c(nc5)c(N)ncn6)OC4CO)(=O)S)(=O)S)(=O)S)(S)=O)(S)=O)(=O)S)(=O)S)(S)=O)(=O)S)(S)=O)(S)=O)O)C3O)ccc1c(=O)[nH]c(N)n2 63: converting back 63: check isomorphism 25: done 60/222 Test #25: testMMFFForceField ..................... Passed 37.19 sec test 64 Start 64: testMolSupplier 64: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/testMolSupplier 64: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers 64: Test timeout computed to be: 1500 64: [01:19:25] 64: ----------------------------------------- 64: [01:19:25] 64: 64: **** 64: Invariant Violation 64: bad prop value 64: Violation occurred on line 158 in file ./Code/GraphMol/FileParsers/MaeMolSupplier.cpp 64: Failed Expression: nSwaps < 2 64: **** 64: 64: [01:19:25] Finished: testMolSup() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] Finished: testRandMolSup() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] Finished: testSmilesSup() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] ------------------------------------------------------ 64: [01:19:25] SMILES Parse Error: syntax error while parsing: fail 64: [01:19:25] SMILES Parse Error: Failed parsing SMILES 'fail' for input: 'fail' 64: [01:19:25] ERROR: Smiles parse error on line 3 64: [01:19:25] ERROR: Cannot create molecule from : 'fail' 64: [01:19:25] ------------------------------------------------------ 64: [01:19:25] ------------------------------------------------------ 64: [01:19:25] >>> This may result in an infinite loop. It should finish almost immediately: 64: [01:19:25] <<< done. 64: [01:19:25] Finished: testSmilesSupFromText() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] Finished: testSmilesWriter() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] Finished: testSDWriter() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] Finished: testSDSupplierEnding() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] Finished: testSuppliersEmptyFile() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] Finished: testCisTrans() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] Finished: testStereoRound() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 64: [01:19:25] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 64: [01:19:25] Finished: testIssue226() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] Finished: testTDTSupplier1() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] Finished: testTDTSupplier2() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] Finished: testTDTSupplier3() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] Finished: testSDSupplierFromText() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] ERROR: Problems encountered parsing data fields 64: [01:19:25] ERROR: moving to the beginning of the next molecule 64: [01:19:25] ERROR: Problems encountered parsing data fields 64: [01:19:25] ERROR: moving to the beginning of the next molecule 64: [01:19:25] Spurious data before the first property will be ignored 64: [01:19:25] Property will be truncated after the first blank line 64: [01:19:25] Property will be truncated after the first blank line 64: [01:19:25] Property will be truncated after the first blank line 64: [01:19:25] Finished: testSDSupplierStrLax1() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] ERROR: Problems encountered parsing data fields 64: [01:19:25] ERROR: moving to the beginning of the next molecule 64: [01:19:25] Property will be truncated after the first blank line 64: [01:19:25] Finished: testSDSupplierStrLax2() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] ERROR: Problems encountered parsing data fields 64: [01:19:25] ERROR: moving to the beginning of the next molecule 64: [01:19:25] ERROR: Problems encountered parsing data fields 64: [01:19:25] ERROR: moving to the beginning of the next molecule 64: [01:19:25] Spurious data before the first property will be ignored 64: [01:19:25] Property will be truncated after the first blank line 64: [01:19:25] Property will be truncated after the first blank line 64: [01:19:25] Property will be truncated after the first blank line 64: [01:19:25] Finished: testSDSupplierFromTextStrLax1() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] ERROR: Problems encountered parsing data fields 64: [01:19:25] ERROR: moving to the beginning of the next molecule 64: [01:19:25] Property will be truncated after the first blank line 64: [01:19:25] Finished: testSDSupplierFromTextStrLax2() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] Finished: testIssue265() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] ERROR: End of data field name not found 64: [01:19:25] ERROR: moving to the beginning of the next molecule 64: [01:19:25] Explicit valence for atom # 0 F, 2, is greater than permitted 64: [01:19:25] ERROR: Could not sanitize molecule ending on line 16 64: [01:19:25] ERROR: Explicit valence for atom # 0 F, 2, is greater than permitted 64: [01:19:25] ERROR: Atom line too short: ' 1 2 1 0 0 0 0' on line 12 64: [01:19:25] ERROR: moving to the beginning of the next molecule 64: [01:19:25] ERROR: Bond line too short: 'M END' on line 18 64: [01:19:25] ERROR: moving to the beginning of the next molecule 64: [01:19:25] Finished: testSDErrorHandling() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] Finished: testIssue381() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] Finished: testSetStreamIndices() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] Finished: testMixIterAndRandom() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: build: 64: [01:19:25] Finished: testRemoveHs() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] Finished: testGetItemText() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] Finished: testForwardSDSupplier() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] Finished: testMissingCRSDSupplier() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] Finished: testIssue3482695() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] ERROR: Cannot convert 'foo' to unsigned int on line 557 64: [01:19:25] ERROR: moving to the beginning of the next molecule 64: [01:19:25] Finished: testIssue3525673() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] Finished: testBlankLinesInProps() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] Finished: testSkipLines() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] Finished: testGitHub23() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] Finished: testGitHub88() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] Finished: testGitHub2285() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] SMILES Parse Error: unclosed ring for input: 'c1ccccc' 64: [01:19:25] ERROR: Smiles parse error on line 1 64: [01:19:25] ERROR: Cannot create molecule from : 'c1ccccc' 64: [01:19:25] SMILES Parse Error: extra open parentheses for input: 'C(C' 64: [01:19:25] ERROR: Smiles parse error on line 3 64: [01:19:25] ERROR: Cannot create molecule from : 'C(C' 64: [01:19:25] Explicit valence for atom # 1 C, 5, is greater than permitted 64: [01:19:25] ERROR: Could not sanitize molecule on line 5 64: [01:19:25] ERROR: Explicit valence for atom # 1 C, 5, is greater than permitted 64: [01:19:25] Explicit valence for atom # 1 F, 2, is greater than permitted 64: [01:19:25] ERROR: Could not sanitize molecule ending on line 21 64: [01:19:25] ERROR: Explicit valence for atom # 1 F, 2, is greater than permitted 64: [01:19:25] Explicit valence for atom # 1 F, 2, is greater than permitted 64: [01:19:25] ERROR: Could not sanitize molecule ending on line 21 64: [01:19:25] ERROR: Explicit valence for atom # 1 F, 2, is greater than permitted 64: [01:19:25] Explicit valence for atom # 1 F, 2, is greater than permitted 64: [01:19:25] ERROR: Could not sanitize molecule ending on line 21 64: [01:19:25] ERROR: Explicit valence for atom # 1 F, 2, is greater than permitted 64: [01:19:25] ERROR: Atom line too short: ' -9.6' on line 28 64: [01:19:25] ERROR: moving to the beginning of the next molecule 64: [01:19:25] Explicit valence for atom # 1 F, 2, is greater than permitted 64: [01:19:25] ERROR: Could not sanitize molecule ending on line 21 64: [01:19:25] ERROR: Explicit valence for atom # 1 F, 2, is greater than permitted 64: [01:19:25] ERROR: Atom line too short: ' -9.6' on line 28 64: [01:19:25] ERROR: moving to the beginning of the next molecule 64: [01:19:25] Finished: testGitHub2479() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] 64: 64: **** 64: Invariant Violation 64: bad chiral bond 64: Violation occurred on line 164 in file ./Code/GraphMol/FileParsers/MaeMolSupplier.cpp 64: Failed Expression: bnd 64: **** 64: 64: [01:19:25] Finished: testGitHub2881() 64: [01:19:25] ----------------------------------------- 64: 64: [01:19:25] ----------------------------------------- 64: [01:19:25] Finished: testGitHub3517() 64: [01:19:25] ----------------------------------------- 64: 61/222 Test #64: testMolSupplier ........................ Passed 0.55 sec test 65 Start 65: testGeneralFileReader 65: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/testGeneralFileReader 65: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers 65: Test timeout computed to be: 1500 65: [01:19:26] 65: ----------------------------------------- 65: [01:19:26] Finished: testDetermineFormat() 65: [01:19:26] ----------------------------------------- 65: 65: [01:19:26] 65: ----------------------------------------- 65: [01:19:26] Finished: testSdf() 65: [01:19:26] ----------------------------------------- 65: 65: [01:19:26] 65: ----------------------------------------- 65: [01:19:26] Finished: testSmi() 65: [01:19:26] ----------------------------------------- 65: 65: [01:19:26] 65: ----------------------------------------- 65: [01:19:26] Finished: testMae() 65: [01:19:26] ----------------------------------------- 65: 65: [01:19:26] 65: ----------------------------------------- 65: [01:19:26] Finished: testTdt() 65: [01:19:26] ----------------------------------------- 65: 62/222 Test #65: testGeneralFileReader .................. Passed 0.22 sec test 66 Start 66: testMultithreadedMolSupplier 66: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/testMultithreadedMolSupplier 66: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers 66: Test timeout computed to be: 1500 66: [01:19:26] 66: ----------------------------------------- 63: [01:19:26] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 1 ignored 63: [01:19:26] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 1 ignored 63: [01:19:26] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 1 ignored 63: [01:19:26] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 1 ignored 63: [01:19:26] deprecated group abbreviation ignored on line 24 63: smiles: [1*]c1c([2*])c([3*])c([4*])c(-c2c([9*])oc3c([8*])c([7*])c([6*])c([5*])c3c2=O)c1[10*] 63: [01:19:26] 63: 63: **** 63: Post-condition Violation 63: Element 'Mv' not found 63: Violation occurred on line 93 in file ./Code/GraphMol/PeriodicTable.h 63: Failed Expression: anum > -1 63: **** 63: 63: [01:19:30] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 63: [01:19:30] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 63: ---------------------------------- 63: ---------------------------------- 63: [01:19:30] 63: 63: **** 63: Pre-condition Violation 63: rlabel out of range for MDL files 63: Violation occurred on line 776 in file ./Code/GraphMol/Atom.cpp 63: Failed Expression: rlabel >= 0 && rlabel < 100 63: **** 63: 63: [01:19:30] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 63: [01:19:31] SMARTS Parse Error: syntax error while parsing: MyDogHasFleas 63: [01:19:31] SMARTS Parse Error: Failed parsing SMARTS 'MyDogHasFleas' for input: 'MyDogHasFleas' 63: [01:19:31] Empty atom list: 'M ALS 1 0 F' on line 8. 63/222 Test #63: fileParsersTest1 ....................... Passed 12.80 sec test 67 Start 67: testMolWriter 67: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/testMolWriter 67: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers 67: Test timeout computed to be: 1500 67: [01:19:32] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 67: [01:19:32] bond with order 0 found on line 11. This is not part of the MDL specification. 67: [01:19:32] bond with order 0 found on line 16. This is not part of the MDL specification. 64/222 Test #67: testMolWriter .......................... Passed 1.10 sec test 68 Start 68: testTplParser 68: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/testTplParser 68: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers 68: Test timeout computed to be: 1500 65/222 Test #68: testTplParser .......................... Passed 0.11 sec test 69 Start 69: testMol2ToMol 69: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/testMol2ToMol 69: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers 69: Test timeout computed to be: 1500 66/222 Test #69: testMol2ToMol .......................... Passed 0.10 sec test 70 Start 70: testSequence 70: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/testSequence 70: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers 70: Test timeout computed to be: 1500 70: Sequence: GREG 70: HELM: PEPTIDE1{G.R.E.G}$$$$ 70: Smiles: N=C(N)NCCC[C@H](NC(=O)CN)C(=O)N[C@@H](CCC(=O)O)C(=O)NCC(=O)O 70: PDB: 70: ATOM 1 N GLY A 1 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 2 CA GLY A 1 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 3 C GLY A 1 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 4 O GLY A 1 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 5 N ARG A 2 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 6 CA ARG A 2 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 7 C ARG A 2 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 8 O ARG A 2 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 9 CB ARG A 2 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 10 CG ARG A 2 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 11 CD ARG A 2 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 12 NE ARG A 2 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 13 CZ ARG A 2 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 14 NH1 ARG A 2 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 15 NH2 ARG A 2 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 16 N GLU A 3 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 17 CA GLU A 3 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 18 C GLU A 3 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 19 O GLU A 3 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 20 CB GLU A 3 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 21 CG GLU A 3 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 22 CD GLU A 3 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 23 OE1 GLU A 3 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 24 OE2 GLU A 3 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 25 N GLY A 4 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 26 CA GLY A 4 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 27 C GLY A 4 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 28 O GLY A 4 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 29 OXT GLY A 4 0.000 0.000 0.000 1.00 0.00 O 70: CONECT 1 2 70: CONECT 2 3 70: CONECT 3 4 4 5 70: CONECT 5 6 70: CONECT 6 7 9 70: CONECT 7 8 8 16 70: CONECT 9 10 70: CONECT 10 11 70: CONECT 11 12 70: CONECT 12 13 70: CONECT 13 14 14 15 70: CONECT 16 17 70: CONECT 17 18 20 70: CONECT 18 19 19 25 70: CONECT 20 21 70: CONECT 21 22 70: CONECT 22 23 23 24 70: CONECT 25 26 70: CONECT 26 27 70: CONECT 27 28 28 29 70: END 70: 70: Sequence: TTCCPSIVARSNFNVCRLPGTPEAICATYTGCIIIPGATCPGDYAN 70: HELM: PEPTIDE1{T.T.C.C.P.S.I.V.A.R.S.N.F.N.V.C.R.L.P.G.T.P.E.A.I.C.A.T.Y.T.G.C.I.I.I.P.G.A.T.C.P.G.D.Y.A.N}$$$$ 70: Smiles: CC[C@H](C)[C@H](NC(=O)[C@H](C)NC(=O)[C@H](CCC(=O)O)NC(=O)[C@@H]1CCCN1C(=O)[C@@H](NC(=O)CNC(=O)[C@@H]1CCCN1C(=O)[C@H](CC(C)C)NC(=O)[C@H](CCCNC(=N)N)NC(=O)[C@H](CS)NC(=O)[C@@H](NC(=O)[C@H](CC(N)=O)NC(=O)[C@H](Cc1ccccc1)NC(=O)[C@H](CC(N)=O)NC(=O)[C@H](CO)NC(=O)[C@H](CCCNC(=N)N)NC(=O)[C@H](C)NC(=O)[C@@H](NC(=O)[C@@H](NC(=O)[C@H](CO)NC(=O)[C@@H]1CCCN1C(=O)[C@H](CS)NC(=O)[C@H](CS)NC(=O)[C@@H](NC(=O)[C@@H](N)[C@@H](C)O)[C@@H](C)O)[C@@H](C)CC)C(C)C)C(C)C)[C@@H](C)O)C(=O)N[C@@H](CS)C(=O)N[C@@H](C)C(=O)N[C@H](C(=O)N[C@@H](Cc1ccc(O)cc1)C(=O)N[C@H](C(=O)NCC(=O)N[C@@H](CS)C(=O)N[C@H](C(=O)N[C@H](C(=O)N[C@H](C(=O)N1CCC[C@H]1C(=O)NCC(=O)N[C@@H](C)C(=O)N[C@H](C(=O)N[C@@H](CS)C(=O)N1CCC[C@H]1C(=O)NCC(=O)N[C@@H](CC(=O)O)C(=O)N[C@@H](Cc1ccc(O)cc1)C(=O)N[C@@H](C)C(=O)N[C@@H](CC(N)=O)C(=O)O)[C@@H](C)O)[C@@H](C)CC)[C@@H](C)CC)[C@@H](C)CC)[C@@H](C)O)[C@@H](C)O 70: PDB: 70: ATOM 1 N THR A 1 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 2 CA THR A 1 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 3 C THR A 1 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 4 O THR A 1 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 5 CB THR A 1 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 6 OG1 THR A 1 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 7 CG2 THR A 1 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 8 N THR A 2 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 9 CA THR A 2 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 10 C THR A 2 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 11 O THR A 2 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 12 CB THR A 2 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 13 OG1 THR A 2 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 14 CG2 THR A 2 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 15 N CYS A 3 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 16 CA CYS A 3 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 17 C CYS A 3 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 18 O CYS A 3 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 19 CB CYS A 3 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 20 SG CYS A 3 0.000 0.000 0.000 1.00 0.00 S 70: ATOM 21 N CYS A 4 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 22 CA CYS A 4 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 23 C CYS A 4 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 24 O CYS A 4 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 25 CB CYS A 4 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 26 SG CYS A 4 0.000 0.000 0.000 1.00 0.00 S 70: ATOM 27 N PRO A 5 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 28 CA PRO A 5 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 29 C PRO A 5 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 30 O PRO A 5 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 31 CB PRO A 5 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 32 CG PRO A 5 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 33 CD PRO A 5 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 34 N SER A 6 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 35 CA SER A 6 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 36 C SER A 6 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 37 O SER A 6 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 38 CB SER A 6 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 39 OG SER A 6 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 40 N ILE A 7 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 41 CA ILE A 7 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 42 C ILE A 7 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 43 O ILE A 7 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 44 CB ILE A 7 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 45 CG1 ILE A 7 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 46 CG2 ILE A 7 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 47 CD1 ILE A 7 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 48 N VAL A 8 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 49 CA VAL A 8 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 50 C VAL A 8 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 51 O VAL A 8 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 52 CB VAL A 8 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 53 CG1 VAL A 8 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 54 CG2 VAL A 8 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 55 N ALA A 9 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 56 CA ALA A 9 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 57 C ALA A 9 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 58 O ALA A 9 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 59 CB ALA A 9 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 60 N ARG A 10 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 61 CA ARG A 10 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 62 C ARG A 10 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 63 O ARG A 10 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 64 CB ARG A 10 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 65 CG ARG A 10 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 66 CD ARG A 10 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 67 NE ARG A 10 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 68 CZ ARG A 10 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 69 NH1 ARG A 10 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 70 NH2 ARG A 10 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 71 N SER A 11 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 72 CA SER A 11 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 73 C SER A 11 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 74 O SER A 11 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 75 CB SER A 11 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 76 OG SER A 11 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 77 N ASN A 12 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 78 CA ASN A 12 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 79 C ASN A 12 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 80 O ASN A 12 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 81 CB ASN A 12 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 82 CG ASN A 12 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 83 OD1 ASN A 12 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 84 ND2 ASN A 12 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 85 N PHE A 13 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 86 CA PHE A 13 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 87 C PHE A 13 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 88 O PHE A 13 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 89 CB PHE A 13 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 90 CG PHE A 13 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 91 CD1 PHE A 13 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 92 CD2 PHE A 13 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 93 CE1 PHE A 13 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 94 CE2 PHE A 13 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 95 CZ PHE A 13 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 96 N ASN A 14 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 97 CA ASN A 14 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 98 C ASN A 14 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 99 O ASN A 14 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 100 CB ASN A 14 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 101 CG ASN A 14 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 102 OD1 ASN A 14 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 103 ND2 ASN A 14 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 104 N VAL A 15 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 105 CA VAL A 15 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 106 C VAL A 15 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 107 O VAL A 15 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 108 CB VAL A 15 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 109 CG1 VAL A 15 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 110 CG2 VAL A 15 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 111 N CYS A 16 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 112 CA CYS A 16 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 113 C CYS A 16 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 114 O CYS A 16 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 115 CB CYS A 16 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 116 SG CYS A 16 0.000 0.000 0.000 1.00 0.00 S 70: ATOM 117 N ARG A 17 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 118 CA ARG A 17 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 119 C ARG A 17 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 120 O ARG A 17 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 121 CB ARG A 17 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 122 CG ARG A 17 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 123 CD ARG A 17 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 124 NE ARG A 17 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 125 CZ ARG A 17 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 126 NH1 ARG A 17 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 127 NH2 ARG A 17 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 128 N LEU A 18 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 129 CA LEU A 18 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 130 C LEU A 18 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 131 O LEU A 18 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 132 CB LEU A 18 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 133 CG LEU A 18 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 134 CD1 LEU A 18 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 135 CD2 LEU A 18 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 136 N PRO A 19 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 137 CA PRO A 19 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 138 C PRO A 19 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 139 O PRO A 19 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 140 CB PRO A 19 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 141 CG PRO A 19 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 142 CD PRO A 19 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 143 N GLY A 20 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 144 CA GLY A 20 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 145 C GLY A 20 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 146 O GLY A 20 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 147 N THR A 21 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 148 CA THR A 21 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 149 C THR A 21 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 150 O THR A 21 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 151 CB THR A 21 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 152 OG1 THR A 21 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 153 CG2 THR A 21 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 154 N PRO A 22 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 155 CA PRO A 22 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 156 C PRO A 22 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 157 O PRO A 22 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 158 CB PRO A 22 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 159 CG PRO A 22 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 160 CD PRO A 22 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 161 N GLU A 23 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 162 CA GLU A 23 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 163 C GLU A 23 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 164 O GLU A 23 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 165 CB GLU A 23 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 166 CG GLU A 23 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 167 CD GLU A 23 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 168 OE1 GLU A 23 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 169 OE2 GLU A 23 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 170 N ALA A 24 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 171 CA ALA A 24 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 172 C ALA A 24 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 173 O ALA A 24 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 174 CB ALA A 24 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 175 N ILE A 25 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 176 CA ILE A 25 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 177 C ILE A 25 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 178 O ILE A 25 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 179 CB ILE A 25 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 180 CG1 ILE A 25 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 181 CG2 ILE A 25 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 182 CD1 ILE A 25 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 183 N CYS A 26 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 184 CA CYS A 26 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 185 C CYS A 26 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 186 O CYS A 26 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 187 CB CYS A 26 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 188 SG CYS A 26 0.000 0.000 0.000 1.00 0.00 S 70: ATOM 189 N ALA A 27 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 190 CA ALA A 27 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 191 C ALA A 27 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 192 O ALA A 27 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 193 CB ALA A 27 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 194 N THR A 28 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 195 CA THR A 28 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 196 C THR A 28 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 197 O THR A 28 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 198 CB THR A 28 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 199 OG1 THR A 28 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 200 CG2 THR A 28 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 201 N TYR A 29 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 202 CA TYR A 29 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 203 C TYR A 29 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 204 O TYR A 29 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 205 CB TYR A 29 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 206 CG TYR A 29 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 207 CD1 TYR A 29 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 208 CD2 TYR A 29 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 209 CE1 TYR A 29 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 210 CE2 TYR A 29 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 211 CZ TYR A 29 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 212 OH TYR A 29 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 213 N THR A 30 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 214 CA THR A 30 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 215 C THR A 30 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 216 O THR A 30 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 217 CB THR A 30 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 218 OG1 THR A 30 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 219 CG2 THR A 30 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 220 N GLY A 31 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 221 CA GLY A 31 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 222 C GLY A 31 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 223 O GLY A 31 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 224 N CYS A 32 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 225 CA CYS A 32 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 226 C CYS A 32 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 227 O CYS A 32 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 228 CB CYS A 32 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 229 SG CYS A 32 0.000 0.000 0.000 1.00 0.00 S 70: ATOM 230 N ILE A 33 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 231 CA ILE A 33 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 232 C ILE A 33 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 233 O ILE A 33 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 234 CB ILE A 33 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 235 CG1 ILE A 33 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 236 CG2 ILE A 33 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 237 CD1 ILE A 33 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 238 N ILE A 34 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 239 CA ILE A 34 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 240 C ILE A 34 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 241 O ILE A 34 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 242 CB ILE A 34 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 243 CG1 ILE A 34 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 244 CG2 ILE A 34 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 245 CD1 ILE A 34 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 246 N ILE A 35 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 247 CA ILE A 35 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 248 C ILE A 35 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 249 O ILE A 35 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 250 CB ILE A 35 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 251 CG1 ILE A 35 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 252 CG2 ILE A 35 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 253 CD1 ILE A 35 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 254 N PRO A 36 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 255 CA PRO A 36 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 256 C PRO A 36 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 257 O PRO A 36 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 258 CB PRO A 36 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 259 CG PRO A 36 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 260 CD PRO A 36 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 261 N GLY A 37 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 262 CA GLY A 37 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 263 C GLY A 37 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 264 O GLY A 37 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 265 N ALA A 38 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 266 CA ALA A 38 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 267 C ALA A 38 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 268 O ALA A 38 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 269 CB ALA A 38 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 270 N THR A 39 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 271 CA THR A 39 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 272 C THR A 39 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 273 O THR A 39 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 274 CB THR A 39 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 275 OG1 THR A 39 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 276 CG2 THR A 39 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 277 N CYS A 40 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 278 CA CYS A 40 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 279 C CYS A 40 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 280 O CYS A 40 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 281 CB CYS A 40 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 282 SG CYS A 40 0.000 0.000 0.000 1.00 0.00 S 70: ATOM 283 N PRO A 41 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 284 CA PRO A 41 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 285 C PRO A 41 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 286 O PRO A 41 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 287 CB PRO A 41 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 288 CG PRO A 41 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 289 CD PRO A 41 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 290 N GLY A 42 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 291 CA GLY A 42 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 292 C GLY A 42 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 293 O GLY A 42 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 294 N ASP A 43 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 295 CA ASP A 43 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 296 C ASP A 43 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 297 O ASP A 43 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 298 CB ASP A 43 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 299 CG ASP A 43 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 300 OD1 ASP A 43 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 301 OD2 ASP A 43 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 302 N TYR A 44 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 303 CA TYR A 44 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 304 C TYR A 44 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 305 O TYR A 44 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 306 CB TYR A 44 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 307 CG TYR A 44 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 308 CD1 TYR A 44 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 309 CD2 TYR A 44 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 310 CE1 TYR A 44 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 311 CE2 TYR A 44 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 312 CZ TYR A 44 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 313 OH TYR A 44 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 314 N ALA A 45 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 315 CA ALA A 45 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 316 C ALA A 45 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 317 O ALA A 45 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 318 CB ALA A 45 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 319 N ASN A 46 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 320 CA ASN A 46 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 321 C ASN A 46 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 322 O ASN A 46 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 323 CB ASN A 46 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 324 CG ASN A 46 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 325 OD1 ASN A 46 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 326 ND2 ASN A 46 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 327 OXT ASN A 46 0.000 0.000 0.000 1.00 0.00 O 70: CONECT 1 2 70: CONECT 2 3 5 70: CONECT 3 4 4 8 70: CONECT 5 6 7 70: CONECT 8 9 70: CONECT 9 10 12 70: CONECT 10 11 11 15 70: CONECT 12 13 14 70: CONECT 15 16 70: CONECT 16 17 19 70: CONECT 17 18 18 21 70: CONECT 19 20 70: CONECT 21 22 70: CONECT 22 23 25 70: CONECT 23 24 24 27 70: CONECT 25 26 70: CONECT 27 28 33 70: CONECT 28 29 31 70: CONECT 29 30 30 34 70: CONECT 31 32 70: CONECT 32 33 70: CONECT 34 35 70: CONECT 35 36 38 70: CONECT 36 37 37 40 70: CONECT 38 39 70: CONECT 40 41 70: CONECT 41 42 44 70: CONECT 42 43 43 48 70: CONECT 44 45 46 70: CONECT 46 47 70: CONECT 48 49 70: CONECT 49 50 52 70: CONECT 50 51 51 55 70: CONECT 52 53 54 70: CONECT 55 56 70: CONECT 56 57 59 70: CONECT 57 58 58 60 70: CONECT 60 61 70: CONECT 61 62 64 70: CONECT 62 63 63 71 70: CONECT 64 65 70: CONECT 65 66 70: CONECT 66 67 70: CONECT 67 68 70: CONECT 68 69 69 70 70: CONECT 71 72 70: CONECT 72 73 75 70: CONECT 73 74 74 77 70: CONECT 75 76 70: CONECT 77 78 70: CONECT 78 79 81 70: CONECT 79 80 80 85 70: CONECT 81 82 70: CONECT 82 83 83 84 70: CONECT 85 86 70: CONECT 86 87 89 70: CONECT 87 88 88 96 70: CONECT 89 90 70: CONECT 90 91 91 92 70: CONECT 91 93 70: CONECT 92 94 94 70: CONECT 93 95 95 70: CONECT 94 95 70: CONECT 96 97 70: CONECT 97 98 100 70: CONECT 98 99 99 104 70: CONECT 100 101 70: CONECT 101 102 102 103 70: CONECT 104 105 70: CONECT 105 106 108 70: CONECT 106 107 107 111 70: CONECT 108 109 110 70: CONECT 111 112 70: CONECT 112 113 115 70: CONECT 113 114 114 117 70: CONECT 115 116 70: CONECT 117 118 70: CONECT 118 119 121 70: CONECT 119 120 120 128 70: CONECT 121 122 70: CONECT 122 123 70: CONECT 123 124 70: CONECT 124 125 70: CONECT 125 126 126 127 70: CONECT 128 129 70: CONECT 129 130 132 70: CONECT 130 131 131 136 70: CONECT 132 133 70: CONECT 133 134 135 70: CONECT 136 137 142 70: CONECT 137 138 140 70: CONECT 138 139 139 143 70: CONECT 140 141 70: CONECT 141 142 70: CONECT 143 144 70: CONECT 144 145 70: CONECT 145 146 146 147 70: CONECT 147 148 70: CONECT 148 149 151 70: CONECT 149 150 150 154 70: CONECT 151 152 153 70: CONECT 154 155 160 70: CONECT 155 156 158 70: CONECT 156 157 157 161 70: CONECT 158 159 70: CONECT 159 160 70: CONECT 161 162 70: CONECT 162 163 165 70: CONECT 163 164 164 170 70: CONECT 165 166 70: CONECT 166 167 70: CONECT 167 168 168 169 70: CONECT 170 171 70: CONECT 171 172 174 70: CONECT 172 173 173 175 70: CONECT 175 176 70: CONECT 176 177 179 70: CONECT 177 178 178 183 70: CONECT 179 180 181 70: CONECT 181 182 70: CONECT 183 184 70: CONECT 184 185 187 70: CONECT 185 186 186 189 70: CONECT 187 188 70: CONECT 189 190 70: CONECT 190 191 193 70: CONECT 191 192 192 194 70: CONECT 194 195 70: CONECT 195 196 198 70: CONECT 196 197 197 201 70: CONECT 198 199 200 70: CONECT 201 202 70: CONECT 202 203 205 70: CONECT 203 204 204 213 70: CONECT 205 206 70: CONECT 206 207 207 208 70: CONECT 207 209 70: CONECT 208 210 210 70: CONECT 209 211 211 70: CONECT 210 211 70: CONECT 211 212 70: CONECT 213 214 70: CONECT 214 215 217 70: CONECT 215 216 216 220 70: CONECT 217 218 219 70: CONECT 220 221 70: CONECT 221 222 70: CONECT 222 223 223 224 70: CONECT 224 225 70: CONECT 225 226 228 70: CONECT 226 227 227 230 70: CONECT 228 229 70: CONECT 230 231 70: CONECT 231 232 234 70: CONECT 232 233 233 238 70: CONECT 234 235 236 70: CONECT 236 237 70: CONECT 238 239 70: CONECT 239 240 242 70: CONECT 240 241 241 246 70: CONECT 242 243 244 70: CONECT 244 245 70: CONECT 246 247 70: CONECT 247 248 250 70: CONECT 248 249 249 254 70: CONECT 250 251 252 70: CONECT 252 253 70: CONECT 254 255 260 70: CONECT 255 256 258 70: CONECT 256 257 257 261 70: CONECT 258 259 70: CONECT 259 260 70: CONECT 261 262 70: CONECT 262 263 70: CONECT 263 264 264 265 70: CONECT 265 266 70: CONECT 266 267 269 70: CONECT 267 268 268 270 70: CONECT 270 271 70: CONECT 271 272 274 70: CONECT 272 273 273 277 70: CONECT 274 275 276 70: CONECT 277 278 70: CONECT 278 279 281 70: CONECT 279 280 280 283 70: CONECT 281 282 70: CONECT 283 284 289 70: CONECT 284 285 287 70: CONECT 285 286 286 290 70: CONECT 287 288 70: CONECT 288 289 70: CONECT 290 291 70: CONECT 291 292 70: CONECT 292 293 293 294 70: CONECT 294 295 70: CONECT 295 296 298 70: CONECT 296 297 297 302 70: CONECT 298 299 70: CONECT 299 300 300 301 70: CONECT 302 303 70: CONECT 303 304 306 70: CONECT 304 305 305 314 70: CONECT 306 307 70: CONECT 307 308 308 309 70: CONECT 308 310 70: CONECT 309 311 311 70: CONECT 310 312 312 70: CONECT 311 312 70: CONECT 312 313 70: CONECT 314 315 70: CONECT 315 316 318 70: CONECT 316 317 317 319 70: CONECT 319 320 70: CONECT 320 321 323 70: CONECT 321 322 322 327 70: CONECT 323 324 70: CONECT 324 325 325 326 70: END 70: 70: Sequence: GREG 70: HELM: PEPTIDE1{G.R.E.G}$$$$ 70: Smiles: N=C(N)NCCC[C@H](NC(=O)CN)C(=O)N[C@@H](CCC(=O)O)C(=O)NCC(=O)O 70: PDB: 70: ATOM 1 N GLY A 1 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 2 CA GLY A 1 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 3 C GLY A 1 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 4 O GLY A 1 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 5 N ARG A 2 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 6 CA ARG A 2 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 7 C ARG A 2 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 8 O ARG A 2 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 9 CB ARG A 2 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 10 CG ARG A 2 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 11 CD ARG A 2 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 12 NE ARG A 2 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 13 CZ ARG A 2 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 14 NH1 ARG A 2 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 15 NH2 ARG A 2 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 16 N GLU A 3 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 17 CA GLU A 3 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 18 C GLU A 3 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 19 O GLU A 3 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 20 CB GLU A 3 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 21 CG GLU A 3 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 22 CD GLU A 3 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 23 OE1 GLU A 3 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 24 OE2 GLU A 3 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 25 N GLY A 4 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 26 CA GLY A 4 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 27 C GLY A 4 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 28 O GLY A 4 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 29 OXT GLY A 4 0.000 0.000 0.000 1.00 0.00 O 70: CONECT 1 2 70: CONECT 2 3 70: CONECT 3 4 4 5 70: CONECT 5 6 70: CONECT 6 7 9 70: CONECT 7 8 8 16 70: CONECT 9 10 70: CONECT 10 11 70: CONECT 11 12 70: CONECT 12 13 70: CONECT 13 14 14 15 70: CONECT 16 17 70: CONECT 17 18 20 70: CONECT 18 19 19 25 70: CONECT 20 21 70: CONECT 21 22 70: CONECT 22 23 23 24 70: CONECT 25 26 70: CONECT 26 27 70: CONECT 27 28 28 29 70: END 70: 70: Sequence: CYIQNCPLG 70: HELM: PEPTIDE1{C.Y.I.Q.N.C.P.L.G.[am]}$PEPTIDE1,PEPTIDE1,1:R3-6:R3$$$ 70: Smiles: CC[C@H](C)[C@@H]1NC(=O)[C@H](Cc2ccc(O)cc2)NC(=O)[C@@H](N)CSSC[C@@H](C(=O)N2CCC[C@H]2C(=O)N[C@@H](CC(C)C)C(=O)NCC(N)=O)NC(=O)[C@H](CC(N)=O)NC(=O)[C@H](CCC(N)=O)NC1=O 70: PDB: 70: ATOM 1 N CYS A 1 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 2 CA CYS A 1 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 3 C CYS A 1 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 4 O CYS A 1 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 5 CB CYS A 1 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 6 SG CYS A 1 0.000 0.000 0.000 1.00 0.00 S 70: ATOM 7 N TYR A 2 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 8 CA TYR A 2 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 9 C TYR A 2 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 10 O TYR A 2 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 11 CB TYR A 2 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 12 CG TYR A 2 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 13 CD1 TYR A 2 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 14 CD2 TYR A 2 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 15 CE1 TYR A 2 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 16 CE2 TYR A 2 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 17 CZ TYR A 2 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 18 OH TYR A 2 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 19 N ILE A 3 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 20 CA ILE A 3 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 21 C ILE A 3 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 22 O ILE A 3 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 23 CB ILE A 3 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 24 CG1 ILE A 3 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 25 CG2 ILE A 3 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 26 CD1 ILE A 3 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 27 N GLN A 4 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 28 CA GLN A 4 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 29 C GLN A 4 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 30 O GLN A 4 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 31 CB GLN A 4 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 32 CG GLN A 4 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 33 CD GLN A 4 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 34 OE1 GLN A 4 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 35 NE2 GLN A 4 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 36 N ASN A 5 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 37 CA ASN A 5 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 38 C ASN A 5 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 39 O ASN A 5 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 40 CB ASN A 5 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 41 CG ASN A 5 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 42 OD1 ASN A 5 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 43 ND2 ASN A 5 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 44 N CYS A 6 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 45 CA CYS A 6 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 46 C CYS A 6 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 47 O CYS A 6 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 48 CB CYS A 6 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 49 SG CYS A 6 0.000 0.000 0.000 1.00 0.00 S 70: ATOM 50 N PRO A 7 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 51 CA PRO A 7 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 52 C PRO A 7 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 53 O PRO A 7 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 54 CB PRO A 7 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 55 CG PRO A 7 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 56 CD PRO A 7 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 57 N LEU A 8 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 58 CA LEU A 8 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 59 C LEU A 8 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 60 O LEU A 8 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 61 CB LEU A 8 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 62 CG LEU A 8 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 63 CD1 LEU A 8 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 64 CD2 LEU A 8 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 65 N GLY A 9 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 66 CA GLY A 9 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 67 C GLY A 9 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 68 O GLY A 9 0.000 0.000 0.000 1.00 0.00 O 70: HETATM 69 N NH2 A 10 0.000 0.000 0.000 1.00 0.00 N 70: CONECT 1 2 70: CONECT 2 3 5 70: CONECT 3 4 4 7 70: CONECT 5 6 70: CONECT 6 49 70: CONECT 7 8 70: CONECT 8 9 11 70: CONECT 9 10 10 19 70: CONECT 11 12 70: CONECT 12 13 13 14 70: CONECT 13 15 70: CONECT 14 16 16 70: CONECT 15 17 17 70: CONECT 16 17 70: CONECT 17 18 70: CONECT 19 20 70: CONECT 20 21 23 70: CONECT 21 22 22 27 70: CONECT 23 24 25 70: CONECT 25 26 70: CONECT 27 28 70: CONECT 28 29 31 70: CONECT 29 30 30 36 70: CONECT 31 32 70: CONECT 32 33 70: CONECT 33 34 34 35 70: CONECT 36 37 70: CONECT 37 38 40 70: CONECT 38 39 39 44 70: CONECT 40 41 70: CONECT 41 42 42 43 70: CONECT 44 45 70: CONECT 45 46 48 70: CONECT 46 47 47 50 70: CONECT 48 49 70: CONECT 50 51 56 70: CONECT 51 52 54 70: CONECT 52 53 53 57 70: CONECT 54 55 70: CONECT 55 56 70: CONECT 57 58 70: CONECT 58 59 61 70: CONECT 59 60 60 65 70: CONECT 61 62 70: CONECT 62 63 64 70: CONECT 65 66 70: CONECT 66 67 70: CONECT 67 68 68 69 70: END 70: 70: Sequence: LfPVXLfPVX 70: HELM: PEPTIDE1{L.[dF].P.V.[Orn].L.[dF].P.V.[Orn]}$PEPTIDE1,PEPTIDE1,10:R2-1:R1$$$ 70: Smiles: CC(C)C[C@@H]1NC(=O)[C@H](CCCN)NC(=O)[C@H](C(C)C)NC(=O)[C@@H]2CCCN2C(=O)[C@@H](Cc2ccccc2)NC(=O)[C@H](CC(C)C)NC(=O)[C@H](CCCN)NC(=O)[C@H](C(C)C)NC(=O)[C@@H]2CCCN2C(=O)[C@@H](Cc2ccccc2)NC1=O 70: PDB: 70: ATOM 1 N LEU A 1 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 2 CA LEU A 1 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 3 C LEU A 1 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 4 O LEU A 1 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 5 CB LEU A 1 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 6 CG LEU A 1 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 7 CD1 LEU A 1 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 8 CD2 LEU A 1 0.000 0.000 0.000 1.00 0.00 C 70: HETATM 9 N DPN A 2 0.000 0.000 0.000 1.00 0.00 N 70: HETATM 10 CA DPN A 2 0.000 0.000 0.000 1.00 0.00 C 70: HETATM 11 C DPN A 2 0.000 0.000 0.000 1.00 0.00 C 70: HETATM 12 O DPN A 2 0.000 0.000 0.000 1.00 0.00 O 70: HETATM 13 CB DPN A 2 0.000 0.000 0.000 1.00 0.00 C 70: HETATM 14 CG DPN A 2 0.000 0.000 0.000 1.00 0.00 C 70: HETATM 15 CD1 DPN A 2 0.000 0.000 0.000 1.00 0.00 C 70: HETATM 16 CD2 DPN A 2 0.000 0.000 0.000 1.00 0.00 C 70: HETATM 17 CE1 DPN A 2 0.000 0.000 0.000 1.00 0.00 C 70: HETATM 18 CE2 DPN A 2 0.000 0.000 0.000 1.00 0.00 C 70: HETATM 19 CZ DPN A 2 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 20 N PRO A 3 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 21 CA PRO A 3 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 22 C PRO A 3 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 23 O PRO A 3 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 24 CB PRO A 3 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 25 CG PRO A 3 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 26 CD PRO A 3 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 27 N VAL A 4 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 28 CA VAL A 4 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 29 C VAL A 4 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 30 O VAL A 4 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 31 CB VAL A 4 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 32 CG1 VAL A 4 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 33 CG2 VAL A 4 0.000 0.000 0.000 1.00 0.00 C 70: HETATM 34 N ORN A 5 0.000 0.000 0.000 1.00 0.00 N 70: HETATM 35 CA ORN A 5 0.000 0.000 0.000 1.00 0.00 C 70: HETATM 36 C ORN A 5 0.000 0.000 0.000 1.00 0.00 C 70: HETATM 37 O ORN A 5 0.000 0.000 0.000 1.00 0.00 O 70: HETATM 38 CB ORN A 5 0.000 0.000 0.000 1.00 0.00 C 70: HETATM 39 CG ORN A 5 0.000 0.000 0.000 1.00 0.00 C 70: HETATM 40 CD ORN A 5 0.000 0.000 0.000 1.00 0.00 C 70: HETATM 41 NE ORN A 5 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 42 N LEU A 6 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 43 CA LEU A 6 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 44 C LEU A 6 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 45 O LEU A 6 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 46 CB LEU A 6 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 47 CG LEU A 6 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 48 CD1 LEU A 6 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 49 CD2 LEU A 6 0.000 0.000 0.000 1.00 0.00 C 70: HETATM 50 N DPN A 7 0.000 0.000 0.000 1.00 0.00 N 70: HETATM 51 CA DPN A 7 0.000 0.000 0.000 1.00 0.00 C 70: HETATM 52 C DPN A 7 0.000 0.000 0.000 1.00 0.00 C 70: HETATM 53 O DPN A 7 0.000 0.000 0.000 1.00 0.00 O 70: HETATM 54 CB DPN A 7 0.000 0.000 0.000 1.00 0.00 C 70: HETATM 55 CG DPN A 7 0.000 0.000 0.000 1.00 0.00 C 70: HETATM 56 CD1 DPN A 7 0.000 0.000 0.000 1.00 0.00 C 70: HETATM 57 CD2 DPN A 7 0.000 0.000 0.000 1.00 0.00 C 70: HETATM 58 CE1 DPN A 7 0.000 0.000 0.000 1.00 0.00 C 70: HETATM 59 CE2 DPN A 7 0.000 0.000 0.000 1.00 0.00 C 70: HETATM 60 CZ DPN A 7 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 61 N PRO A 8 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 62 CA PRO A 8 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 63 C PRO A 8 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 64 O PRO A 8 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 65 CB PRO A 8 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 66 CG PRO A 8 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 67 CD PRO A 8 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 68 N VAL A 9 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 69 CA VAL A 9 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 70 C VAL A 9 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 71 O VAL A 9 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 72 CB VAL A 9 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 73 CG1 VAL A 9 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 74 CG2 VAL A 9 0.000 0.000 0.000 1.00 0.00 C 70: HETATM 75 N ORN A 10 0.000 0.000 0.000 1.00 0.00 N 70: HETATM 76 CA ORN A 10 0.000 0.000 0.000 1.00 0.00 C 70: HETATM 77 C ORN A 10 0.000 0.000 0.000 1.00 0.00 C 70: HETATM 78 O ORN A 10 0.000 0.000 0.000 1.00 0.00 O 70: HETATM 79 CB ORN A 10 0.000 0.000 0.000 1.00 0.00 C 70: HETATM 80 CG ORN A 10 0.000 0.000 0.000 1.00 0.00 C 70: HETATM 81 CD ORN A 10 0.000 0.000 0.000 1.00 0.00 C 70: HETATM 82 NE ORN A 10 0.000 0.000 0.000 1.00 0.00 N 70: CONECT 1 2 77 70: CONECT 2 3 5 70: CONECT 3 4 4 9 70: CONECT 5 6 70: CONECT 6 7 8 70: CONECT 9 10 70: CONECT 10 11 13 70: CONECT 11 12 12 20 70: CONECT 13 14 70: CONECT 14 15 15 16 70: CONECT 15 17 70: CONECT 16 18 18 70: CONECT 17 19 19 70: CONECT 18 19 70: CONECT 20 21 26 70: CONECT 21 22 24 70: CONECT 22 23 23 27 70: CONECT 24 25 70: CONECT 25 26 70: CONECT 27 28 70: CONECT 28 29 31 70: CONECT 29 30 30 34 70: CONECT 31 32 33 70: CONECT 34 35 70: CONECT 35 36 38 70: CONECT 36 37 37 42 70: CONECT 38 39 70: CONECT 39 40 70: CONECT 40 41 70: CONECT 42 43 70: CONECT 43 44 46 70: CONECT 44 45 45 50 70: CONECT 46 47 70: CONECT 47 48 49 70: CONECT 50 51 70: CONECT 51 52 54 70: CONECT 52 53 53 61 70: CONECT 54 55 70: CONECT 55 56 56 57 70: CONECT 56 58 70: CONECT 57 59 59 70: CONECT 58 60 60 70: CONECT 59 60 70: CONECT 61 62 67 70: CONECT 62 63 65 70: CONECT 63 64 64 68 70: CONECT 65 66 70: CONECT 66 67 70: CONECT 68 69 70: CONECT 69 70 72 70: CONECT 70 71 71 75 70: CONECT 72 73 74 70: CONECT 75 76 70: CONECT 76 77 79 70: CONECT 77 78 78 70: CONECT 79 80 70: CONECT 80 81 70: CONECT 81 82 70: END 70: 70: Sequence: GREG 70: HELM: PEPTIDE1{G.R.E.G}$$$$ 70: Smiles: N=C(N)NCCCC(NC(=O)CN)C(=O)NC(CCC(=O)O)C(=O)NCC(=O)O 70: PDB: 70: ATOM 1 N GLY A 1 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 2 CA GLY A 1 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 3 C GLY A 1 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 4 O GLY A 1 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 5 N ARG A 2 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 6 CA ARG A 2 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 7 C ARG A 2 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 8 O ARG A 2 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 9 CB ARG A 2 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 10 CG ARG A 2 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 11 CD ARG A 2 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 12 NE ARG A 2 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 13 CZ ARG A 2 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 14 NH1 ARG A 2 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 15 NH2 ARG A 2 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 16 N GLU A 3 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 17 CA GLU A 3 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 18 C GLU A 3 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 19 O GLU A 3 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 20 CB GLU A 3 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 21 CG GLU A 3 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 22 CD GLU A 3 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 23 OD1 GLU A 3 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 24 OD2 GLU A 3 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 25 N GLY A 4 0.000 0.000 0.000 1.00 0.00 N 70: ATOM 26 CA GLY A 4 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 27 C GLY A 4 0.000 0.000 0.000 1.00 0.00 C 70: ATOM 28 O GLY A 4 0.000 0.000 0.000 1.00 0.00 O 70: ATOM 29 OXT GLY A 4 0.000 0.000 0.000 1.00 0.00 O 70: CONECT 1 2 70: CONECT 2 3 70: CONECT 3 4 4 5 70: CONECT 5 6 70: CONECT 6 7 9 70: CONECT 7 8 8 16 70: CONECT 9 10 70: CONECT 10 11 70: CONECT 11 12 70: CONECT 12 13 70: CONECT 13 14 14 15 70: CONECT 16 17 70: CONECT 17 18 20 70: CONECT 18 19 19 25 70: CONECT 20 21 70: CONECT 21 22 70: CONECT 22 23 23 24 70: CONECT 25 26 70: CONECT 26 27 70: CONECT 27 28 28 29 70: END 70: 67/222 Test #70: testSequence ........................... Passed 0.10 sec test 71 Start 71: testExtendedStereoParsing 71: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/testExtendedStereoParsing 71: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers 71: Test timeout computed to be: 1500 68/222 Test #71: testExtendedStereoParsing .............. Passed 0.07 sec test 72 Start 72: fileParsersCatchTest 72: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/fileParsersCatchTest 72: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers 72: Test timeout computed to be: 1500 72: Randomness seeded to: 4113025215 72: [01:19:33] SGroup SAP line too short: 'M SAP 1 1 8' on line 29 72: [01:19:33] SGroup SAP line too short: 'M SAP 1 1 8' on line 28 72: [01:19:33] Could not infer missing lvIdx on malformed SAP line for SGroup 1 72: [01:19:33] SGroup 1 is invalid and will be ignored 72: [01:19:33] SGroup SAP line too short: 'M SAP 1 1 8' on line 28 72: [01:19:33] Could not infer missing lvIdx on malformed SAP line for SGroup 1 72: [01:19:33] SGroup 1 is invalid and will be ignored 72: [01:19:33] SGroup SAP line too short: 'M SAP 1 1 8' on line 35 72: [01:19:33] SGroup SAP line too short: 'M SAP 2 1 12' on line 39 72: [01:19:33] SGroup SAP line too short: 'M SAP 1 1 8' on line 34 72: [01:19:33] SGroup SAP line too short: 'M SAP 2 1 12' on line 38 72: [01:19:33] Could not infer missing lvIdx on malformed SAP line for SGroup 1 72: [01:19:33] SGroup 1 is invalid and will be ignored 72: [01:19:33] SGroup SAP line too short: 'M SAP 1 1 8' on line 34 72: [01:19:33] SGroup SAP line too short: 'M SAP 2 1 12' on line 39 72: [01:19:33] Could not infer missing lvIdx on malformed SAP line for SGroup 1 72: [01:19:33] SGroup 1 is invalid and will be ignored 72: [01:19:33] SGroup 3 referenced on line 40 not found. 72: [01:19:33] 72: 72: **** 72: Pre-condition Violation 72: no bonds 72: Violation occurred on line 139 in file ./Code/GraphMol/SubstanceGroup.cpp 72: Failed Expression: !d_bonds.empty() 72: **** 72: 72: [01:19:33] SGroup 3 referenced on line 40 not found. 72: [01:19:33] 72: 72: **** 72: Pre-condition Violation 72: no bonds 72: Violation occurred on line 139 in file ./Code/GraphMol/SubstanceGroup.cpp 72: Failed Expression: !d_bonds.empty() 72: **** 72: 72: [01:19:33] no bonds 72: [01:19:33] SGroup 1 is invalid and will be ignored 72: [01:19:33] SGroup line too short: 'M SBV 1 6' on line 42 72: [01:19:33] SGroup 1 is invalid and will be ignored 72: [01:19:33] SGroup line too short: 'M SBL 2 3 9 10' on line 46 72: [01:19:33] SGroup 2 is invalid and will be ignored 72: [01:19:33] 72: 72: **** 72: Pre-condition Violation 72: bookmark not found 72: Violation occurred on line 271 in file ./Code/GraphMol/ROMol.cpp 72: Failed Expression: (lu != d_bondBookmarks.end()) 72: **** 72: 72: [01:19:33] 72: 72: **** 72: Pre-condition Violation 72: bookmark not found 72: Violation occurred on line 271 in file ./Code/GraphMol/ROMol.cpp 72: Failed Expression: (lu != d_bondBookmarks.end()) 72: **** 72: 72: [01:19:33] bookmark not found 72: [01:19:33] 72: 72: **** 72: Pre-condition Violation 72: bond is not part of the SubstanceGroup 72: Violation occurred on line 158 in file ./Code/GraphMol/SubstanceGroup.cpp 72: Failed Expression: std::find(d_bonds.begin(), d_bonds.end(), bondIdx) != d_bonds.end() 72: **** 72: 72: [01:19:33] bond is not part of the SubstanceGroup 72: [01:19:33] SGroup 2 is invalid and will be ignored 72: [01:19:33] 72: 72: **** 72: Pre-condition Violation 72: bookmark not found 72: Violation occurred on line 249 in file ./Code/GraphMol/ROMol.cpp 72: Failed Expression: (lu != d_atomBookmarks.end()) 72: **** 72: 72: [01:19:33] 72: 72: **** 72: Pre-condition Violation 72: bookmark not found 72: Violation occurred on line 249 in file ./Code/GraphMol/ROMol.cpp 72: Failed Expression: (lu != d_atomBookmarks.end()) 72: **** 72: 72: [01:19:33] bookmark not found 72: [01:19:33] Neither beginning nor ending atoms of bond 9 is in this SubstanceGroup. 72: [01:19:33] SGroup 2 is invalid and will be ignored 72: [01:19:33] WARNING: final character of V3000 array is not ')' 72: [01:19:33] 72: 72: **** 72: Pre-condition Violation 72: bookmark not found 72: Violation occurred on line 271 in file ./Code/GraphMol/ROMol.cpp 72: Failed Expression: (lu != d_bondBookmarks.end()) 72: **** 72: 72: [01:19:33] WARNING: final character of V3000 array is not ')' 72: [01:19:33] 72: 72: **** 72: Pre-condition Violation 72: bookmark not found 72: Violation occurred on line 271 in file ./Code/GraphMol/ROMol.cpp 72: Failed Expression: (lu != d_bondBookmarks.end()) 72: **** 72: 72: [01:19:33] bookmark not found 72: [01:19:33] SGroup 1 is invalid and will be ignored 72: [01:19:33] WARNING: final character of V3000 array is not ')' 72: [01:19:33] 72: 72: **** 72: Pre-condition Violation 72: bookmark not found 72: Violation occurred on line 249 in file ./Code/GraphMol/ROMol.cpp 72: Failed Expression: (lu != d_atomBookmarks.end()) 72: **** 72: 72: [01:19:33] WARNING: final character of V3000 array is not ')' 72: [01:19:33] 72: 72: **** 72: Pre-condition Violation 72: bookmark not found 72: Violation occurred on line 249 in file ./Code/GraphMol/ROMol.cpp 72: Failed Expression: (lu != d_atomBookmarks.end()) 72: **** 72: 72: [01:19:33] bookmark not found 72: [01:19:33] SGroup 1 is invalid and will be ignored 72: [01:19:33] 72: 72: **** 72: Pre-condition Violation 72: bookmark not found 72: Violation occurred on line 271 in file ./Code/GraphMol/ROMol.cpp 72: Failed Expression: (lu != d_bondBookmarks.end()) 72: **** 72: 72: [01:19:33] 72: 72: **** 72: Pre-condition Violation 72: bookmark not found 72: Violation occurred on line 271 in file ./Code/GraphMol/ROMol.cpp 72: Failed Expression: (lu != d_bondBookmarks.end()) 72: **** 72: 72: [01:19:33] bookmark not found 72: [01:19:33] SGroup 2 is invalid and will be ignored 72: [01:19:33] 72: 72: **** 72: Pre-condition Violation 72: bookmark not found 72: Violation occurred on line 249 in file ./Code/GraphMol/ROMol.cpp 72: Failed Expression: (lu != d_atomBookmarks.end()) 72: **** 72: 72: [01:19:33] 72: 72: **** 72: Pre-condition Violation 72: bookmark not found 72: Violation occurred on line 249 in file ./Code/GraphMol/ROMol.cpp 72: Failed Expression: (lu != d_atomBookmarks.end()) 72: **** 72: 72: [01:19:33] bookmark not found 72: [01:19:33] SGroup 2 is invalid and will be ignored 72: [01:19:33] Explicit valence for atom # 2 O, 3, is greater than permitted 72: [01:19:33] Explicit valence for atom # 1 O, 3, is greater than permitted 72: [01:19:33] Explicit valence for atom # 1 C, 5, is greater than permitted 72: [01:19:33] sanitize [01:19:33] UNK: [01:19:33] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 72: [01:19:33] skipping block at line 7: 'BEGIN ATOM' 72: [01:19:33] 72: 72: **** 72: Pre-condition Violation 72: no stream 72: Violation occurred on line 144 in file ./Code/GraphMol/FileParsers/SDMolSupplier.cpp 72: Failed Expression: dp_inStream 72: **** 72: 72: [01:19:33] 72: 72: **** 72: Pre-condition Violation 72: no stream 72: Violation occurred on line 179 in file ./Code/GraphMol/FileParsers/ForwardSDMolSupplier.cpp 72: Failed Expression: dp_inStream 72: **** 72: 72: [01:19:33] 72: 72: **** 72: Pre-condition Violation 72: no stream 72: Violation occurred on line 427 in file ./Code/GraphMol/FileParsers/SmilesMolSupplier.cpp 72: Failed Expression: dp_inStream 72: **** 72: 72: [01:19:33] 72: 72: **** 72: Pre-condition Violation 72: no stream 72: Violation occurred on line 274 in file ./Code/GraphMol/FileParsers/TDTMolSupplier.cpp 72: Failed Expression: dp_inStream 72: **** 72: 72: [01:19:33] 72: 72: **** 72: Pre-condition Violation 72: no stream 72: Violation occurred on line 515 in file ./Code/GraphMol/FileParsers/MaeMolSupplier.cpp 72: Failed Expression: dp_sInStream != nullptr 72: **** 72: 72: [01:19:33] Found a SCD/SED line with missing/empty SDT specification at line 21 72: [01:19:33] Found a SCD/SED line with missing/empty SDT specification at line 20 72: [01:19:33] 72: 72: **** 72: Post-condition Violation 72: Element '' not found 72: Violation occurred on line 93 in file ./Code/GraphMol/PeriodicTable.h 72: Failed Expression: anum > -1 72: **** 72: 72: [01:19:33] BEGIN SGROUP line not found on line 14 72: [01:19:33] Unhandled CTAB feature: 'Unsupported SGroup type '' on line 18'. Molecule skipped. 72: [01:19:33] END SGROUP line not found on line 14 72: [01:19:33] END SGROUP line not found on line 14 72: [01:19:33] MRV_COORDINATE_BOND_TYPE SGroup with value 0 does not reference a query bond, ignoring. 72: [01:19:33] MRV_COORDINATE_BOND_TYPE SGroup with value 1 does not reference a query bond, ignoring. 72: [01:19:33] 72: 72: **** 72: Range Error 72: idx 72: Violation occurred on line 328 in file ./Code/GraphMol/ROMol.cpp 72: Failed Expression: 99 < 9 72: **** 72: 72: [01:19:33] molecule does not contain a bond matching the MRV_COORDINATE_BOND_TYPE SGroup for bond 99, ignoring. 72: [01:19:33] Multiple ATTCHPT values for atom 2 on line 9 72: [01:19:33] Found a SCD/SED line with missing/empty SDT specification at line 12 72: [01:19:33] SMARTS Parse Error: syntax error while parsing: [#6;R 72: [01:19:33] SMARTS Parse Error: Failed parsing SMARTS '[#6;R' for input: '[#6;R' 72: [01:19:33] SMARTS for SMARTSQ '[#6;R' could not be parsed or has no atoms. Ignoring it. 72: [01:19:33] Skipping empty SMARTS value for SMARTSQ. 72: [01:19:33] unrecognized QUERYOP '>' for SMARTSQ. Query ignored. 72: [01:19:33] Found a SCD/SED line with missing/empty SDT specification at line 12 72: [01:19:33] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 72: [01:19:33] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 72: [01:19:33] WARNING: Skipping property bar because the value includes an illegal blank line 72: [01:19:33] WARNING: Skipping property baz because the value includes an illegal blank line 72: [01:19:33] WARNING: Skipping property bletch 72: nope because the name includes a newline 72: [01:19:33] WARNING: Skipping property bletch 72: nope2 because the name includes a newline 72: [01:19:33] 72: 72: **** 72: Post-condition Violation 72: Element 'QQQ' not found 72: Violation occurred on line 93 in file ./Code/GraphMol/PeriodicTable.h 72: Failed Expression: anum > -1 72: **** 72: 72: [01:19:33] 72: 72: **** 72: Post-condition Violation 72: Element 'QQQ' not found 72: Violation occurred on line 93 in file ./Code/GraphMol/PeriodicTable.h 72: Failed Expression: anum > -1 72: **** 72: 72: [01:19:33] 72: 72: **** 72: Post-condition Violation 72: Element 'QQQ' not found 72: Violation occurred on line 93 in file ./Code/GraphMol/PeriodicTable.h 72: Failed Expression: anum > -1 72: **** 72: 72: [01:19:33] 72: 72: **** 72: Post-condition Violation 72: Element 'QQQ' not found 72: Violation occurred on line 93 in file ./Code/GraphMol/PeriodicTable.h 72: Failed Expression: anum > -1 72: **** 72: 72: [01:19:33] atom 3 has a negative isotope value. line: 15 72: [01:19:33] 72: 72: **** 72: Invariant Violation 72: bad prop value 72: Violation occurred on line 158 in file ./Code/GraphMol/FileParsers/MaeMolSupplier.cpp 72: Failed Expression: nSwaps < 2 72: **** 72: 72: [01:19:33] 72: 72: **** 72: Pre-condition Violation 72: no input stream 72: Violation occurred on line 480 in file ./Code/GraphMol/FileParsers/MaeMolSupplier.cpp 72: Failed Expression: dp_sInStream 72: **** 72: 72: [01:19:33] ERROR: molecules without atoms cannot be exported to Maestro files. 72: [01:19:33] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 72: [01:19:33] ERROR: the mol cannot be kekulized, and will not be written to the output file. 72: [01:19:33] ERROR: Bond 0 has a type that is not supported by maeparser. The mol will not be written to the output file. 72: [01:19:33] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 72: [01:19:33] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 72: [01:19:33] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 72: [01:19:33] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 72: =============================================================================== 72: All tests passed (1311 assertions in 87 test cases) 72: 69/222 Test #72: fileParsersCatchTest ................... Passed 0.52 sec test 73 Start 73: testPropertyLists 73: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/testPropertyLists 73: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers 73: Test timeout computed to be: 1500 73: Randomness seeded to: 2539877849 73: =============================================================================== 73: All tests passed (95 assertions in 4 test cases) 73: 70/222 Test #73: testPropertyLists ...................... Passed 0.05 sec test 74 Start 74: XYZFileParserCatchTest 74: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/XYZFileParserCatchTest 74: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers 74: Test timeout computed to be: 1500 74: Randomness seeded to: 1011171017 74: =============================================================================== 74: All tests passed (100 assertions in 2 test cases) 74: 71/222 Test #74: XYZFileParserCatchTest ................. Passed 0.11 sec test 75 Start 75: cdxmlParserCatchTest 75: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/cdxmlParserCatchTest 75: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers 75: Test timeout computed to be: 1500 75: Randomness seeded to: 1810132992 75: [01:19:33] Invalid or missing fragment id from CDXML fragment, assigning new one... 75: [01:19:33] Explicit valence for atom # 3 N, 4, is greater than permitted 75: [01:19:33] CDXMLParser: failed sanitizing skipping fragment 32 75: [01:19:33] Bad bond in CDXML skipping fragment 58... 75: [01:19:33] Invalid or missing fragment id from CDXML fragment, assigning new one... 75: [01:19:33] Bad bond in CDXML skipping fragment 58... 75: [01:19:33] WARNING: not removing hydrogen atom without neighbors 75: [01:19:33] WARNING: not removing hydrogen atom without neighbors 75: [01:19:34] WARNING: not removing hydrogen atom without neighbors 75: [01:19:34] WARNING: not removing hydrogen atom without neighbors 75: [01:19:34] WARNING: not removing hydrogen atom without neighbors 75: [01:19:34] WARNING: not removing hydrogen atom without neighbors 75: [01:19:34] WARNING: not removing hydrogen atom without neighbors 75: [01:19:34] WARNING: not removing hydrogen atom without neighbors 75: [01:19:34] WARNING: not removing hydrogen atom without neighbors 75: [01:19:34] WARNING: not removing hydrogen atom without neighbors 75: [01:19:34] CDXMLParser: Schema 80180 step 80181 ReactionStepAgents fragment 64603 not found in document. 75: [01:19:34] Incomplete atom labelling, cannot make bond 75: [01:19:34] Incomplete atom labelling, cannot make bond 75: [01:19:34] Incomplete atom labelling, cannot make bond 75: [01:19:34] Failed to parse XML fragment 5 node: n attribute: id: mydoghasfleas 75: [01:19:34] Failed to parse XML fragment 5 node: n attribute: id: mydoghasfleas 75: [01:19:34] Failed to parse XML fragment 5 node: b attribute: Order: slartibartfast 75: [01:19:34] Failed to parse XML fragment 5 node: b attribute: Order: 5 75: =============================================================================== 75: All tests passed (252 assertions in 4 test cases) 75: 72/222 Test #75: cdxmlParserCatchTest ................... Passed 0.43 sec test 76 Start 76: molfileStereoCatchTest 76: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/molfileStereoCatchTest 76: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers 76: Test timeout computed to be: 1500 76: Randomness seeded to: 1499379141 76: [01:19:34] Warning: ambiguous stereochemistry - opposing bonds have opposite wedging - at atom 2 ignored. 76: [01:19:34] Warning: ambiguous stereochemistry - opposing bonds have opposite wedging - at atom 2 ignored. 76: [01:19:34] Warning: ambiguous stereochemistry - opposing bonds have opposite wedging - at atom 2 ignored. 76: [01:19:34] Warning: ambiguous stereochemistry - opposing bonds have opposite wedging - at atom 2 ignored. 76: [01:19:34] Warning: ambiguous stereochemistry - linear bond arrangement - at atom 2 ignored 76: =============================================================================== 76: All tests passed (142 assertions in 6 test cases) 76: 73/222 Test #76: molfileStereoCatchTest ................. Passed 0.19 sec test 77 Start 77: connectTheDotsTest 77: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/connectTheDotsTest 77: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers 77: Test timeout computed to be: 1500 77: Randomness seeded to: 1020596891 77: =============================================================================== 77: All tests passed (8 assertions in 1 test case) 77: 74/222 Test #77: connectTheDotsTest ..................... Passed 0.13 sec test 78 Start 78: testSubstructMatch 78: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct/testSubstructMatch 78: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct 78: Test timeout computed to be: 1500 78: ----------------- Test 1 78: Done 78: 78: ----------------- Test 2 78: Done 78: 78: ----------------- Test 3 78: Done 78: 78: ----------------- Test 4 78: Done 78: 78: ----------------- Test 5 78: Done 78: 78: ----------------- Test 5 QueryRoot 78: Done 78: 78: ----------------- Test 6 (Issue71 related) 78: Done 78: 78: ----------------- Testing serial numbers on recursive queries 78: Done 78: 78: [01:19:34] ------------------------------------- 78: [01:19:34] Test multithreading 78: reading molecules 78: hits: 1111110111111111111111011111100011011011111101010111011110111101111111111111111111111011111011111110 78: processing 78: launch :0 78: launch :1 78: launch :2 78: launch :3 78: done 78: hits2: 1111110111111111111111011111100011011011111101010111011110111101111111111111111111111011111011111110 78: processing2 78: launch2 :0 78: launch2 :1 78: launch2 :2 78: launch2 :3 78: done 78: preprocessing 3 78: hits3: 1110100011001000010011100110100011011000010101000100110010101111011100101000001111110000010100100110 78: processing3 78: launch3 :0 78: launch3 :1 78: launch3 :2 78: launch3 :3 78: done 78: [01:19:35] done 78: [01:19:35] ------------------------------------- 78: [01:19:35] Test GitHub issue 15 78: [01:19:35] done 78: [01:19:35] ------------------------------------- 78: [01:19:35] Test GitHub issue 409 78: [01:19:35] done 78: [01:19:35] ------------------------------------- 78: [01:19:35] Test chiral matching 78: [01:19:35] done 78: [01:19:35] ------------------------------------- 78: [01:19:35] Test GitHub issue 688: partially specified chiral substructure queries don't work properly 78: [01:19:35] done 78: [01:19:35] ------------------------------------- 78: [01:19:35] Test dative-bond matching 78: [01:19:35] done 78: [01:19:35] ------------------------------------- 78: [01:19:35] Test cis/trans matching 78: [01:19:35] done 78: [01:19:35] ------------------------------------- 78: [01:19:35] Test cis/trans matching part 2 78: [01:19:35] done 78: [01:19:35] ------------------------------------- 78: [01:19:35] Testing Github #1389: Substructure matching with chirality failure when query is built from SMARTS 78: [01:19:35] done 78: [01:19:35] ------------------------------------- 78: [01:19:35] Testing matching E/Z against Cis/Trans stereo bonds 78: [01:19:35] 78: 78: **** 78: Pre-condition Violation 78: matches must not be empty 78: Violation occurred on line 44 in file ./Code/GraphMol/Substruct/SubstructUtils.cpp 78: Failed Expression: !matches.empty() 78: **** 78: 78: [01:19:35] 78: 78: **** 78: Pre-condition Violation 78: matches must not be empty 78: Violation occurred on line 44 in file ./Code/GraphMol/Substruct/SubstructUtils.cpp 78: Failed Expression: !matches.empty() 78: **** 78: 78: [01:19:35] ------------------------------------- 78: [01:19:35] Test substructure matching with a pathological case for symmetric SSSR 78: [01:19:35] ------------------------------------- 78: [01:19:35] Test isAtomTerminalRGroupOrQueryHydrogen 75/222 Test #78: testSubstructMatch ..................... Passed 1.06 sec test 79 Start 79: substructTestCatch 79: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct/substructTestCatch 79: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct 79: Test timeout computed to be: 1500 79: Randomness seeded to: 1967466070 79: =============================================================================== 79: All tests passed (143 assertions in 7 test cases) 79: 76/222 Test #79: substructTestCatch ..................... Passed 0.64 sec test 80 Start 80: testGenericGroups 80: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/GenericGroups/testGenericGroups 80: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/GenericGroups 80: Test timeout computed to be: 1500 80: Randomness seeded to: 3056408269 80: =============================================================================== 80: All tests passed (9408 assertions in 38 test cases) 80: 77/222 Test #80: testGenericGroups ...................... Passed 0.79 sec test 81 Start 81: testReaction 81: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/testReaction 81: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions 81: Test timeout computed to be: 1500 81: smi: O=C1CNC(=O)CN1 81: 1: O=C1CNC(=O)CN1 81: 2: COOC 81: [01:19:37] SMARTS Parse Error: syntax error while parsing: [Q:1][C:2][C:3](=[O:4])[O:5] 81: [01:19:37] SMARTS Parse Error: Failed parsing SMARTS '[Q:1][C:2][C:3](=[O:4])[O:5]' for input: '[Q:1][C:2][C:3](=[O:4])[O:5]' 81: O=C1CNC(=O)CN1 81: [01:19:37] product atom-mapping number 1 found multiple times. 81: [01:19:37] mapped atoms in the reactants were not mapped in the products. 81: unmapped numbers are: 4 81: [01:19:37] atom 0 in product 0 has multiple charge specifications. 81: mass: 15.0001 81: Oc1ccccn1 81: Oc1ccc[nH]1 81: [01:19:37] SMARTS Parse Error: syntax error while parsing: ([C:1](=O)O.[C:2] 81: [01:19:37] SMARTS Parse Error: Failed parsing SMARTS '([C:1](=O)O.[C:2]' for input: '([C:1](=O)O.[C:2]' 81: [01:19:37] SMARTS Parse Error: syntax error while parsing: ([C:2] 81: [01:19:37] SMARTS Parse Error: Failed parsing SMARTS '([C:2]' for input: '([C:2]' 81: [01:19:37] SMARTS Parse Error: syntax error while parsing: [C:1](=O)O).[C:2] 81: [01:19:37] SMARTS Parse Error: Failed parsing SMARTS '[C:1](=O)O).[C:2]' for input: '[C:1](=O)O).[C:2]' 81: [01:19:37] SMARTS Parse Error: syntax error while parsing: [C:2]) 81: [01:19:37] SMARTS Parse Error: Failed parsing SMARTS '[C:2])' for input: '[C:2])' 81: [01:19:37] SMILES Parse Error: syntax error while parsing: [Q:1][C:2][C:3](=[O:4])[O:5] 81: [01:19:37] SMILES Parse Error: Failed parsing SMILES '[Q:1][C:2][C:3](=[O:4])[O:5]' for input: '[Q:1][C:2][C:3](=[O:4])[O:5]' 81: [01:19:37] reactant 2 has no mapped atoms. 81: [01:19:37] >> Atoms within one molecule have different RXN roles. 81: [01:19:37] >> Fragment 0 not included in the reaction, atoms do not have a correct RXN role. 81: [01:19:37] SMARTS Parse Error: syntax error while parsing: ([C:1][C:2] 81: [01:19:37] SMARTS Parse Error: Failed parsing SMARTS '([C:1][C:2]' for input: '([C:1][C:2]' 81: [01:19:37] SMARTS Parse Error: syntax error while parsing: ([C:2] 81: [01:19:37] SMARTS Parse Error: Failed parsing SMARTS '([C:2]' for input: '([C:2]' 81: [01:19:37] SMARTS Parse Error: syntax error while parsing: [C:1][C:2]) 81: [01:19:37] SMARTS Parse Error: Failed parsing SMARTS '[C:1][C:2])' for input: '[C:1][C:2])' 81: [01:19:37] SMARTS Parse Error: syntax error while parsing: [C:1]).[C:2] 81: [01:19:37] SMARTS Parse Error: Failed parsing SMARTS '[C:1]).[C:2]' for input: '[C:1]).[C:2]' 81: [01:19:37] reactant 0 has no mapped atoms. 81: [01:19:37] reactant 1 has no mapped atoms. 81: [01:19:37] reactant 3 has no mapped atoms. 81: [01:19:37] product atom-mapping number 2 found multiple times. 81: [01:19:37] product atom-mapping number 3 found multiple times. 81: [01:19:37] product atom-mapping number 4 found multiple times. 81: [01:19:37] product atom-mapping number 5 found multiple times. 81: [01:19:37] product atom-mapping number 6 found multiple times. 81: [01:19:37] product atom-mapping number 7 found multiple times. 81: [01:19:37] product atom-mapping number 8 found multiple times. 81: [01:19:37] product atom-mapping number 12 found multiple times. 81: [01:19:37] product atom-mapping number 9 found multiple times. 81: [01:19:37] product atom-mapping number 10 found multiple times. 81: [01:19:37] product atom-mapping number 11 found multiple times. 81: [01:19:37] reactant 0 has no mapped atoms. 81: [01:19:37] reactant 1 has no mapped atoms. 81: [01:19:37] reactant 3 has no mapped atoms. 81: [01:19:37] reactant atom-mapping number 19 found multiple times. 81: [01:19:37] reactant atom-mapping number 25 found multiple times. 81: [01:19:37] reactant atom-mapping number 20 found multiple times. 81: [01:19:37] reactant atom-mapping number 21 found multiple times. 81: [01:19:37] reactant atom-mapping number 22 found multiple times. 81: [01:19:37] reactant atom-mapping number 23 found multiple times. 81: [01:19:37] reactant atom-mapping number 24 found multiple times. 81: [01:19:37] product atom-mapping number 1 found multiple times. 81: [01:19:37] product atom-mapping number 1 found multiple times. 81: [01:19:37] product atom-mapping number 1 found multiple times. 81: [01:19:37] product atom-mapping number 1 found multiple times. 81: [01:19:37] product atom-mapping number 2 found multiple times. 81: [01:19:37] product atom-mapping number 1 found multiple times. 81: [01:19:37] product atom-mapping number 2 found multiple times. 81: [01:19:37] product atom-mapping number 1 found multiple times. 81: [01:19:37] product atom-mapping number 2 found multiple times. 81: [01:19:37] product atom-mapping number 1 found multiple times. 81: [01:19:37] product atom-mapping number 2 found multiple times. 81: [01:19:37] product atom-mapping number 1 found multiple times. 81: F[C@@](Cl)(Br)ONO[C@](F)(Cl)Br 81: [01:19:37] product atom-mapping number 2 found multiple times. 81: [01:19:37] product atom-mapping number 1 found multiple times. 81: [01:19:37] product atom-mapping number 2 found multiple times. 81: [01:19:37] product atom-mapping number 1 found multiple times. 81: F[C@](Cl)(Br)ONO[C@](F)(Cl)Br 81: [01:19:37] product atom-mapping number 5 found multiple times. 81: [01:19:37] product atom-mapping number 2 found multiple times. 81: [01:19:37] product atom-mapping number 3 found multiple times. 81: [01:19:37] product atom-mapping number 1 found multiple times. 81: [01:19:37] product atom-mapping number 4 found multiple times. 81: [01:19:37] product atom-mapping number 5 found multiple times. 81: [01:19:37] product atom-mapping number 2 found multiple times. 81: [01:19:37] product atom-mapping number 3 found multiple times. 81: [01:19:37] product atom-mapping number 1 found multiple times. 81: [01:19:37] product atom-mapping number 4 found multiple times. 81: F[C@@](Cl)(Br)ONO[C@](F)(Cl)Br 81: [01:19:37] product atom-mapping number 5 found multiple times. 81: [01:19:37] product atom-mapping number 2 found multiple times. 81: [01:19:37] product atom-mapping number 3 found multiple times. 81: [01:19:37] product atom-mapping number 1 found multiple times. 81: [01:19:37] product atom-mapping number 4 found multiple times. 81: [01:19:37] product atom-mapping number 5 found multiple times. 81: [01:19:37] product atom-mapping number 2 found multiple times. 81: [01:19:37] product atom-mapping number 3 found multiple times. 81: [01:19:37] product atom-mapping number 1 found multiple times. 81: [01:19:37] product atom-mapping number 4 found multiple times. 81: F[C@](Cl)(Br)ONO[C@](F)(Cl)Br 81: [01:19:37] product atom-mapping number 2 found multiple times. 81: [01:19:37] product atom-mapping number 3 found multiple times. 81: [01:19:37] product atom-mapping number 1 found multiple times. 81: [01:19:37] product atom-mapping number 4 found multiple times. 81: [01:19:37] product atom-mapping number 2 found multiple times. 81: [01:19:37] product atom-mapping number 3 found multiple times. 81: [01:19:37] product atom-mapping number 1 found multiple times. 81: [01:19:37] product atom-mapping number 4 found multiple times. 81: F[C@@](Cl)(Br)O[C@](F)(Cl)Br 81: [01:19:37] product atom-mapping number 2 found multiple times. 81: [01:19:37] product atom-mapping number 3 found multiple times. 81: [01:19:37] product atom-mapping number 1 found multiple times. 81: [01:19:37] product atom-mapping number 4 found multiple times. 81: [01:19:37] product atom-mapping number 2 found multiple times. 81: [01:19:37] product atom-mapping number 3 found multiple times. 81: [01:19:37] product atom-mapping number 1 found multiple times. 81: [01:19:37] product atom-mapping number 4 found multiple times. 81: F[C@](Cl)(Br)O[C@](F)(Cl)Br 81: [01:19:37] product atom-mapping number 4 found multiple times. 81: [01:19:37] product atom-mapping number 3 found multiple times. 81: [01:19:37] product atom-mapping number 2 found multiple times. 81: [01:19:37] product atom-mapping number 1 found multiple times. 81: [01:19:37] product atom-mapping number 4 found multiple times. 81: [01:19:37] product atom-mapping number 3 found multiple times. 81: [01:19:37] product atom-mapping number 2 found multiple times. 81: [01:19:37] product atom-mapping number 1 found multiple times. 81: [01:19:37] product atom-mapping number 4 found multiple times. 81: [01:19:37] product atom-mapping number 3 found multiple times. 81: [01:19:37] product atom-mapping number 2 found multiple times. 81: [01:19:37] product atom-mapping number 1 found multiple times. 81: [01:19:37] product atom-mapping number 4 found multiple times. 81: [01:19:37] product atom-mapping number 3 found multiple times. 81: [01:19:37] product atom-mapping number 2 found multiple times. 81: [01:19:37] product atom-mapping number 1 found multiple times. 81: [01:19:37] product atom-mapping number 3 found multiple times. 81: [01:19:37] product atom-mapping number 2 found multiple times. 81: [01:19:37] product atom-mapping number 1 found multiple times. 81: [01:19:37] mapped atoms in the reactants were not mapped in the products. 81: unmapped numbers are: 4 81: [01:19:37] product atom-mapping number 3 found multiple times. 81: [01:19:37] product atom-mapping number 2 found multiple times. 81: [01:19:37] product atom-mapping number 1 found multiple times. 81: [01:19:37] mapped atoms in the reactants were not mapped in the products. 81: unmapped numbers are: 4 81: [01:19:37] product atom-mapping number 6 not found in reactants. 81: [01:19:37] product atom-mapping number 7 not found in reactants. 81: [01:19:37] product atom-mapping number 8 not found in reactants. 81: [01:19:37] product atom-mapping number 7 not found in reactants. 81: [01:19:37] product atom-mapping number 8 not found in reactants. 81: [01:19:37] product atom-mapping number 9 not found in reactants. 81: [01:19:37] product atom-mapping number 10 not found in reactants. 81: [01:19:37] mapped atoms in the reactants were not mapped in the products. 81: unmapped numbers are: 6 81: [01:19:37] product atom-mapping number 7 not found in reactants. 81: [01:19:37] product atom-mapping number 8 not found in reactants. 81: [01:19:37] product atom-mapping number 9 not found in reactants. 81: [01:19:37] product atom-mapping number 10 not found in reactants. 81: [01:19:37] mapped atoms in the reactants were not mapped in the products. 81: unmapped numbers are: 6 81: smi1 [C:1][C:2][C:3]([O:4])([N:5])[Cl:6]>>[C:1][C:3]([C:2])([O:4])[N:5].[ClH:6] 81: smi2 [C:1][C:2][C:3]([O:4])([N:5])[Cl:6]>>[C:1][C:3]([C:2])([O:4])[N:5].[ClH:6] 81: [01:19:37] mapped atoms in the reactants were not mapped in the products. 81: unmapped numbers are: 7 8 9 10 11 12 13 14 15 16 81: [01:19:37] product atom-mapping number 17 not found in reactants. 81: [01:19:37] product atom-mapping number 18 not found in reactants. 81: [01:19:37] mapped atoms in the reactants were not mapped in the products. 81: unmapped numbers are: 12 81: [01:19:37] Reaction has explicit hydrogens, reactants will need explicit hydrogens (addHs) 81: [01:19:37] Reaction has explicit hydrogens, reactants will need explicit hydrogens (addHs) 81: 81: [01:19:37] Mismatched potential rlabels: 1 unmapped reactant dummy atom rlabels,0 unmappped product dummy atom rlabels 81: ------------- 81: CCOc1ccccc1 81: [01:19:38] reactant 0 has no mapped atoms. 81: [01:19:38] product 0 has no mapped atoms. 81: [01:19:38] WARNING: neither stereo atoms nor CIP codes found for double bond. Stereochemistry info will not be propagated to product. 78/222 Test #81: testReaction ........................... Passed 1.05 sec test 82 Start 82: testReactionFingerprints 82: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/testReactionFingerprints 82: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions 82: Test timeout computed to be: 1500 82: [01:19:38] ------------------------------------- 82: [01:19:38] Test Reaction StructuralFingerprint 82: [01:19:38] ------------------------------------- 82: [01:19:38] Test Reaction DifferenceFingerprint 79/222 Test #82: testReactionFingerprints ............... Passed 0.07 sec test 83 Start 83: testEnumeration 83: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/testEnumeration 83: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions 83: Test timeout computed to be: 1500 83: 30000000 30000000 66: [01:19:39] Finished: testSmiCorrectness() 66: [01:19:39] ----------------------------------------- 66: 66: [01:19:39] 66: ----------------------------------------- 66: [01:19:39] Spurious data before the first property will be ignored 66: [01:19:39] Property will be truncated after the first blank line 66: [01:19:39] Property will be truncated after the first blank line 66: [01:19:39] Property will be truncated after the first blank line 66: [01:19:40] Finished: testSDCorrectness() 66: [01:19:40] ----------------------------------------- 66: 80/222 Test #66: testMultithreadedMolSupplier ........... Passed 14.04 sec test 84 Start 84: rxnTestCatch 84: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/rxnTestCatch 84: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions 84: Test timeout computed to be: 1500 84: Randomness seeded to: 1639274952 84: [01:19:40] atom 0 in product 0 has multiple charge specifications. 84: [01:19:40] Found a SCD/SED line with missing/empty SDT specification at line 34 84: [01:19:40] Found a SCD/SED line with missing/empty SDT specification at line 36 84: [01:19:40] Found a SCD/SED line with missing/empty SDT specification at line 38 84: [01:19:40] Found a SCD/SED line with missing/empty SDT specification at line 40 84: [01:19:40] Found a SCD/SED line with missing/empty SDT specification at line 42 84: [01:19:40] Found a SCD/SED line with missing/empty SDT specification at line 87 84: [01:19:40] Found a SCD/SED line with missing/empty SDT specification at line 89 84: [01:19:40] Found a SCD/SED line with missing/empty SDT specification at line 91 84: [01:19:40] Found a SCD/SED line with missing/empty SDT specification at line 93 84: [01:19:40] Found a SCD/SED line with missing/empty SDT specification at line 95 84: [01:19:40] mapped atoms in the reactants were not mapped in the products. 84: unmapped numbers are: 2 84: [01:19:40] mapped atoms in the reactants were not mapped in the products. 84: unmapped numbers are: 2 84: [01:19:40] SMARTS Parse Error: unclosed ring for input: 'CC1' 84: [01:19:40] SMILES Parse Error: unclosed ring for input: 'CC1' 84: [01:19:40] mapped atoms in the reactants were not mapped in the products. 84: unmapped numbers are: 2 84: [01:19:40] product atom-mapping number 2 not found in reactants. 84: [01:19:40] mapped atoms in the reactants were not mapped in the products. 84: unmapped numbers are: 2 84: [01:19:40] product atom-mapping number 2 not found in reactants. 84: [01:19:40] deprecated -- please use MatchOnlyAtRgroupsAdjustParams instead 84: =============================================================================== 84: All tests passed (568 assertions in 20 test cases) 84: 81/222 Test #84: rxnTestCatch ........................... Passed 0.21 sec test 85 Start 85: pyChemReactions 85: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/ChemReactions/Wrap/testReactionWrapper.py" 85: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/Wrap 85: Test timeout computed to be: 1500 82/222 Test #85: pyChemReactions ........................***Exception: SegFault 1.37 sec test 86 Start 86: pyChemReactionEnumerations 86: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/ChemReactions/Wrap/testEnumerations.py" 86: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/Wrap 86: Test timeout computed to be: 1500 83/222 Test #86: pyChemReactionEnumerations .............***Exception: SegFault 1.68 sec test 87 Start 87: pyChemReactionSanitize 87: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/ChemReactions/Wrap/testSanitize.py" 87: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/Wrap 87: Test timeout computed to be: 1500 84/222 Test #87: pyChemReactionSanitize .................***Exception: SegFault 1.30 sec test 88 Start 88: testChemTransforms 88: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemTransforms/testChemTransforms 88: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemTransforms 88: Test timeout computed to be: 1500 88: 1 smi: CC 88: 1 smi: CC 88: 2 smi: CCO[C@H](N)P 88: 2 smi: CC 88: replaceSub smi1:CCP(CC)[C@@H](N)O 88: replaceSub smi1:CCNCC 88: sidechains chiral=true smi1;;; [1*]P([2*])[C@H](N)O 88: sidechains chiral=false smi1;;; [1*]P([2*])[C@H](N)O 88: [01:19:44] SMARTS Parse Error: syntax error while parsing: bar 88: [01:19:44] SMARTS Parse Error: Failed parsing SMARTS 'bar' for input: 'bar' 85/222 Test #88: testChemTransforms ..................... Passed 0.17 sec test 89 Start 89: chemTransformsTestCatch 89: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 89: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemTransforms 89: Test timeout computed to be: 1500 89: Randomness seeded to: 1912531919 89: [01:19:45] Incomplete atom labelling, cannot make bond 89: [01:19:45] 89: 89: **** 89: Invariant Violation 89: molzip: bond info already exists for end atom with label:1 89: Violation occurred on line 999 in file ./Code/GraphMol/ChemTransforms/MolFragmenter.cpp 89: Failed Expression: !bond.b 89: **** 89: 89: [01:19:45] Incomplete atom labelling, cannot make bond 89: [01:19:45] 89: 89: **** 89: Invariant Violation 89: molzip: bond info already exists for end atom with label:1 89: Violation occurred on line 999 in file ./Code/GraphMol/ChemTransforms/MolFragmenter.cpp 89: Failed Expression: !bond.b 89: **** 89: 89: [01:19:45] Incomplete atom labelling, cannot make bond 89: [01:19:45] 89: 89: **** 89: Invariant Violation 89: molzip: bond info already exists for end atom with label:1 89: Violation occurred on line 999 in file ./Code/GraphMol/ChemTransforms/MolFragmenter.cpp 89: Failed Expression: !bond.b 89: **** 89: 89: [01:19:45] Incomplete atom labelling, cannot make bond 89: [01:19:45] Incomplete atom labelling, cannot make bond 89: [01:19:45] Incomplete atom labelling, cannot make bond 89: [01:19:45] 89: 89: **** 89: Invariant Violation 89: molzip: bond info already exists for end atom with label:1 89: Violation occurred on line 999 in file ./Code/GraphMol/ChemTransforms/MolFragmenter.cpp 89: Failed Expression: !bond.b 89: **** 89: 89: [01:19:45] Incomplete atom labelling, cannot make bond 89: [01:19:45] 89: 89: **** 89: Invariant Violation 89: molzip: bond info already exists for end atom with label:1 89: Violation occurred on line 999 in file ./Code/GraphMol/ChemTransforms/MolFragmenter.cpp 89: Failed Expression: !bond.b 89: **** 89: 89: [01:19:45] 89: 89: **** 89: Invariant Violation 89: molzip: zipped Bond already exists, perhaps labels are duplicated 89: Violation occurred on line 742 in file ./Code/GraphMol/ChemTransforms/MolFragmenter.cpp 89: Failed Expression: params.label == MolzipLabel::FragmentOnBonds || !a->getOwningMol().getBondBetweenAtoms(a->getIdx(), b->getIdx()) 89: **** 89: 89: =============================================================================== 89: All tests passed (667 assertions in 7 test cases) 89: 86/222 Test #89: chemTransformsTestCatch ................ Passed 0.21 sec test 90 Start 90: tautomerQueryTestCatch 90: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/TautomerQuery/tautomerQueryTestCatch 90: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/TautomerQuery 90: Test timeout computed to be: 1500 90: Randomness seeded to: 2267831639 90: =============================================================================== 90: All tests passed (93 assertions in 13 test cases) 90: 87/222 Test #90: tautomerQueryTestCatch ................. Passed 0.40 sec test 91 Start 91: pyTautomerQuery 91: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/TautomerQuery/Wrap/rough_test.py" 91: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/TautomerQuery/Wrap 91: Test timeout computed to be: 1500 88/222 Test #91: pyTautomerQuery ........................***Exception: SegFault 1.47 sec test 92 Start 92: testSubgraphs1 92: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs/testSubgraphs1 92: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs 92: Test timeout computed to be: 1500 92: ----------------------- 92: Subgraph retrieval 92: Finished 92: ----------------------- 92: testSubgraphs2a 92: Finished 92: ----------------------- 92: testSubgraphs2 92: Finished 92: ----------------------- 92: Path retrieval 92: Finished 92: ----------------------- 92: Path retrieval2 92: Finished 92: ----------------------- 92: Unique Subgraph retrieval 92: Finished 92: ----------------------- 92: testUniqueSubgraphs2 92: Finished 92: ----------------------- 92: testRootedSubgraphs 92: Finished 92: ----------------------- 92: testRootedPaths 92: Finished 89/222 Test #92: testSubgraphs1 ......................... Passed 0.71 sec test 93 Start 93: testSubgraphs2 93: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs/testSubgraphs2 93: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs 93: Test timeout computed to be: 1500 93: ----------------------- 93: Test1: pathToSubmol 93: Finished 93: ----------------------- 93: Test2: Atom Environments 93: Finished 93: ----------------------- 93: Test 3: Atom Environments (Extension) 93: Finished 93: ----------------------- 93: Testing github Issue103: stereochemistry and pathToSubmol 93: Finished 93: ----------------------- 93: Testing github Issue103: more stereochemistry and pathToSubmol (path needs to be in sorted order) 93: Finished 90/222 Test #93: testSubgraphs2 ......................... Passed 0.07 sec test 94 Start 94: subgraphsCatch 94: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs/subgraphsCatch 94: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs 94: Test timeout computed to be: 1500 94: Randomness seeded to: 4008816797 94: --------- 94: =============================================================================== 94: All tests passed (11 assertions in 1 test case) 94: 91/222 Test #94: subgraphsCatch ......................... Passed 0.05 sec test 95 Start 95: filterCatalogTest 95: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog/filterCatalogTest 95: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog 95: Test timeout computed to be: 1500 95: Warning: molecule failed filter 95: Warning: molecule failed filter: reason hzone_phenol_A(479) 95: v = { 95: 0,23}, 95: 1,22}, 95: 2,20}, 95: 3,19}, 95: 4,25}, 95: 5,24}, 95: 6,18}, 95: 7,17}, 95: 8,16}, 95: 9,21}, 95: } 95: match = { 95: 0,23}, 95: 1,22}, 95: 2,20}, 95: 3,19}, 95: 4,25}, 95: 5,24}, 95: 6,18}, 95: 7,17}, 95: 8,16}, 95: 9,21}, 95: } 95: Warning: molecule failed filter 95: Warning: molecule failed filter: reason cyano_imine_B(17) 95: v = { 95: 0,11}, 95: 1,12}, 95: 2,13}, 95: 3,14}, 95: 4,15}, 95: 5,10}, 95: 6,9}, 95: 7,8}, 95: 8,7}, 95: 9,6}, 95: 10,5}, 95: 11,17}, 95: 12,16}, 95: } 95: match = { 95: 0,11}, 95: 1,12}, 95: 2,13}, 95: 3,14}, 95: 4,15}, 95: 5,10}, 95: 6,9}, 95: 7,8}, 95: 8,7}, 95: 9,6}, 95: 10,5}, 95: 11,17}, 95: 12,16}, 95: } 95: Warning: molecule failed filter 95: Warning: molecule failed filter: reason keto_keto_gamma(5) 95: v = { 95: 0,0}, 95: 1,1}, 95: 2,2}, 95: 3,4}, 95: 4,5}, 95: 5,6}, 95: 6,7}, 95: 7,8}, 95: 8,9}, 95: 9,14}, 95: 10,15}, 95: 11,16}, 95: } 95: match = { 95: 0,0}, 95: 1,1}, 95: 2,2}, 95: 3,4}, 95: 4,5}, 95: 5,6}, 95: 6,7}, 95: 7,8}, 95: 8,9}, 95: 9,14}, 95: 10,15}, 95: 11,16}, 95: } 92/222 Test #95: filterCatalogTest ...................... Passed 0.57 sec test 96 Start 96: pyFilterCatalog 96: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/FilterCatalog/Wrap/rough_test.py" 96: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog/Wrap 96: Test timeout computed to be: 1500 93/222 Test #96: pyFilterCatalog ........................***Exception: SegFault 1.43 sec test 97 Start 97: testFragCatalog 97: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog/testFragCatalog 97: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog 97: Test timeout computed to be: 1500 97: 21 29: [01:19:50] Finished 29: [01:19:50] ------------------------------------- 29: [01:19:50] Test github1843: RWMol.clear() should not destroy ring pointer. 29: [01:19:50] Finished 94/222 Test #29: graphmolTest1 .......................... Passed 59.80 sec test 98 Start 98: pyFragCatalog 98: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/FragCatalog/Wrap/rough_test.py" 98: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog/Wrap 98: Test timeout computed to be: 1500 97: [01:19:51] 97: 97: **** 97: Invariant Violation 97: nonsense 97: Violation occurred on line 52 in file ./Code/GraphMol/FragCatalog/FragCatalogUtils.cpp 97: Failed Expression: token != tokens.end() 97: **** 97: 97: [01:19:51] 97: 97: **** 97: Invariant Violation 97: nonsense no new line 97: Violation occurred on line 52 in file ./Code/GraphMol/FragCatalog/FragCatalogUtils.cpp 97: Failed Expression: token != tokens.end() 97: **** 97: 97: [01:19:51] 97: 97: **** 97: Invariant Violation 97: nonsense with tab 97: Violation occurred on line 52 in file ./Code/GraphMol/FragCatalog/FragCatalogUtils.cpp 97: Failed Expression: token != tokens.end() 97: **** 97: 95/222 Test #97: testFragCatalog ........................ Passed 1.30 sec test 99 Start 99: testDescriptors 99: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/testDescriptors 99: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors 99: Test timeout computed to be: 1500 99: [01:19:51] ------------------------------------- 99: [01:19:51] Test Crippen parameter acquisition. 99: [01:19:51] done 99: [01:19:51] ------------------------------------- 99: [01:19:51] Test Crippen calculation. 99: [01:19:51] done 99: [01:19:51] ------------------------------------- 99: [01:19:51] Test Issue262: problems with Crippen calculation from pickles. 99: [01:19:51] done 99: [01:19:51] ------------------------------------- 99: [01:19:51] Test AMW calculation. 99: [01:19:51] done 99: [01:19:51] ------------------------------------- 99: [01:19:51] Test Exact MW calculation. 99: [01:19:51] done 99: [01:19:51] ------------------------------------- 99: [01:19:51] Test Labute ASA descriptors. 99: [01:19:51] done 99: [01:19:51] ------------------------------------- 99: [01:19:51] Test TPSA descriptors. 99: [01:19:51] done 99: [01:19:51] ------------------------------------- 99: [01:19:51] Test Lipinski parameters. 96/222 Test #98: pyFragCatalog ..........................***Exception: SegFault 1.20 sec test 100 Start 100: testAUTOCORR2D 100: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/testAUTOCORR2D 100: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors 100: Test timeout computed to be: 1500 99: [01:19:51] done 99: [01:19:51] ------------------------------------- 99: [01:19:51] Test VSA descriptors. 99: [01:19:51] done 99: [01:19:51] ------------------------------------- 99: [01:19:51] Test molecular formula calculation. 99: [01:19:51] done 99: [01:19:51] ------------------------------------- 99: [01:19:51] Test Issue 3415534. 99: [01:19:51] done 99: [01:19:51] ------------------------------------- 99: [01:19:51] Test Issue3433771: Bad definition for Crippen atom type O11. 99: [01:19:51] done 99: [01:19:51] ------------------------------------- 99: [01:19:51] Test multithreading 99: reading molecules 100: [01:19:51] ---------------------------- 100: start test autocorr2D 99: processing 99: launch :0 99: launch :1 99: launch :2 99: launch :3 100: [01:19:52] done 100: [01:19:52] ------------------------------------- 100: [01:19:52] Test Github #3806: NaNs from AUTOCORR2D descriptor 100: [01:19:52] done 97/222 Test #100: testAUTOCORR2D ......................... Passed 1.22 sec test 101 Start 101: testATF 101: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/testATF 101: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors 101: Test timeout computed to be: 1500 98/222 Test #101: testATF ................................ Passed 0.08 sec test 102 Start 102: testBCUT 102: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/testBCUT 102: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors 102: Test timeout computed to be: 1500 102: [01:19:52] ------------------------------------- 102: [01:19:52] Basic BCUT tests. 102: [01:19:53] done 102: [01:19:53] ------------------------------------- 102: [01:19:53] Larger BCUT tests. 102: [01:19:54] ------------------------------------- 102: [01:19:54] Test empty molecule BCUT. 99/222 Test #102: testBCUT ............................... Passed 1.38 sec test 103 Start 103: testEEM 103: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/testEEM 103: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors 103: Test timeout computed to be: 1500 103: =>start test EEM 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: 0 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: 100 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:54] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: 200 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: 300 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: 400 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: [01:19:56] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 103: Elapsed time: 2.49966 s 103: Errors:0 103: [01:19:56] test on : 500 molecules done 100/222 Test #103: testEEM ................................ Passed 2.55 sec test 104 Start 104: testPBF 104: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/testPBF 104: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors 104: Test timeout computed to be: 1500 104: [01:19:56] ------------------------------------- 104: [01:19:56] Basic PBF tests. 104: [01:19:57] done 104: [01:19:57] ------------------------------------- 104: [01:19:57] PBF edge cases. 104: [01:19:57] done 101/222 Test #104: testPBF ................................ Passed 0.50 sec test 105 Start 105: testRDFcustom 105: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/testRDFcustom 105: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors 105: Test timeout computed to be: 1500 105: =>start test rdf custom 105: [01:19:58] test on : 365 molecules done 99: [01:19:58] done 99: [01:19:58] ------------------------------------- 99: [01:19:58] Test Issue252: Bad definitions for Crippen atom types. 99: [01:19:58] done 99: [01:19:58] ------------------------------------- 99: [01:19:58] Test calculation of ChiVs. 99: [01:19:58] done 99: [01:19:58] ------------------------------------- 99: [01:19:58] Test calculation of ChiNs. 99: [01:19:58] done 99: [01:19:58] ------------------------------------- 99: [01:19:58] Test calculation of HallKierAlpha. 99: [01:19:58] done 99: [01:19:58] ------------------------------------- 99: [01:19:58] Test calculation of Kappa1. 99: [01:19:58] done 99: [01:19:58] ------------------------------------- 99: [01:19:58] Test calculation of Kappa2. 99: [01:19:58] done 99: [01:19:58] ------------------------------------- 99: [01:19:58] Test calculation of Kappa3. 99: [01:19:58] done 99: [01:19:58] ------------------------------------- 99: [01:19:58] Test Crippen atom type calculations. 99: [01:19:58] done 99: [01:19:58] ------------------------------------- 99: [01:19:58] Test ring descriptors 99: [01:19:58] done 99: [01:19:58] ------------------------------------- 99: [01:19:58] Test other count descriptors. 99: [01:19:58] done 99: [01:19:58] ------------------------------------- 99: [01:19:58] Test MQN 99: [01:19:58] done 99: [01:19:58] ------------------------------------- 99: [01:19:58] Test GitHub Issue 56. 99: [01:19:58] WARNING: not removing hydrogen atom without neighbors 99: [01:19:58] WARNING: not removing hydrogen atom without neighbors 99: [01:19:58] WARNING: not removing hydrogen atom without neighbors 99: [01:19:58] WARNING: not removing hydrogen atom without neighbors 99: [01:19:58] done 99: [01:19:58] ------------------------------------- 99: [01:19:58] Test Github92: Bad Crippen atom type for pyrrole H. 99: [01:19:58] done 99: [01:19:58] ------------------------------------- 99: [01:19:58] Test Github362: order dependence in Kier-Hall descriptors. 99: [01:19:58] done 99: [01:19:58] ------------------------------------- 99: [01:19:58] Test calculation of spiro and bridgehead counts. 99: [01:19:58] done 99: [01:19:58] ------------------------------------- 99: [01:19:58] Test Github694: ExactMolWt ignoring the mass of the electron 99: [01:19:58] done 99: [01:19:58] ------------------------------------- 99: [01:19:58] Testing Properties and KitchenSink 99: [01:19:58] ---Caught keyerror (bad property name)--- 99: [01:19:58] ---Caught stereo value error--- 99: [01:19:58] ------------------------------------- 99: [01:19:58] Test USR Descriptor 99: [01:19:58] done 99: [01:19:58] ------------------------------------- 99: [01:19:58] Test Github #1702: AUTOCORR2D.h not installed unless RDK_BUILD_DESCRIPTORS3D but is required 99: [01:19:58] done 99: [01:19:58] ------------------------------------- 99: [01:19:58] Test Github #1973: support P and S terms for TPSA calculation 99: [01:19:58] done 99: [01:19:58] ------------------------------------- 99: [01:19:58] Test Github #2948: Empty molecule has non-zero LabuteASA 99: [01:19:58] done 102/222 Test #99: testDescriptors ........................ Passed 7.44 sec test 106 Start 106: testRDF 106: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/testRDF 106: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors 106: Test timeout computed to be: 1500 106: =>start test rdf 106: [01:19:59] test on : 365 molecules done 103/222 Test #106: testRDF ................................ Passed 1.14 sec test 107 Start 107: testMORSE 107: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/testMORSE 107: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors 107: Test timeout computed to be: 1500 105: =>start test morse custom 105: [01:20:00] test on : 365 molecules done 105: =>start test AUTOCORR3D custom 105: [01:20:00] test on : 365 molecules done 105: =>start test 2 WHIM custom 105: [01:20:01] test on : 365 molecules done 107: =>start test MORSE 107: =>read file 107: [01:20:01] test on : 365 molecules done 104/222 Test #107: testMORSE .............................. Passed 1.73 sec test 108 Start 108: test3D 108: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/test3D 108: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors 108: Test timeout computed to be: 1500 108: [01:20:01] ------------------------------------- 108: [01:20:01] Basic PMI tests. 105: =>start test 1 WHIM custom 105: [01:20:01] test on : 365 molecules done 108: [01:20:02] done 108: [01:20:02] ------------------------------------- 108: [01:20:02] More PMI/NPR tests. 108: [01:20:02] done 108: [01:20:02] ------------------------------------- 108: [01:20:02] Basic NPR tests. 108: [01:20:02] done 108: [01:20:02] ------------------------------------- 108: [01:20:02] PMI edge cases. 108: [01:20:02] done 108: [01:20:02] ------------------------------------- 108: [01:20:02] NPR edge cases. 108: [01:20:02] done 108: [01:20:02] ------------------------------------- 108: [01:20:02] 3D descriptors. 108: [01:20:02] done 108: [01:20:02] ------------------------------------- 108: [01:20:02] 3D descriptor edge cases. 108: [01:20:02] done 108: [01:20:02] ------------------------------------- 108: [01:20:02] Inertial shape factor. 108: [01:20:02] done 105/222 Test #108: test3D ................................. Passed 0.99 sec test 109 Start 109: testWHIM 109: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/testWHIM 109: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors 109: Test timeout computed to be: 1500 109: =>start test WHIM 109: [01:20:03] test on : 365 molecules done 106/222 Test #109: testWHIM ............................... Passed 0.91 sec test 110 Start 110: testGETAWAY 110: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/testGETAWAY 110: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors 110: Test timeout computed to be: 1500 83: 0,0 0 83: 0,1 0 83: 1,0 0 83: 1,1 0 83: 2,0 0 83: 2,1 0 107/222 Test #83: testEnumeration ........................ Passed 25.95 sec test 111 Start 111: testAUTOCORR3D 111: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/testAUTOCORR3D 111: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors 111: Test timeout computed to be: 1500 111: =>start test autocorr3D 111: [01:20:05] test on : 365 molecules done 108/222 Test #111: testAUTOCORR3D ......................... Passed 0.94 sec test 112 Start 112: testCoulombMat 112: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/testCoulombMat 112: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors 112: Test timeout computed to be: 1500 112: ===================== Testing CoulombMat ======================= 112: CM test 1 mat Done 109/222 Test #112: testCoulombMat ......................... Passed 0.06 sec test 113 Start 113: descriptorsTestCatch 113: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/descriptorsTestCatch 113: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors 113: Test timeout computed to be: 1500 113: Randomness seeded to: 1186669425 113: =============================================================================== 113: All tests passed (482 assertions in 7 test cases) 113: 110/222 Test #113: descriptorsTestCatch ................... Passed 0.07 sec test 114 Start 114: pyMolDescriptors 114: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/Descriptors/Wrap/testMolDescriptors.py" 114: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/Wrap 114: Test timeout computed to be: 1500 105: =>start test GETAWAY custom 105: [01:20:05] test on : 365 molecules done 111/222 Test #105: testRDFcustom .......................... Passed 8.17 sec test 115 Start 115: pyMolDescriptors3D 115: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/Descriptors/Wrap/test3D.py" 115: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/Wrap 115: Test timeout computed to be: 1500 112/222 Test #114: pyMolDescriptors .......................***Exception: SegFault 1.34 sec test 116 Start 116: testFingerprints 116: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints/testFingerprints 116: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints 116: Test timeout computed to be: 1500 116: 116: 116: 116: 116: 116: 116: 116: 116: 116: ------------------- 116: 116: 116: 116: 116: 116: 116: 116: 116: 116: ------------------- 116: Atoms: 116: 0 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: 3 arom?: 0 chi: 0 116: 1 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 2 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: 3 arom?: 1 chi: 0 116: 3 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 4 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 5 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: 3 arom?: 1 chi: 0 116: 6 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 7 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 8 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 9 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: 3 arom?: 0 chi: 0 116: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: Bonds: 116: 0 0->1 order: 1 conj?: 1 aromatic?: 0 116: 1 1->2 order: 12 conj?: 1 aromatic?: 1 116: 2 2->3 order: 12 conj?: 1 aromatic?: 1 116: 3 3->4 order: 12 conj?: 1 aromatic?: 1 116: 4 4->5 order: 12 conj?: 1 aromatic?: 1 116: 5 5->6 order: 12 conj?: 1 aromatic?: 1 116: 6 6->7 order: 12 conj?: 1 aromatic?: 1 116: 7 7->8 order: 12 conj?: 1 aromatic?: 1 116: 8 8->9 order: 1 conj?: 1 aromatic?: 0 116: 9 8->10 order: 12 conj?: 1 aromatic?: 1 116: 10 10->1 order: 12 conj?: 1 aromatic?: 1 116: 11 7->3 order: 12 conj?: 1 aromatic?: 1 116: 116: 116: 116: 116: 116: 116: 116: 116: 116: ------------------- 116: SMI: Oc1cc2[nH]cnc2c(O)n1 116: Atoms: 116: 0 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: 3 arom?: 0 chi: 0 116: 1 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 2 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: 3 arom?: 1 chi: 0 116: 3 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 4 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 5 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: 3 arom?: 1 chi: 0 116: 6 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 7 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 8 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 9 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: 3 arom?: 0 chi: 0 116: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: Bonds: 116: 0 0->1 order: 1 conj?: 1 aromatic?: 0 116: 1 1->2 order: 12 conj?: 1 aromatic?: 1 116: 2 2->3 order: 12 conj?: 1 aromatic?: 1 116: 3 3->4 order: 12 conj?: 1 aromatic?: 1 116: 4 4->5 order: 12 conj?: 1 aromatic?: 1 116: 5 5->6 order: 12 conj?: 1 aromatic?: 1 116: 6 6->7 order: 12 conj?: 1 aromatic?: 1 116: 7 7->8 order: 12 conj?: 1 aromatic?: 1 116: 8 8->9 order: 1 conj?: 1 aromatic?: 0 116: 9 8->10 order: 12 conj?: 1 aromatic?: 1 116: 10 10->1 order: 12 conj?: 1 aromatic?: 1 116: 11 7->3 order: 12 conj?: 1 aromatic?: 1 116: 116: 116: 116: 116: 116: 116: 116: 116: 116: ------------------- 116: 116: SMI: c1(O)cc2[nH]cnc2c(O)n1 116: Atoms: 116: 0 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 1 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: 3 arom?: 0 chi: 0 116: 2 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: 3 arom?: 1 chi: 0 116: 3 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 4 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 5 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: 3 arom?: 1 chi: 0 116: 6 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 7 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 8 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 9 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: 3 arom?: 0 chi: 0 116: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: Bonds: 116: 0 0->1 order: 1 conj?: 1 aromatic?: 0 116: 1 0->2 order: 12 conj?: 1 aromatic?: 1 116: 2 2->3 order: 12 conj?: 1 aromatic?: 1 116: 3 3->4 order: 12 conj?: 1 aromatic?: 1 116: 4 4->5 order: 12 conj?: 1 aromatic?: 1 116: 5 5->6 order: 12 conj?: 1 aromatic?: 1 116: 6 6->7 order: 12 conj?: 1 aromatic?: 1 116: 7 7->8 order: 12 conj?: 1 aromatic?: 1 116: 8 8->9 order: 1 conj?: 1 aromatic?: 0 116: 9 8->10 order: 12 conj?: 1 aromatic?: 1 116: 10 10->0 order: 12 conj?: 1 aromatic?: 1 116: 11 7->3 order: 12 conj?: 1 aromatic?: 1 116: 116: 116: 116: 116: 116: 116: 116: 116: 116: ------------------- 116: 116: SMI: c1c(O)nc(O)c2c1[nH]cn2 116: Atoms: 116: 0 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: 3 arom?: 1 chi: 0 116: 1 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 2 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: 3 arom?: 0 chi: 0 116: 3 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 4 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 5 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: 3 arom?: 0 chi: 0 116: 6 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 7 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 8 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 9 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: 3 arom?: 1 chi: 0 116: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: Bonds: 116: 0 0->1 order: 12 conj?: 1 aromatic?: 1 116: 1 1->2 order: 1 conj?: 1 aromatic?: 0 116: 2 1->3 order: 12 conj?: 1 aromatic?: 1 116: 3 3->4 order: 12 conj?: 1 aromatic?: 1 116: 4 4->5 order: 1 conj?: 1 aromatic?: 0 116: 5 4->6 order: 12 conj?: 1 aromatic?: 1 116: 6 6->7 order: 12 conj?: 1 aromatic?: 1 116: 7 7->8 order: 12 conj?: 1 aromatic?: 1 116: 8 8->9 order: 12 conj?: 1 aromatic?: 1 116: 9 9->10 order: 12 conj?: 1 aromatic?: 1 116: 10 7->0 order: 12 conj?: 1 aromatic?: 1 116: 11 10->6 order: 12 conj?: 1 aromatic?: 1 116: 116: 116: 116: 116: 116: 116: 116: 116: 116: ------------------- 116: 116: SMI: c12cc(O)nc(O)c1nc[nH]2 116: Atoms: 116: 0 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 1 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: 3 arom?: 1 chi: 0 116: 2 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 3 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: 3 arom?: 0 chi: 0 116: 4 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 5 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 6 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: 3 arom?: 0 chi: 0 116: 7 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 8 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 9 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: 3 arom?: 1 chi: 0 116: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: Bonds: 116: 0 0->1 order: 12 conj?: 1 aromatic?: 1 116: 1 1->2 order: 12 conj?: 1 aromatic?: 1 116: 2 2->3 order: 1 conj?: 1 aromatic?: 0 116: 3 2->4 order: 12 conj?: 1 aromatic?: 1 116: 4 4->5 order: 12 conj?: 1 aromatic?: 1 116: 5 5->6 order: 1 conj?: 1 aromatic?: 0 116: 6 5->7 order: 12 conj?: 1 aromatic?: 1 116: 7 7->8 order: 12 conj?: 1 aromatic?: 1 116: 8 8->9 order: 12 conj?: 1 aromatic?: 1 116: 9 9->10 order: 12 conj?: 1 aromatic?: 1 116: 10 7->0 order: 12 conj?: 1 aromatic?: 1 116: 11 10->0 order: 12 conj?: 1 aromatic?: 1 116: 116: 116: 116: 116: 116: 116: 116: 116: 116: ------------------- 116: 116: SMI: [nH]1c2cc(O)nc(O)c2nc1 116: Atoms: 116: 0 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 1 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 2 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: 3 arom?: 1 chi: 0 116: 3 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 4 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: 3 arom?: 0 chi: 0 116: 5 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 6 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 7 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: 3 arom?: 0 chi: 0 116: 8 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 9 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 10 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: 3 arom?: 1 chi: 0 116: Bonds: 116: 0 0->1 order: 12 conj?: 1 aromatic?: 1 116: 1 1->2 order: 12 conj?: 1 aromatic?: 1 116: 2 2->3 order: 12 conj?: 1 aromatic?: 1 116: 3 3->4 order: 1 conj?: 1 aromatic?: 0 116: 4 3->5 order: 12 conj?: 1 aromatic?: 1 116: 5 5->6 order: 12 conj?: 1 aromatic?: 1 116: 6 6->7 order: 1 conj?: 1 aromatic?: 0 116: 7 6->8 order: 12 conj?: 1 aromatic?: 1 116: 8 8->9 order: 12 conj?: 1 aromatic?: 1 116: 9 9->10 order: 12 conj?: 1 aromatic?: 1 116: 10 10->0 order: 12 conj?: 1 aromatic?: 1 116: 11 8->1 order: 12 conj?: 1 aromatic?: 1 116: 116: 116: 116: 116: 116: 116: 116: 116: 116: ------------------- 116: 116: SMI: c1[nH]c2cc(O)nc(O)c2n1 116: Atoms: 116: 0 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: 3 arom?: 1 chi: 0 116: 1 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 2 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 3 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: 3 arom?: 1 chi: 0 116: 4 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 5 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: 3 arom?: 0 chi: 0 116: 6 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 7 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 8 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: 3 arom?: 0 chi: 0 116: 9 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: Bonds: 116: 0 0->1 order: 12 conj?: 1 aromatic?: 1 116: 1 1->2 order: 12 conj?: 1 aromatic?: 1 116: 2 2->3 order: 12 conj?: 1 aromatic?: 1 116: 3 3->4 order: 12 conj?: 1 aromatic?: 1 116: 4 4->5 order: 1 conj?: 1 aromatic?: 0 116: 5 4->6 order: 12 conj?: 1 aromatic?: 1 116: 6 6->7 order: 12 conj?: 1 aromatic?: 1 116: 7 7->8 order: 1 conj?: 1 aromatic?: 0 116: 8 7->9 order: 12 conj?: 1 aromatic?: 1 116: 9 9->10 order: 12 conj?: 1 aromatic?: 1 116: 10 10->0 order: 12 conj?: 1 aromatic?: 1 116: 11 9->2 order: 12 conj?: 1 aromatic?: 1 116: 116: 116: 116: 116: 116: 116: 116: 116: 116: ------------------- 116: 116: SMI: n1c[nH]c2cc(O)nc(O)c21 116: Atoms: 116: 0 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 1 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: 3 arom?: 1 chi: 0 116: 2 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 3 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 4 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: 3 arom?: 1 chi: 0 116: 5 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 6 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: 3 arom?: 0 chi: 0 116: 7 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 8 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 9 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: 3 arom?: 0 chi: 0 116: 10 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: Bonds: 116: 0 0->1 order: 12 conj?: 1 aromatic?: 1 116: 1 1->2 order: 12 conj?: 1 aromatic?: 1 116: 2 2->3 order: 12 conj?: 1 aromatic?: 1 116: 3 3->4 order: 12 conj?: 1 aromatic?: 1 116: 4 4->5 order: 12 conj?: 1 aromatic?: 1 116: 5 5->6 order: 1 conj?: 1 aromatic?: 0 116: 6 5->7 order: 12 conj?: 1 aromatic?: 1 116: 7 7->8 order: 12 conj?: 1 aromatic?: 1 116: 8 8->9 order: 1 conj?: 1 aromatic?: 0 116: 9 8->10 order: 12 conj?: 1 aromatic?: 1 116: 10 10->0 order: 12 conj?: 1 aromatic?: 1 116: 11 10->3 order: 12 conj?: 1 aromatic?: 1 116: 116: 116: 116: 116: 116: 116: 116: 116: 116: ------------------- 116: 116: SMI: c12c(cc(O)nc1O)[nH]cn2 116: Atoms: 116: 0 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 1 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 2 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: 3 arom?: 1 chi: 0 116: 3 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 4 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: 3 arom?: 0 chi: 0 116: 5 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 6 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 7 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: 3 arom?: 0 chi: 0 116: 8 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 9 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: 3 arom?: 1 chi: 0 116: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: Bonds: 116: 0 0->1 order: 12 conj?: 1 aromatic?: 1 116: 1 1->2 order: 12 conj?: 1 aromatic?: 1 116: 2 2->3 order: 12 conj?: 1 aromatic?: 1 116: 3 3->4 order: 1 conj?: 1 aromatic?: 0 116: 4 3->5 order: 12 conj?: 1 aromatic?: 1 116: 5 5->6 order: 12 conj?: 1 aromatic?: 1 116: 6 6->7 order: 1 conj?: 1 aromatic?: 0 116: 7 1->8 order: 12 conj?: 1 aromatic?: 1 116: 8 8->9 order: 12 conj?: 1 aromatic?: 1 116: 9 9->10 order: 12 conj?: 1 aromatic?: 1 116: 10 6->0 order: 12 conj?: 1 aromatic?: 1 116: 11 10->0 order: 12 conj?: 1 aromatic?: 1 116: 116: 116: 116: 116: 116: 116: 116: 116: 116: ------------------- 116: 116: SMI: c1(O)c2c(cc(O)n1)[nH]cn2 116: Atoms: 116: 0 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 1 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: 3 arom?: 0 chi: 0 116: 2 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 3 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 4 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: 3 arom?: 1 chi: 0 116: 5 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 6 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: 3 arom?: 0 chi: 0 116: 7 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 8 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 9 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: 3 arom?: 1 chi: 0 116: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: Bonds: 116: 0 0->1 order: 1 conj?: 1 aromatic?: 0 116: 1 0->2 order: 12 conj?: 1 aromatic?: 1 116: 2 2->3 order: 12 conj?: 1 aromatic?: 1 116: 3 3->4 order: 12 conj?: 1 aromatic?: 1 116: 4 4->5 order: 12 conj?: 1 aromatic?: 1 116: 5 5->6 order: 1 conj?: 1 aromatic?: 0 116: 6 5->7 order: 12 conj?: 1 aromatic?: 1 116: 7 3->8 order: 12 conj?: 1 aromatic?: 1 116: 8 8->9 order: 12 conj?: 1 aromatic?: 1 116: 9 9->10 order: 12 conj?: 1 aromatic?: 1 116: 10 7->0 order: 12 conj?: 1 aromatic?: 1 116: 11 10->2 order: 12 conj?: 1 aromatic?: 1 116: 116: 116: 116: 116: 116: 116: 116: 116: 116: ------------------- 116: 116: SMI: Oc1c2c(cc(O)n1)[nH]cn2 116: Atoms: 116: 0 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: 3 arom?: 0 chi: 0 116: 1 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 2 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 3 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 4 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: 3 arom?: 1 chi: 0 116: 5 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 6 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: 3 arom?: 0 chi: 0 116: 7 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 8 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 9 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: 3 arom?: 1 chi: 0 116: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: Bonds: 116: 0 0->1 order: 1 conj?: 1 aromatic?: 0 116: 1 1->2 order: 12 conj?: 1 aromatic?: 1 116: 2 2->3 order: 12 conj?: 1 aromatic?: 1 116: 3 3->4 order: 12 conj?: 1 aromatic?: 1 116: 4 4->5 order: 12 conj?: 1 aromatic?: 1 116: 5 5->6 order: 1 conj?: 1 aromatic?: 0 116: 6 5->7 order: 12 conj?: 1 aromatic?: 1 116: 7 3->8 order: 12 conj?: 1 aromatic?: 1 116: 8 8->9 order: 12 conj?: 1 aromatic?: 1 116: 9 9->10 order: 12 conj?: 1 aromatic?: 1 116: 10 7->1 order: 12 conj?: 1 aromatic?: 1 116: 11 10->2 order: 12 conj?: 1 aromatic?: 1 116: 116: 116: 116: 116: 116: 116: 116: 116: 116: ------------------- 116: 116: SMI: n1c(O)cc2[nH]cnc2c1O 116: Atoms: 116: 0 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 1 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 2 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: 3 arom?: 0 chi: 0 116: 3 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: 3 arom?: 1 chi: 0 116: 4 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 5 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 6 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: 3 arom?: 1 chi: 0 116: 7 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 8 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 9 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: 3 arom?: 1 chi: 0 116: 10 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: 3 arom?: 0 chi: 0 116: Bonds: 116: 0 0->1 order: 12 conj?: 1 aromatic?: 1 116: 1 1->2 order: 1 conj?: 1 aromatic?: 0 116: 2 1->3 order: 12 conj?: 1 aromatic?: 1 116: 3 3->4 order: 12 conj?: 1 aromatic?: 1 116: 4 4->5 order: 12 conj?: 1 aromatic?: 1 116: 5 5->6 order: 12 conj?: 1 aromatic?: 1 116: 6 6->7 order: 12 conj?: 1 aromatic?: 1 116: 7 7->8 order: 12 conj?: 1 aromatic?: 1 116: 8 8->9 order: 12 conj?: 1 aromatic?: 1 116: 9 9->10 order: 1 conj?: 1 aromatic?: 0 116: 10 9->0 order: 12 conj?: 1 aromatic?: 1 116: 11 8->4 order: 12 conj?: 1 aromatic?: 1 116: 116: 116: 116: 116: 116: 116: 116: 116: 116: ------------------- 116: 116: 116: 116: 116: 116: 116: 116: 116: 116: 116: ------------------- 116: 116: 116: 116: 116: 116: 116: 116: 116: 116: ------------------- 116: 116: [01:20:06] ------------------------------------- 116: [01:20:06] Test Morgan Fingerprints. 116: [01:20:06] done 116: [01:20:06] ------------------------------------- 116: [01:20:06] Test Morgan Fingerprints using fromAtoms argument. 116: [01:20:06] done 116: [01:20:06] ------------------------------------- 116: [01:20:06] Test Morgan Fingerprints as bit vects. 116: [01:20:06] done 116: [01:20:06] ------------------------------------- 116: [01:20:06] Test Morgan Fingerprints with feature invariants. 116: [01:20:06] done 116: [01:20:06] ------------------------------------- 116: [01:20:06] Test additional Morgan fingerprints options. 116: [01:20:06] done 116: [01:20:06] ------------------------------------- 116: [01:20:06] Test Atom Codes. 116: [01:20:06] done 116: [01:20:06] ------------------------------------- 116: [01:20:06] Test Atom Pairs. 116: [01:20:06] done 116: [01:20:06] ------------------------------------- 116: [01:20:06] Test Atom Pairs part 2. 116: [01:20:06] done 116: [01:20:06] ------------------------------------- 116: [01:20:06] Test Topological Torsions. 116: [01:20:06] done 116: [01:20:06] ------------------------------------- 116: [01:20:06] Test Bulk Topological Torsions. 113/222 Test #115: pyMolDescriptors3D .....................***Exception: SegFault 1.27 sec test 117 Start 117: testMHFPFingerprint 117: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints/testMHFPFingerprint 117: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints 117: Test timeout computed to be: 1500 117: [01:20:06] ------------------------------------- 117: [01:20:06] Test MHFP fingerprint encoder initialization 117: [01:20:06] done 117: [01:20:06] ------------------------------------- 117: [01:20:06] Test MHFP shingling creation 117: [01:20:06] done 117: [01:20:06] ------------------------------------- 117: [01:20:06] Test MHFP hashing of string and uint arrays 117: [01:20:06] done 117: [01:20:06] ------------------------------------- 117: [01:20:06] Test SECFP fingerprint functionality 117: [01:20:06] done 114/222 Test #117: testMHFPFingerprint .................... Passed 0.12 sec test 118 Start 118: testFingerprintGenerators 118: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints/testFingerprintGenerators 118: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints 118: Test timeout computed to be: 1500 116: [01:20:06] done 116: [01:20:06] ------------------------------------- 116: [01:20:06] Test Hashed Atom Pairs. 116: [01:20:06] done 116: [01:20:06] ------------------------------------- 116: [01:20:06] Test Hashed torsions. 116: [01:20:06] done 116: [01:20:06] ------------------------------------- 116: [01:20:06] Test Rooted Atom Pairs. 116: [01:20:06] done 116: [01:20:06] ------------------------------------- 116: [01:20:06] Test ignoring atoms in Atom Pairs. 116: [01:20:06] done 116: [01:20:06] ------------------------------------- 116: [01:20:06] Test Rooted Topological Torsions. 116: [01:20:06] done 116: [01:20:06] ------------------------------------- 116: [01:20:06] Test ignoring atoms in Topological Torsions. 116: [01:20:06] done 116: [01:20:06] ------------------------------------- 116: [01:20:06] Test atom info from morgan fingerprints. 116: [01:20:06] done 116: [01:20:06] ------------------------------------- 116: [01:20:06] Test atom info from morgan fingerprints including Info Redundant Environments. 116: [01:20:06] done 116: [01:20:06] ------------------------------------- 116: [01:20:06] ------------------------------------- 116: [01:20:06] ------------------------------------- 116: [01:20:06] ------------------------------------- 116: [01:20:06] ------------------------------------- 116: [01:20:06] ------------------------------------- 116: [01:20:06] Test Atom Pairs including info about chirality. 116: [01:20:06] done 116: [01:20:06] ------------------------------------- 116: [01:20:06] Test Topological Torsions including info about chirality. 116: [01:20:06] done 116: [01:20:06] ------------------------------------- 116: [01:20:06] Test GitHub Issue 25: fingerprint backwards compatibility. 116: [01:20:06] done 116: [01:20:06] ------------------------------------- 116: [01:20:06] Test GitHub Issue 151: PatternFingerprint problems 118: [01:20:06] ------------------------------------- 118: [01:20:06] Test atom-pair fp generator 110: =>start test GETAWAY 110: [01:20:06] test on : 365 molecules done 115/222 Test #110: testGETAWAY ............................ Passed 3.54 sec test 119 Start 119: fpTestCatch 119: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints/fpTestCatch 119: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints 119: Test timeout computed to be: 1500 118: [01:20:06] done 118: [01:20:06] ------------------------------------- 118: [01:20:06] Test atom-pair fp generator with different arguments 118: [01:20:06] done 118: [01:20:06] ------------------------------------- 118: [01:20:06] Test compatibility between atom pair implementation for FingerprintGenerator and old atom pairs implementation 116: [01:20:06] done 116: [01:20:06] ------------------------------------- 116: [01:20:06] Test 3D atom pairs. 116: [01:20:06] done 116: [01:20:06] ------------------------------------- 116: [01:20:06] Test GitHub Issue 195: GenMACCSKeys() raises an exception with an empty molecule 116: [01:20:06] done 116: [01:20:06] ------------------------------------- 116: [01:20:06] Test multithreading with the pattern FP 116: reading molecules 118: [01:20:06] done 118: [01:20:06] ------------------------------------- 118: [01:20:06] Test atom-pair additional output 118: [01:20:06] done 118: [01:20:06] ------------------------------------- 118: [01:20:06] Test Folded Atom Pairs. 118: [01:20:06] done 118: [01:20:06] ------------------------------------- 118: [01:20:06] Test Rooted Atom Pairs. 118: [01:20:06] done 118: [01:20:06] ------------------------------------- 118: [01:20:06] Test ignoring atoms in Atom Pairs. 118: [01:20:06] done 118: [01:20:06] ------------------------------------- 118: [01:20:06] Test Atom Pairs including info about chirality. 118: [01:20:06] done 118: [01:20:06] ------------------------------------- 118: [01:20:06] Test Morgan Fingerprints. 119: Randomness seeded to: 2783450020 119: 119: ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 119: fpTestCatch is a Catch2 v3.4.0 host application. 119: Run with -? for options 119: 119: ------------------------------------------------------------------------------- 119: TopologicalTorsionGenerator bit info 119: unfolded bitInfo 119: ------------------------------------------------------------------------------- 119: ./Code/GraphMol/Fingerprints/catch_tests.cpp:473 119: ............................................................................... 119: 119: ./Code/GraphMol/Fingerprints/catch_tests.cpp:500: FAILED: 119: CHECK( *ao.bitPaths == expected ) 119: with expansion: 119: { {?}, {?} } == { {?}, {?} } 119: 119: ------------------------------------------------------------------------------- 119: TopologicalTorsionGenerator bit info 119: unfolded atomToBits atomCounts 119: ------------------------------------------------------------------------------- 119: ./Code/GraphMol/Fingerprints/catch_tests.cpp:504 119: ............................................................................... 119: 119: ./Code/GraphMol/Fingerprints/catch_tests.cpp:533: FAILED: 119: CHECK( *ao.atomToBits == expected1 ) 119: with expansion: 119: { { 142622752 (0x8804020) }, { 142622752 (0x8804020), 8405025 (0x804021) }, { 119: 142622752 (0x8804020), 8405025 (0x804021) }, { 142622752 (0x8804020), 8405025 119: (0x804021) }, { 8405025 (0x804021) } } 119: == 119: { { 4437590048 (0x108804020) }, { 4437590048 (0x108804020), 30073176097 119: (0x700804021) }, { 4437590048 (0x108804020), 30073176097 (0x700804021) }, { 119: 4437590048 (0x108804020), 30073176097 (0x700804021) }, { 30073176097 119: (0x700804021) } } 119: 118: [01:20:07] done 118: [01:20:07] ------------------------------------- 118: [01:20:07] Test morgan fp generator 119: =============================================================================== 119: test cases: 14 | 13 passed | 1 failed 119: assertions: 166 | 164 passed | 2 failed 119: 116: pass 1 116: launch :0 116: launch :1 116: launch :2 116: launch :3 116/222 Test #119: fpTestCatch ............................***Failed 0.07 sec Randomness seeded to: 2783450020 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fpTestCatch is a Catch2 v3.4.0 host application. Run with -? for options ------------------------------------------------------------------------------- TopologicalTorsionGenerator bit info unfolded bitInfo ------------------------------------------------------------------------------- ./Code/GraphMol/Fingerprints/catch_tests.cpp:473 ............................................................................... ./Code/GraphMol/Fingerprints/catch_tests.cpp:500: FAILED: CHECK( *ao.bitPaths == expected ) with expansion: { {?}, {?} } == { {?}, {?} } ------------------------------------------------------------------------------- TopologicalTorsionGenerator bit info unfolded atomToBits atomCounts ------------------------------------------------------------------------------- ./Code/GraphMol/Fingerprints/catch_tests.cpp:504 ............................................................................... ./Code/GraphMol/Fingerprints/catch_tests.cpp:533: FAILED: CHECK( *ao.atomToBits == expected1 ) with expansion: { { 142622752 (0x8804020) }, { 142622752 (0x8804020), 8405025 (0x804021) }, { 142622752 (0x8804020), 8405025 (0x804021) }, { 142622752 (0x8804020), 8405025 (0x804021) }, { 8405025 (0x804021) } } == { { 4437590048 (0x108804020) }, { 4437590048 (0x108804020), 30073176097 (0x700804021) }, { 4437590048 (0x108804020), 30073176097 (0x700804021) }, { 4437590048 (0x108804020), 30073176097 (0x700804021) }, { 30073176097 (0x700804021) } } =============================================================================== test cases: 14 | 13 passed | 1 failed assertions: 166 | 164 passed | 2 failed test 120 Start 120: fpGenTestCatch 120: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints/fpGenTestCatch 120: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints 120: Test timeout computed to be: 1500 118: [01:20:07] done 118: [01:20:07] ------------------------------------- 118: [01:20:07] Test Morgan Fingerprints using fromAtoms argument. 118: [01:20:07] done 118: [01:20:07] ------------------------------------- 118: [01:20:07] Test Morgan Fingerprints as bit vects. 118: [01:20:07] done 118: [01:20:07] ------------------------------------- 118: [01:20:07] Test Morgan Fingerprints with feature invariants. 118: [01:20:07] done 118: [01:20:07] ------------------------------------- 118: [01:20:07] Test additional Morgan fingerprints options. 118: [01:20:07] done 118: [01:20:07] ------------------------------------- 118: [01:20:07] Test GitHub Issue 695: Include cis/trans stereochemistry when useChirality=true with the morgan fingerprints 118: [01:20:07] done 118: [01:20:07] ------------------------------------- 118: [01:20:07] Single atoms setting radius 1 bits in Morgan fingerprints 118: [01:20:07] done 118: [01:20:07] ------------------------------------- 118: [01:20:07] Test different invariant generator combinations 118: [01:20:07] done 118: [01:20:07] ------------------------------------- 118: [01:20:07] Test invariant overriding 118: [01:20:07] done 118: [01:20:07] ------------------------------------- 118: [01:20:07] Test RDKit fp generator 120: Randomness seeded to: 1587940755 120: =============================================================================== 120: All tests passed (2678 assertions in 4 test cases) 120: 117/222 Test #120: fpGenTestCatch ......................... Passed 0.34 sec test 121 Start 121: pyTestGenerator 121: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/Fingerprints/Wrap/testGenerators.py" 121: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints/Wrap 121: Test timeout computed to be: 1500 116: pass 2 116: launch :0 116: launch :1 116: launch :2 116: launch :3 118: [01:20:08] done 118: [01:20:08] ------------------------------------- 118: [01:20:08] Test unfolded version of RDKFP 118: [01:20:08] ------------------------------------- 118: [01:20:08] Test topological torsion fp generator 118: [01:20:08] done 118: [01:20:08] ------------------------------------- 118: [01:20:08] Test Topological Torsions. 118: [01:20:08] done 118: [01:20:08] ------------------------------------- 118: [01:20:08] Test Folded torsions. 118: [01:20:08] done 118: [01:20:08] ------------------------------------- 118: [01:20:08] Test Bulk Topological Torsions. 118: [01:20:08] done 118: [01:20:08] ------------------------------------- 118: [01:20:08] Test Rooted Topological Torsions. 118: [01:20:08] done 118: [01:20:08] ------------------------------------- 118: [01:20:08] Test ignoring atoms in Topological Torsions. 118: [01:20:08] done 118: [01:20:08] ------------------------------------- 118: [01:20:08] ------------------------------------- 118: [01:20:08] Test Topological Torsions including info about chirality. 118: [01:20:08] done 118: [01:20:08] ------------------------------------- 118: [01:20:08] Test GitHub Issue 25: fingerprint backwards compatibility. 118: [01:20:08] done 118: [01:20:08] ------------------------------------- 118: [01:20:08] Test GitHub Issue 334: explicit Hs in SMILES modifies atom pair (and topological torsion) FP. 118: [01:20:08] done 118: [01:20:08] ------------------------------------- 118: [01:20:08] Test GitHub Issue 811: rooted atom fingerprint non identical for the same molecules #811 118: [01:20:08] done 118: [01:20:08] ------------------------------------- 118: [01:20:08] Test convenience and bulk fp calculation functions 118/222 Test #121: pyTestGenerator ........................***Exception: SegFault 1.44 sec test 122 Start 122: pyTestMHFP 122: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/Fingerprints/Wrap/testMHFP.py" 122: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints/Wrap 122: Test timeout computed to be: 1500 118: [01:20:09] done 118: [01:20:09] ------------------------------------- 118: [01:20:09] Test GitHub Issue #6958 119/222 Test #118: testFingerprintGenerators .............. Passed 2.50 sec test 123 Start 123: testPartialCharges 123: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/PartialCharges/testPartialCharges 123: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/PartialCharges 123: Test timeout computed to be: 1500 120/222 Test #123: testPartialCharges ..................... Passed 0.04 sec test 124 Start 124: pyPartialCharges 124: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/PartialCharges/Wrap/testPartialCharges.py" 124: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/PartialCharges/Wrap 124: Test timeout computed to be: 1500 121/222 Test #122: pyTestMHFP .............................***Exception: SegFault 1.65 sec test 125 Start 125: testMolTransforms 125: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolTransforms/testMolTransforms 125: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolTransforms 125: Test timeout computed to be: 1500 125: *********************************************************** 125: Testing MolTransforms 125: --------------------------------- 125: test1Canonicalization 125: 125: --------------------------------- 125: testGetSetBondLength 125: 125: --------------------------------- 125: testGetSetAngle 125: 125: --------------------------------- 125: testGetSetDihedral 125: 125: --------------------------------- 125: testGetSetDihedralThroughTripleBond 125: 125: --------------------------------- 125: testGithub1262: PMI descriptors incorrect 125: 125: --------------------------------- 125: testGithub1908: CanonicalizeMol() distorting bond lengths 125: 125: --------------------------------- 125: testGithub4302: native computeCanonicalTransform() generates non-canonical coords 125: 125: --------------------------------- 125: testWeightedCentroid 125: 125: *********************************************************** 122/222 Test #125: testMolTransforms ...................... Passed 0.17 sec test 126 Start 126: pyMolTransforms 126: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/MolTransforms/Wrap/testMolTransforms.py" 126: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolTransforms/Wrap 126: Test timeout computed to be: 1500 123/222 Test #124: pyPartialCharges .......................***Exception: SegFault 1.80 sec test 127 Start 127: testMMFFForceFieldHelpers 127: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/MMFF/testMMFFForceFieldHelpers 127: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/MMFF 127: Test timeout computed to be: 1500 127: [01:20:11] ------------------------------------- 127: [01:20:11] Test MMFF atom types. 127: [01:20:11] done 127: [01:20:11] ------------------------------------- 127: [01:20:11] Testing MMFF builder tools. 127: [01:20:11] done 127: [01:20:11] ------------------------------------- 127: [01:20:11] Testing MMFF builder+minimization. 127: [01:20:11] done 127: [01:20:11] ------------------------------------- 127: [01:20:11] Testing Issue239. 127: [01:20:11] done 127: [01:20:11] ------------------------------------- 127: [01:20:11] Testing calcEnergy with passed coords. 127: [01:20:11] done 127: [01:20:11] ------------------------------------- 127: [01:20:11] Testing calcGrad. 127: [01:20:11] done 127: [01:20:11] ------------------------------------- 127: [01:20:11] Testing Issue242. 127: [01:20:12] done 127: [01:20:12] ------------------------------------- 127: [01:20:12] Testing github 308: crash during MMFF parameterization . 127: [01:20:12] ------------------------------------- 127: [01:20:12] Testing SFIssue1653802. 127: [01:20:12] done 127: [01:20:12] ------------------------------------- 127: [01:20:12] Testing SFIssue2378119. 127: [01:20:12] done 127: [01:20:12] ------------------------------------- 127: [01:20:12] Test MMFF force-field parameter getters. 127: [01:20:12] ------------------------------------- 127: [01:20:12] Test MMFF multithreading 127: generating reference data 124/222 Test #126: pyMolTransforms ........................***Exception: SegFault 1.78 sec test 128 Start 128: testMMFFForceFieldHelpersMultiThread 128: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/MMFF/testMMFFForceFieldHelpersMultiThread 128: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/MMFF 128: Test timeout computed to be: 1500 128: [01:20:12] ------------------------------------- 128: [01:20:12] Test MMFF multithreading 128: processing 128: launch :0 128: launch :1 128: launch :2 128: launch :3 128: launch :4 128: launch :5 128: launch :6 128: launch :7 128: launch :8 128: launch :9 128: launch :10 128: launch :11 128: launch :12 128: launch :13 128: launch :14 128: launch :15 128: launch :16 128: launch :17 128: launch :18 128: launch :19 128: launch :20 128: launch :21 128: launch :22 128: launch :23 128: done 128: [01:20:13] done 125/222 Test #128: testMMFFForceFieldHelpersMultiThread ... Passed 0.91 sec test 129 Start 129: testUFFForceFieldHelpers 129: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/UFF/testUFFForceFieldHelpers 129: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/UFF 129: Test timeout computed to be: 1500 129: [01:20:13] ------------------------------------- 129: [01:20:13] Test UFF atom labels. 129: [01:20:13] done 129: [01:20:13] ------------------------------------- 129: [01:20:13] Test UFF atom typer. 129: [01:20:13] done 129: [01:20:13] ------------------------------------- 129: [01:20:13] Testing UFF builder tools. 129: [01:20:13] done 129: [01:20:13] ------------------------------------- 129: [01:20:13] Testing UFF builder+minimization. 129: [01:20:13] done 129: [01:20:13] ------------------------------------- 129: [01:20:13] Testing UFF special cases. 129: [01:20:13] UFFTYPER: Unrecognized charge state for atom: 0 129: [01:20:13] done 129: [01:20:13] ------------------------------------- 129: [01:20:13] Testing Issue239. 129: [01:20:13] done 129: [01:20:13] ------------------------------------- 129: [01:20:13] Testing calcEnergy with passed coords. 127: processing 127: launch :0 127: launch :1 127: launch :2 127: launch :3 127: [01:20:13] Rep: 0 Mol:0 127: [01:20:13] Rep: 0 Mol:1 127: [01:20:13] Rep: 0 Mol:2 127: [01:20:13] Rep: 0 Mol:3 127: [01:20:13] Rep: 0 Mol:5 127: [01:20:13] Rep: 0 Mol:4 129: [01:20:13] done 129: [01:20:13] ------------------------------------- 129: [01:20:13] Testing calcGrad. 127: [01:20:13] Rep: 0 Mol:9 127: [01:20:13] Rep: 0 Mol:6 127: [01:20:13] Rep: 0 Mol:13 127: [01:20:13] Rep: 0 Mol:8 127: [01:20:13] Rep: 0 Mol:10 127: [01:20:13] Rep: 0 Mol:12 127: [01:20:14] Rep: 0 Mol:16 129: [01:20:14] done 129: [01:20:14] ------------------------------------- 129: [01:20:14] Testing SFIssue1653802. 127: [01:20:14] Rep: 0 Mol:17 129: [01:20:14] done 129: [01:20:14] ------------------------------------- 129: [01:20:14] Testing SFIssue2378119. 129: [01:20:14] done 129: [01:20:14] ------------------------------------- 129: [01:20:14] Test UFF force-field parameter getters. 129: [01:20:14] ------------------------------------- 129: [01:20:14] Testing handling missing parameters. 129: [01:20:14] UFFTYPER: Unrecognized hybridization for atom: 0 129: [01:20:14] UFFTYPER: Unrecognized atom type: Cu+1 (0) 129: [01:20:14] UFFTYPER: Unrecognized hybridization for atom: 0 129: [01:20:14] UFFTYPER: Unrecognized atom type: Cu+1 (0) 127: [01:20:14] Rep: 0 Mol:20 127: [01:20:14] Rep: 0 Mol:24 129: [01:20:14] done 129: [01:20:14] ------------------------------------- 129: [01:20:14] Testing SFIssue3009337. 129: [01:20:14] done 129: [01:20:14] ------------------------------------- 129: [01:20:14] Test UFF multithreading 127: [01:20:14] Rep: 0 Mol:28 127: [01:20:14] Rep: 0 Mol:7 127: [01:20:14] Rep: 0 Mol:11 127: [01:20:14] [01:20:14] Rep: 0 Mol:15 127: [01:20:14] Rep: 0 Mol:14 127: Rep: 0 Mol:21 127: [01:20:14] Rep: 0 Mol:19 129: generating reference data 127: [01:20:14] Rep: 0 Mol:23 127: [01:20:14] Rep: 0 Mol:27 127: [01:20:14] Rep: 0 Mol:25 127: [01:20:14] Rep: 0 Mol:31 127: [01:20:14] Rep: 0 Mol:18 127: [01:20:14] Rep: 0 Mol:29 127: [01:20:14] Rep: 0 Mol:22 127: [01:20:14] Rep: 0 Mol:26 127: [01:20:14] Rep: 0 Mol:30 127: [01:20:14] Rep: 20 Mol:0 127: [01:20:14] Rep: 20 Mol:4 127: [01:20:14] Rep: 20 Mol:8 127: [01:20:14] Rep: 20 Mol:12 127: [01:20:14] Rep: 20 Mol:16 127: [01:20:14] Rep: 20 Mol:20 127: [01:20:14] Rep: 20 Mol:24 127: [01:20:14] Rep: 20 Mol:28 127: [01:20:14] Rep: 20 Mol:3 127: [01:20:14] Rep: 20 Mol:7 127: [01:20:14] Rep: 20 Mol:11 127: [01:20:14] Rep: 20 Mol:15 127: [01:20:14] Rep: 20 Mol:19 127: [01:20:14] Rep: 20 Mol:23 127: [01:20:14] Rep: 20 Mol:27 127: [01:20:14] Rep: 20 Mol:31 127: [01:20:15] Rep: 20 Mol:1 127: [01:20:15] Rep: 20 Mol:5 127: [01:20:15] Rep: 20 Mol:9 127: [01:20:15] Rep: 20 Mol:13 127: [01:20:15] Rep: 20 Mol:17 127: [01:20:15] Rep: 20 Mol:21 127: [01:20:15] Rep: 20 Mol:25 127: [01:20:15] Rep: 20 Mol:29 127: [01:20:15] Rep: 20 Mol:2 127: [01:20:15] Rep: 20 Mol:6 127: [01:20:15] Rep: 20 Mol:10 127: [01:20:15] Rep: 20 Mol:14 127: [01:20:15] Rep: 20 Mol:18 127: [01:20:15] Rep: 20 Mol:22 127: [01:20:15] Rep: 20 Mol:26 127: [01:20:15] Rep: 20 Mol:30 127: [01:20:15] Rep: 40 Mol:3 127: [01:20:15] Rep: 40 Mol:7 127: [01:20:15] Rep: 40 Mol:11 127: [01:20:15] Rep: 40 Mol:15 127: [01:20:15] Rep: 40 Mol:19 127: [01:20:15] Rep: 40 Mol:23 127: [01:20:15] Rep: 40 Mol:27 127: [01:20:15] Rep: 40 Mol:31 127: [01:20:15] Rep: 40 Mol:0 127: [01:20:15] Rep: 40 Mol:4 127: [01:20:15] Rep: 40 Mol:8 127: [01:20:15] Rep: 40 Mol:12 127: [01:20:15] Rep: 40 Mol:16 127: [01:20:15] Rep: 40 Mol:20 127: [01:20:15] Rep: 40 Mol:24 127: [01:20:15] Rep: 40 Mol:28 129: processing 129: launch :0 129: launch :1 129: launch :2 129: launch :3 129: [01:20:15] Rep: 0 Mol:3 129: [01:20:15] Rep: 0 Mol:2 129: [01:20:15] Rep: 0 Mol:1 129: [01:20:15] Rep: 0 Mol:5 129: [01:20:15] Rep: 0 Mol:0 127: [01:20:15] Rep: 40 Mol:1 127: [01:20:15] Rep: 40 Mol:5 127: [01:20:15] Rep: 40 Mol:9 127: [01:20:15] Rep: 40 Mol:13 129: [01:20:15] Rep: 0 Mol:9 127: [01:20:15] Rep: 40 Mol:17 127: [01:20:15] Rep: 40 Mol:21 127: [01:20:15] Rep: 40 Mol:25 129: [01:20:15] Rep: 0 Mol:4 127: [01:20:15] Rep: 40 Mol:29 129: [01:20:15] Rep: 0 Mol:7 129: [01:20:15] Rep: 0 Mol:11 129: [01:20:16] Rep: 0 Mol:15 129: [01:20:16] Rep: 0 Mol:13 129: [01:20:16] Rep: 0 Mol:19 129: [01:20:16] Rep: 0 Mol:23 129: [01:20:16] Rep: 0 Mol:27 129: [01:20:16] [01:20:16] Rep: 0 Mol:6 129: Rep: 0 Mol:17 129: [01:20:16] Rep: 0 Mol:10 127: [01:20:16] Rep: 60 Mol:3 129: [01:20:16] Rep: 0 Mol:31 127: [01:20:16] Rep: 60 Mol:7 127: [01:20:16] Rep: 60 Mol:11 127: [01:20:16] Rep: 60 Mol:15 127: [01:20:16] Rep: 60 Mol:19 127: [01:20:16] Rep: 60 Mol:23 127: [01:20:16] Rep: 60 Mol:27 127: [01:20:16] Rep: 60 Mol:31 129: [01:20:16] Rep: 0 Mol:8 129: [01:20:16] Rep: 0 Mol:12 129: [01:20:16] Rep: 0 Mol:16 129: [01:20:16] Rep: 0 Mol:21 129: [01:20:16] Rep: 0 Mol:20 129: [01:20:16] [01:20:16] Rep: 0 Mol:25 129: Rep: 0 Mol:14 129: [01:20:16] Rep: 0 Mol:24 129: [01:20:16] Rep: 0 Mol:18 129: [01:20:16] Rep: 0 Mol:29 129: [01:20:16] Rep: 0 Mol:28 127: [01:20:16] Rep: 60 Mol:0 129: [01:20:16] Rep: 0 Mol:22 127: [01:20:16] Rep: 60 Mol:4 127: [01:20:16] Rep: 60 Mol:8 127: [01:20:16] Rep: 60 Mol:12 127: [01:20:16] Rep: 60 Mol:16 129: [01:20:16] Rep: 0 Mol:26 127: [01:20:16] Rep: 60 Mol:20 127: [01:20:16] Rep: 60 Mol:24 127: [01:20:16] Rep: 60 Mol:28 127: [01:20:16] Rep: 40 Mol:2 127: [01:20:16] Rep: 40 Mol:6 127: [01:20:16] Rep: 40 Mol:10 127: [01:20:16] Rep: 40 Mol:14 127: [01:20:16] Rep: 40 Mol:18 127: [01:20:16] Rep: 40 Mol:22 129: [01:20:16] Rep: 0 Mol:30 127: [01:20:16] Rep: 40 Mol:26 127: [01:20:16] Rep: 40 Mol:30 127: [01:20:16] Rep: 80 Mol:3 127: [01:20:16] Rep: 80 Mol:7 127: [01:20:16] Rep: 80 Mol:11 127: [01:20:16] Rep: 80 Mol:15 127: [01:20:16] Rep: 80 Mol:19 127: [01:20:16] Rep: 80 Mol:23 127: [01:20:16] Rep: 80 Mol:27 127: [01:20:16] Rep: 80 Mol:31 127: [01:20:16] Rep: 60 Mol:1 127: [01:20:16] Rep: 60 Mol:5 127: [01:20:16] Rep: 60 Mol:9 127: [01:20:16] Rep: 60 Mol:13 127: [01:20:16] Rep: 60 Mol:17 127: [01:20:16] Rep: 60 Mol:21 127: [01:20:16] Rep: 60 Mol:25 127: [01:20:16] Rep: 60 Mol:29 127: [01:20:17] Rep: 80 Mol:0 127: [01:20:17] Rep: 80 Mol:4 127: [01:20:17] Rep: 80 Mol:8 127: [01:20:17] Rep: 80 Mol:12 127: [01:20:17] Rep: 80 Mol:16 127: [01:20:17] Rep: 80 Mol:20 127: [01:20:17] Rep: 80 Mol:24 127: [01:20:17] Rep: 80 Mol:28 127: [01:20:17] Rep: 60 Mol:2 127: [01:20:17] Rep: 60 Mol:6 127: [01:20:17] Rep: 60 Mol:10 127: [01:20:17] Rep: 60 Mol:14 127: [01:20:17] Rep: 60 Mol:18 127: [01:20:17] Rep: 60 Mol:22 127: [01:20:17] Rep: 60 Mol:26 127: [01:20:17] Rep: 60 Mol:30 127: [01:20:17] Rep: 80 Mol:1 127: [01:20:17] Rep: 80 Mol:5 127: [01:20:17] Rep: 80 Mol:9 127: [01:20:17] Rep: 80 Mol:13 127: [01:20:17] Rep: 80 Mol:17 127: [01:20:17] Rep: 80 Mol:21 127: [01:20:17] Rep: 80 Mol:25 127: [01:20:17] Rep: 80 Mol:29 129: [01:20:18] Rep: 100 Mol:3 129: [01:20:18] Rep: 100 Mol:7 129: [01:20:18] Rep: 100 Mol:11 129: [01:20:18] Rep: 100 Mol:15 129: [01:20:18] Rep: 100 Mol:19 129: [01:20:18] Rep: 100 Mol:23 129: [01:20:18] Rep: 100 Mol:27 129: [01:20:18] Rep: 100 Mol:31 127: [01:20:18] Rep: 80 Mol:2 127: [01:20:18] Rep: 80 Mol:6 127: [01:20:18] Rep: 80 Mol:10 127: [01:20:18] Rep: 80 Mol:14 127: [01:20:18] Rep: 80 Mol:18 127: [01:20:18] Rep: 80 Mol:22 127: [01:20:18] Rep: 80 Mol:26 127: [01:20:18] Rep: 80 Mol:30 129: [01:20:18] Rep: 100 Mol:1 129: [01:20:18] Rep: 100 Mol:5 129: [01:20:18] Rep: 100 Mol:9 129: [01:20:18] Rep: 100 Mol:13 129: [01:20:18] Rep: 100 Mol:17 129: [01:20:18] Rep: 100 Mol:21 129: [01:20:18] Rep: 100 Mol:25 129: [01:20:18] Rep: 100 Mol:29 129: [01:20:18] Rep: 100 Mol:0 129: [01:20:18] Rep: 100 Mol:4 129: [01:20:18] Rep: 100 Mol:8 129: [01:20:18] Rep: 100 Mol:12 129: [01:20:18] Rep: 100 Mol:16 129: [01:20:18] Rep: 100 Mol:20 129: [01:20:18] Rep: 100 Mol:24 129: [01:20:18] Rep: 100 Mol:28 127: [01:20:18] done 127: [01:20:18] ------------------------------------- 127: [01:20:18] Test MMFF multithreading2 129: [01:20:19] Rep: 100 Mol:2 129: [01:20:19] Rep: 100 Mol:6 129: [01:20:19] Rep: 100 Mol:10 129: [01:20:19] Rep: 100 Mol:14 129: [01:20:19] Rep: 100 Mol:18 129: [01:20:19] Rep: 100 Mol:22 129: [01:20:19] Rep: 100 Mol:26 129: [01:20:19] Rep: 100 Mol:30 129: [01:20:21] done 129: [01:20:21] ------------------------------------- 129: [01:20:21] Test UFF multithreading2 116: [01:20:22] done 116: [01:20:22] ------------------------------------- 116: [01:20:22] Test GitHub Issue 258: Bad pattern fingerprint for query molecule 116: [01:20:22] done 116: [01:20:22] ------------------------------------- 116: [01:20:22] Test GitHub Issue 334: explicit Hs in SMILES modifies atom pair (and topological torsion) FP. 116: [01:20:22] done 116: [01:20:22] ------------------------------------- 116: [01:20:22] Test GitHub Issue 695: Include cis/trans stereochemistry when useChirality=true with the morgan fingerprints 116: [01:20:22] done 116: [01:20:22] ------------------------------------- 116: [01:20:22] Test GitHub Issue 811: rooted atom fingerprint non identical for the same molecules #811 116: [01:20:22] done 116: [01:20:22] ------------------------------------- 116: [01:20:22] Test unfolded version of RDKFP 116: [01:20:22] ------------------------------------- 116: [01:20:22] Test bitinfo of RDKFP 116: 562: [ 2 ], 116: 709: [ 0 1 ], 116: 1118: [ 0 1 2 ], 116: 1183: [ 1 2 ], 116: 1233: [ 0 1 2 ], 116: 1308: [ 0 ], [ 1 ], 116: 1339: [ 2 ], 116: 1728: [ 1 2 ], 116: 1772: [ 0 ], [ 1 ], 116: 1813: [ 0 1 ], 116: ------------ 116: [01:20:22] ------------------------------------- 116: [01:20:22] Single atoms setting radius 1 bits in Morgan fingerprints 116: [01:20:22] done 116: [01:20:22] ------------------------------------- 116: [01:20:22] Github #879: Pattern fingerprint should set bits for single-atom fragments. 116: [01:20:22] done 116: [01:20:22] ------------------------------------- 116: [01:20:22] Github #1496: Pattern fingerprint setting bad bits for degree zero atoms 116: [01:20:22] done 116: [01:20:22] ------------------------------------- 116: [01:20:22] Github #1793: Fingerprint segfaults with branchedPaths=False and useHs=False 116: [01:20:22] done 116: [01:20:22] ------------------------------------- 116: [01:20:22] Github #1993: fingerprinters that use R/S labels should force a call to assignStereochemistry() if it hasn't already been called 116: [01:20:22] done 116: [01:20:22] ------------------------------------- 116: [01:20:22] Github #2115: BitInfo not complete for RDKFingerprint 116: [01:20:22] done 116: [01:20:22] ------------------------------------- 116: [01:20:22] Github #3723: Fingerprint crash for mols with Zero order bonds 116: [01:20:22] done 126/222 Test #116: testFingerprints ....................... Passed 16.07 sec test 130 Start 130: testCrystalForceField 130: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/CrystalFF/testCrystalForceField 130: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/CrystalFF 130: Test timeout computed to be: 1500 130: ------------------------------------- 130: Test CrystalFF torsional term. 127/222 Test #130: testCrystalForceField .................. Passed 0.50 sec test 131 Start 131: pyForceFieldHelpers 131: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/ForceFieldHelpers/Wrap/testHelpers.py" 131: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/Wrap 131: Test timeout computed to be: 1500 127: [01:20:24] done 127: [01:20:24] ------------------------------------- 127: [01:20:24] Test MMFF multithreading3 128/222 Test #131: pyForceFieldHelpers ....................***Exception: SegFault 1.43 sec test 132 Start 132: testDistGeomHelpers 132: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers/testDistGeomHelpers 132: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers 132: Test timeout computed to be: 1500 132: go 132: ------------------------------------- 132: 129: [01:20:26] done 129: [01:20:26] ------------------------------------- 129: [01:20:26] Test UFF multithreading3 127: [01:20:28] done 127: [01:20:28] ------------------------------------- 127: [01:20:28] Testing github 162: Incorrect SMILES after MMFF parameterization . 127: [01:20:28] done 127: [01:20:28] ------------------------------------- 127: [01:20:28] Testing github 224: crash during MMFF parameterization . 127: [01:20:28] done 127: [01:20:28] ------------------------------------- 127: [01:20:28] Testing github6728: crash due to missing stretch-bend params. 129/222 Test #127: testMMFFForceFieldHelpers .............. Passed 17.41 sec test 133 Start 133: distGeomHelpersCatch 133: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers/distGeomHelpersCatch 133: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers 133: Test timeout computed to be: 1500 133: Randomness seeded to: 3862764617 133: [01:20:28] [C:1][NH:2]!@;-[C:3](=[NH2:4])[NH2]: 100 101 102 104, [(1 0), (-1 100), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [NH2][C:1](=[NH2])[NH:2]!@;-[CH2:3][C:4]: 102 101 100 99, [(1 0), (1 0), (1 2.5), (1 0), (1 0), (1 0)] 133: [01:20:28] [OX2:1][CX4:2]!@;-[CX4:3][N:4]: 32 31 30 33, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 133: [01:20:28] [OX2:1][CX4:2]!@;-[CX4:3][N:4]: 48 46 45 49, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 133: [01:20:28] [!#1:1][CX4H2:2]!@;-[CX4H2:3][!#1:4]: 36 37 38 39, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 133: [01:20:28] [!#1:1][CX4H2:2]!@;-[CX4H2:3][!#1:4]: 37 38 39 40, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 133: [01:20:28] [!#1:1][CX4H2:2]!@;-[CX4H2:3][!#1:4]: 38 39 40 41, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 133: [01:20:28] [!#1:1][CX4H2:2]!@;-[CX4H2:3][!#1:4]: 97 98 99 100, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 133: [01:20:28] [!#1:1][CX4H2:2]!@;-[CX4H2:3][!#1:4]: 98 99 100 101, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 133: [01:20:28] [!#1:1][CX4:2]!@;-[CX4:3][!#1:4]: 0 1 2 3, [(1 0), (1 0), (1 7), (1 0), (1 0), (1 0)] 133: [01:20:28] [!#1:1][CX4:2]!@;-[CX4:3][!#1:4]: 1 2 4 5, [(1 0), (1 0), (1 7), (1 0), (1 0), (1 0)] 133: [01:20:28] [!#1:1][CX4:2]!@;-[CX4:3][!#1:4]: 20 22 23 24, [(1 0), (1 0), (1 7), (1 0), (1 0), (1 0)] 133: [01:20:28] [!#1:1][CX4:2]!@;-[CX4:3][!#1:4]: 22 23 25 26, [(1 0), (1 0), (1 7), (1 0), (1 0), (1 0)] 133: [01:20:28] [!#1:1][CX4:2]!@;-[CX4:3][!#1:4]: 34 36 37 38, [(1 0), (1 0), (1 7), (1 0), (1 0), (1 0)] 133: [01:20:28] [!#1:1][CX4:2]!@;-[CX4:3][!#1:4]: 66 67 68 69, [(1 0), (1 0), (1 7), (1 0), (1 0), (1 0)] 133: [01:20:28] [!#1:1][CX4:2]!@;-[CX4:3][!#1:4]: 84 85 86 87, [(1 0), (1 0), (1 7), (1 0), (1 0), (1 0)] 133: [01:20:28] [!#1:1][CX4:2]!@;-[CX4:3][!#1:4]: 96 97 98 99, [(1 0), (1 0), (1 7), (1 0), (1 0), (1 0)] 133: [01:20:28] [C:1][CX4H2:2]!@;-[CX3:3]=[O:4]: 85 86 87 88, [(1 -1), (1 -0.5), (1 -0.2), (1 -0.3), (1 0), (1 -0.3)] 133: [01:20:28] [cH1:1][c:2]([cH1])!@;-[CX4H2:3][CX4:4]: 70 69 68 67, [(1 0), (1 3.6), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [*:1][X3,X2:2]=[X3,X2:3][*:4]: 101 102 104 220, [(1 0), (-1 100), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [C:1][C;r{9-}:2](=O)@;-[NX3H0;r:3][CX4H1:4]: 15 13 12 8, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [C:1][C;r{9-}:2](=O)@;-[NX3H0;r:3][CX4H1:4]: 22 20 19 15, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [C:1][C;r{9-}:2](=O)@;-[NX3H0;r:3][CX4H1:4]: 67 75 77 81, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 4 62 61 60, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 8 6 5 4, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 30 28 27 22, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 36 34 33 30, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 45 43 42 36, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 81 82 84 85, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 93 94 96 97, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 97 105 107 52, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [$([CX3]=O):1][NX3H1;r{9-}:2]@;-[CX4H2;r{9-}:3][C:4]: 90 92 93 94, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 133: [01:20:28] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 6 5 4 117, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 28 27 22 133, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 34 33 30 144, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 43 42 36 149, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 62 61 60 181, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 82 84 85 202, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 94 96 97 210, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 105 107 52 171, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [O:1]=[CX3;r{9-}:2]@;-[NX3H1;r{9-}:3][!#1:4]: 91 90 92 93, [(-1 100), (1 0), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [C:1][CX4;r{9-}:2]@;-[NX3;r{9-}:3][C:4]: 43 45 49 50, [(1 0), (1 0), (1 1), (1 0), (1 0), (1 0)] 133: [01:20:28] [C:1][CX4;r{9-}:2]@;-[NX3;r{9-}:3][C:4]: 52 50 49 45, [(1 0), (1 0), (1 1), (1 0), (1 0), (1 0)] 133: [01:20:28] [C:1][CX4;r{9-}:2]@;-[NX3;r{9-}:3][C:4]: 60 64 66 67, [(1 0), (1 0), (1 1), (1 0), (1 0), (1 0)] 133: [01:20:28] [C:1][CX4;r{9-}:2]@;-[NX3;r{9-}:3][C:4]: 68 67 66 64, [(1 0), (1 0), (1 1), (1 0), (1 0), (1 0)] 133: [01:20:28] N[C;r{9-}:2](=[O:1])@;-[CH2;r{9-}:3][N:4]: 95 94 93 92, [(1 0), (-1 10), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [OX2:1][CX4;r{9-}:2]@;-[CX4;r{9-}:3][N:4]: 51 50 52 107, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 133: [01:20:28] [OX2:1][CX4;r{9-}:2]@;-[CX4;r{9-}:3][N:4]: 65 64 60 61, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 133: [01:20:28] [!#1:1][CX4&r;r{9-}:2]@;-[CX4&r;r{9-}:3][!#1:4]: 50 52 53 54, [(1 0), (1 0), (1 2), (1 0), (1 0), (1 0)] 133: [01:20:28] [!#1:1][CX4&r;r{9-}:2]@;-[CX4&r;r{9-}:3][!#1:4]: 58 59 60 61, [(1 0), (1 0), (1 2), (1 0), (1 0), (1 0)] 133: [01:20:28] [NH1:1][CX4;r{9-}:2]@;-[CX3;r{9-}:3]=[O:4]: 5 4 62 63, [(1 0), (-1 3), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [NH1:1][CX4;r{9-}:2]@;-[CX3;r{9-}:3]=[O:4]: 27 22 20 21, [(1 0), (-1 3), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [NH1:1][CX4;r{9-}:2]@;-[CX3;r{9-}:3]=[O:4]: 33 30 28 29, [(1 0), (-1 3), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [NH1:1][CX4;r{9-}:2]@;-[CX3;r{9-}:3]=[O:4]: 42 36 34 35, [(1 0), (-1 3), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [NH1:1][CX4;r{9-}:2]@;-[CX3;r{9-}:3]=[O:4]: 49 45 43 44, [(1 0), (-1 3), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [NH1:1][CX4;r{9-}:2]@;-[CX3;r{9-}:3]=[O:4]: 66 67 75 76, [(1 0), (-1 3), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [NH1:1][CX4;r{9-}:2]@;-[CX3;r{9-}:3]=[O:4]: 84 85 90 91, [(1 0), (-1 3), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [NH1:1][CX4;r{9-}:2]@;-[CX3;r{9-}:3]=[O:4]: 96 97 105 106, [(1 0), (-1 3), (1 0), (1 0), (1 0), (1 0)] 133: ----------- 133: [01:20:28] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 2 1 10 9, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 14 12 11 9, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [$([CX3]=O):1][NX3H1;r{9-}:2]@;-[CX4H2;r{9-}:3][C:4]: 4 3 2 1, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 133: [01:20:28] [$([CX3]=O):1][NX3H1;r{9-}:2]@;-[CX4H2;r{9-}:3][C:4]: 16 15 14 12, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 133: [01:20:28] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 1 10 9 26, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 12 11 9 26, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [O:1]=[CX3;r{9-}:2]@;-[NX3H1;r{9-}:3][!#1:4]: 5 4 3 2, [(-1 100), (1 0), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [O:1]=[CX3;r{9-}:2]@;-[NX3H1;r{9-}:3][!#1:4]: 17 16 15 14, [(-1 100), (1 0), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] N[C;r{9-}:2](=[O:1])@;-[CH2;r{9-}:3][N:4]: 0 1 2 3, [(1 0), (-1 10), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] N[C;r{9-}:2](=[O:1])@;-[CH2;r{9-}:3][N:4]: 13 12 14 15, [(1 0), (-1 10), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [!#1:1][CX4&r;r{9-}:2]@;-[CX4&r;r{9-}:3][!#1:4]: 4 6 7 8, [(1 0), (1 0), (1 2), (1 0), (1 0), (1 0)] 133: [01:20:28] [!#1:1][CX4&r;r{9-}:2]@;-[CX4&r;r{9-}:3][!#1:4]: 6 7 8 9, [(1 0), (1 0), (1 2), (1 0), (1 0), (1 0)] 133: [01:20:28] [!#1:1][CX4&r;r{9-}:2]@;-[CX4&r;r{9-}:3][!#1:4]: 7 8 9 10, [(1 0), (1 0), (1 2), (1 0), (1 0), (1 0)] 133: [01:20:28] [C:1][CX4;r{9-}:2]@;-[CX3;r{9-}:3]=[O:4]: 4 6 16 17, [(1 0), (1 0), (-1 1), (1 0), (1 0), (1 0)] 133: [01:20:28] [C:1][CX4;r{9-}:2]@;-[CX3;r{9-}:3]=[O:4]: 7 6 4 5, [(1 0), (1 0), (-1 1), (1 0), (1 0), (1 0)] 133: ----------- 133: [01:20:28] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 13 14 16 3, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [$([CX3]=O):1][NX3H1;r{9-}:2]@;-[CX4H2;r{9-}:3][C:4]: 10 12 13 14, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 133: [01:20:28] [O:1]=[CX3;r{9-}:2]@;-[NX3H1;r{9-}:3][!#1:4]: 11 10 12 13, [(-1 100), (1 0), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] N[C;r{9-}:2](=[O:1])@;-[CH2;r{9-}:3][N:4]: 15 14 13 12, [(1 0), (-1 10), (1 0), (1 0), (1 0), (1 0)] 133: ----------- 133: ----------- 133: [01:20:28] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 2 1 15 14, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 2 3 5 6, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 10 8 7 6, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 10 11 13 14, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 19 17 16 14, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 19 20 22 6, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 1 15 14 31, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 3 5 6 26, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 8 7 6 26, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 11 13 14 31, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 17 16 14 31, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 20 22 6 26, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 133: [01:20:28] [O:1]=[CX3;r{9-}:2]([NH1])@;-[CH2;r{9-}:3][CX3:4]=O: 0 1 2 3, [(1 0), (1 0), (1 2), (1 0), (1 0), (1 0)] 133: [01:20:28] [O:1]=[CX3;r{9-}:2]([NH1])@;-[CH2;r{9-}:3][CX3:4]=O: 4 3 2 1, [(1 0), (1 0), (1 2), (1 0), (1 0), (1 0)] 133: [01:20:28] [O:1]=[CX3;r{9-}:2]([NH1])@;-[CH2;r{9-}:3][CX3:4]=O: 9 8 10 11, [(1 0), (1 0), (1 2), (1 0), (1 0), (1 0)] 133: [01:20:28] [O:1]=[CX3;r{9-}:2]([NH1])@;-[CH2;r{9-}:3][CX3:4]=O: 12 11 10 8, [(1 0), (1 0), (1 2), (1 0), (1 0), (1 0)] 133: [01:20:28] [O:1]=[CX3;r{9-}:2]([NH1])@;-[CH2;r{9-}:3][CX3:4]=O: 18 17 19 20, [(1 0), (1 0), (1 2), (1 0), (1 0), (1 0)] 133: [01:20:28] [O:1]=[CX3;r{9-}:2]([NH1])@;-[CH2;r{9-}:3][CX3:4]=O: 21 20 19 17, [(1 0), (1 0), (1 2), (1 0), (1 0), (1 0)] 133: [01:20:29] UFFTYPER: Unrecognized atom type: Pt5+2 (1) 133: [01:20:29] UFFTYPER: Unrecognized atom type: N_5 (2) 133: [01:20:29] UFFTYPER: Unrecognized atom type: N_5 (3) 133: [01:20:29] UFFTYPER: Unrecognized atom type: N_5 (2) 133: [01:20:29] UFFTYPER: Unrecognized atom type: N_5 (3) 133: [01:20:29] UFFTYPER: Unrecognized charge state for atom: 1 133: [01:20:29] UFFTYPER: Unrecognized charge state for atom: 1 133: [01:20:29] UFFTYPER: Unrecognized charge state for atom: 1 133: [01:20:30] UFFTYPER: Unrecognized charge state for atom: 5 133: [01:20:30] UFFTYPER: Unrecognized charge state for atom: 5 133: [01:20:30] UFFTYPER: Unrecognized charge state for atom: 5 133: [01:20:30] UFFTYPER: Unrecognized charge state for atom: 6 133: [01:20:30] UFFTYPER: Unrecognized charge state for atom: 6 133: [01:20:30] UFFTYPER: Unrecognized charge state for atom: 6 129: [01:20:31] done 129: [01:20:31] ------------------------------------- 129: [01:20:31] Testing GitHubIssue62. 129: [01:20:31] beta-lactam 39.6387 129: [01:20:31] cyclopropanone 174.698 129: [01:20:31] aziridine 337.986 129: [01:20:31] aziridinone 115.248 129: [01:20:31] isobutene 2.48217 129: [01:20:31] acetone 1.91788 129: [01:20:31] cyclopentanone 10.1648 129: [01:20:31] cyclopropene 99.4921 129: [01:20:31] cyclobutene 41.0156 129: [01:20:31] cyclopropane 267.236 129: [01:20:31] gamma-lactam 15.7471 129: [01:20:31] trans-2,3-diphenylcyclopropan-1-one 203.398 129: [01:20:31] cis-2,3-diphenylcyclopropan-1-one 206.852 129: [01:20:31] 2,3-diphenylcyclopropa-2-en-1-one 20.0443 129: [01:20:31] cyclopropylidencyclobutane 218.879 129: [01:20:31] diphenylmethylidencyclobutane 79.6139 129: [01:20:31] done 129: [01:20:31] ------------------------------------- 129: [01:20:31] Test Github Issue 613: UFF Atom type not properly assigned to lanthanides. 129: [01:20:31] done 129: [01:20:31] ------------------------------------- 129: [01:20:31] Test square planar complexes 129: [01:20:31] done 129: [01:20:31] ------------------------------------- 129: [01:20:31] Test octahedral complexes 129: [01:20:31] done 130/222 Test #129: testUFFForceFieldHelpers ............... Passed 18.17 sec test 134 Start 134: pyDistGeomHelpers 134: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/DistGeomHelpers/Wrap/testDistGeom.py" 134: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers/Wrap 134: Test timeout computed to be: 1500 132: building molecules 132: generating reference data 131/222 Test #134: pyDistGeomHelpers ......................***Exception: SegFault 1.24 sec test 135 Start 135: testMolAlign 135: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign/testMolAlign 135: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign 135: Test timeout computed to be: 1500 133: [01:20:32] UFFTYPER: Warning: hybridization set to SP3 for atom 6 135: *********************************************************** 135: Testing MolAlign 135: --------------------------------- 135: test1MolAlign 135: 135: --------------------------------- 135: test1GetBestRMS 135: 135: --------------------------------- 135: test1MolWithQueryAlign 135: 135: --------------------------------- 135: test2AtomMap 135: 135: --------------------------------- 135: test3Weights 135: 135: --------------------------------- 135: testIssue241 135: 135: *********************************************************** 132/222 Test #135: testMolAlign ........................... Passed 0.27 sec test 136 Start 136: testO3AAlign 136: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign/testO3AAlign 136: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign 136: Test timeout computed to be: 1500 133: [01:20:33] UFFTYPER: Warning: hybridization set to SP3 for atom 6 133: [01:20:33] UFFTYPER: Warning: hybridization set to SP3 for atom 6 133: [01:20:33] UFFTYPER: Warning: hybridization set to SP3 for atom 11 133: [01:20:33] UFFTYPER: Warning: hybridization set to SP3 for atom 11 133: [01:20:33] UFFTYPER: Warning: hybridization set to SP3 for atom 11 132: validating reference data 136: *********************************************************** 136: Testing O3AAlign 136: --------------------------------- 136: testMMFFO3A 136: 136: --------------------------------- 136: testMMFFO3A with pre-computed dmat and MolHistogram 136: 136: --------------------------------- 136: testMMFFO3A with constraints 136: 136: --------------------------------- 136: testMMFFO3A with variable weight constraints followed by local-only optimization 136: 136: --------------------------------- 136: testCrippenO3A 136: 136: --------------------------------- 136: testCrippenO3A with pre-computed dmat and MolHistogram 136: 136: --------------------------------- 136: testCrippenO3A with constraints 136: 136: --------------------------------- 136: testCrippenO3A with variable weight constraints followed by local-only optimization 136: 136: --------------------------------- 136: testMMFFO3A multithreading 136: 136: generating reference data 132: processing 132: launch :0 132: launch :1 132: launch :2 132: launch :3 136: processing 136: launch :0 136: launch :1 136: launch :2 136: launch :3 136: --------------------------------- 136: test O3A multithreading bug 136: 136: --------------------------------- 136: testCrippenO3A multithreading 136: 136: generating reference data 5: [01:21:45] Finished: testMultipleTimes() 5: [01:21:45] 5: ----------------------------------------- 133/222 Test #5: testConcurrentQueue .................... Passed 180.10 sec test 137 Start 137: molAlignCatchTest 137: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign/molAlignCatchTest 137: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign 137: Test timeout computed to be: 1500 137: Randomness seeded to: 4218667685 137: 377257820 137: 244334702 136: processing 136: launch :0 136: launch :1 136: launch :2 136: launch :3 137: 6473788247 137: 2071861940 137: =============================================================================== 137: All tests passed (73 assertions in 3 test cases) 137: 134/222 Test #137: molAlignCatchTest ...................... Passed 9.74 sec test 138 Start 138: pyMolAlign 138: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/MolAlign/Wrap/testMolAlign.py" 138: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign/Wrap 138: Test timeout computed to be: 1500 135/222 Test #138: pyMolAlign .............................***Exception: SegFault 1.67 sec test 139 Start 139: testFeatures 139: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures/testFeatures 139: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures 139: Test timeout computed to be: 1500 139: [01:21:56] ------------------------------------- 139: [01:21:56] AtomType parser testing. 139: [01:21:56] SMARTS Parse Error: syntax error while parsing: [$([!$([NH0])_100;N,O,$([S])_101,$([N,O)_102])_103] 139: [01:21:56] SMARTS Parse Error: Failed parsing SMARTS '[$([!$([NH0])_100;N,O,$([S])_101,$([N,O)_102])_103]' for input: '[$([!$([NH0]);N,O,$([S]),$([N,O)])]' 139: [01:21:56] done 139: [01:21:56] ------------------------------------- 139: [01:21:56] FeatureDefinition parser testing. 139: [01:21:56] done 139: [01:21:56] ------------------------------------- 139: [01:21:56] Test pulling feat defs from a string. 139: [01:21:56] done 139: [01:21:56] ------------------------------------- 139: [01:21:56] FeatureDef functionality testing. 139: [01:21:56] done 139: [01:21:56] ------------------------------------- 139: [01:21:56] FeatureFactory testing. 139: [01:21:56] 1 139: [01:21:56] 2 139: [01:21:56] 3 139: [01:21:56] 4 139: [01:21:56] 5 139: [01:21:56] 6 139: [01:21:56] done 139: [01:21:56] ------------------------------------- 139: [01:21:56] Feature Location testing. 139: [01:21:56] done 139: [01:21:56] ------------------------------------- 139: [01:21:56] Test building a FeatureFactory from a file 139: [01:21:56] done 139: [01:21:56] ------------------------------------- 139: [01:21:56] Testing Issue 224. 139: [01:21:56] done 139: [01:21:56] ------------------------------------- 139: [01:21:56] Testing Issue 225. 139: [01:21:56] done 139: [01:21:56] ------------------------------------- 139: [01:21:56] Test Issue346 139: [01:21:56] done 139: [01:21:56] ------------------------------------- 139: [01:21:56] Test Issue347 139: [01:21:56] done 139: [01:21:56] ------------------------------------- 139: [01:21:56] Testing Issue 348. 139: [01:21:56] SMARTS Parse Error: syntax error while parsing: [C[C] 139: [01:21:56] SMARTS Parse Error: Failed parsing SMARTS '[C[C]' for input: '[C[C]' 139: [01:21:56] ------------------------------------- 139: [01:21:56] Testing Nested AtomType definitions. 139: [$([$([$([C;!$(C=[O,N,P,S]);!$(C#N)]),c]);R])] 139: [01:21:56] ------------------------------------- 139: [01:21:56] Testing Github Issue #252: crash when calling getPos() with no conformer. 139: [01:21:56] expect a precondition failure message below 139: [01:21:56] 139: 139: **** 139: Pre-condition Violation 139: molecule has no conformers 139: Violation occurred on line 37 in file ./Code/GraphMol/MolChemicalFeatures/MolChemicalFeature.cpp 139: Failed Expression: dp_mol->getNumConformers() 139: **** 139: 139: [01:21:56] Done 139: [01:21:56] ------------------------------------- 139: [01:21:56] Testing github 2077: add confId argument to MolChemicalFeatureFactor::getFeaturesForMol() 139: [01:21:56] done 136/222 Test #139: testFeatures ........................... Passed 0.12 sec test 140 Start 140: pyChemicalFeatures 140: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/MolChemicalFeatures/Wrap/testChemicalFeatures.py" 140: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures/Wrap 140: Test timeout computed to be: 1500 137/222 Test #140: pyChemicalFeatures .....................***Exception: SegFault 1.90 sec test 141 Start 141: testShapeHelpers 141: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ShapeHelpers/testShapeHelpers 141: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ShapeHelpers 141: Test timeout computed to be: 1500 141: *********************************************************** 141: Testing ShapeHelpers 141: --------------------------------- 141: test1Encode 141: 141: --------------------------------- 141: test2Compare 141: 141: --------------------------------- 141: testGithub4364 141: 141: *********************************************************** 138/222 Test #141: testShapeHelpers ....................... Passed 0.14 sec test 142 Start 142: pyShapeHelpers 142: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/ShapeHelpers/Wrap/testShapeHelpers.py" 142: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ShapeHelpers/Wrap 142: Test timeout computed to be: 1500 139/222 Test #142: pyShapeHelpers .........................***Exception: SegFault 1.61 sec test 143 Start 143: testMolCatalog 143: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolCatalog/testMolCatalog 143: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolCatalog 143: Test timeout computed to be: 1500 140/222 Test #143: testMolCatalog ......................... Passed 0.08 sec test 144 Start 144: pyMolCatalog 144: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/MolCatalog/Wrap/rough_test.py" 144: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolCatalog/Wrap 144: Test timeout computed to be: 1500 141/222 Test #144: pyMolCatalog ...........................***Exception: SegFault 1.41 sec test 145 Start 145: moldraw2DTest1 145: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D/moldraw2DTest1 145: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D 145: Test timeout computed to be: 1500 145: ----------------- Test 1 145: file test1_5.svg gave hash 2383324771U not the expected 2811480876U 145: Done 145: ----------------- Test 2 145: file test2_1.png gave hash 3662870653U not the expected 307437906U 145: file test2_2.png gave hash 3839236620U not the expected 610424244U 145: file test2_3.png gave hash 2294574389U not the expected 2179746375U 145: Done 145: ----------------- Test 4 145: file test4_1.png gave hash 1974149556U not the expected 1403972924U 145: Done 145: ----------------- Test 5 145: file test5_1.png gave hash 2006087519U not the expected 1269428339U 145: file test5_2.png gave hash 3967299996U not the expected 3073694291U 145: file test5_3.png gave hash 2767610192U not the expected 1865192682U 145: Done 145: ----------------- Test 6 (atom labels) 145: Done 145: ----------------- Test 7 (backgrounds) 145: file test7_1.png gave hash 1491852028U not the expected 3033050306U 145: file test7_2.png gave hash 1933207993U not the expected 3476380724U 145: Done 145: ----------------- Test8: PrepareMolDrawing 145: Done 145: ----------------- Test multi-threaded drawing 145: reading molecules 145: generating reference drawings 145: processing 145: launch :0 145: launch :1 145: launch :2 145: launch :3 145: Done 145: ----------------- Test Github #781: Rendering single-atom molecules 145: Done 145: ----------------- Test 3 145: file test3_1.png gave hash 3995200969U not the expected 3984824963U 145: file test3_2.png gave hash 1726535510U not the expected 238321316U 145: file test3_3.png gave hash 1289881546U not the expected 414888185U 145: file test3_4.png gave hash 3140382753U not the expected 2265825690U 145: file test3_5.png gave hash 3099888250U not the expected 1911551403U 145: file test3_6.png gave hash 2620932115U not the expected 577293879U 145: file test3_7.png gave hash 807230453U not the expected 248355372U 145: Done 145: ----------------- Test Github774: upside-down drawings 145: file test774_1.png gave hash 3121030024U not the expected 927423591U 145: file test774_2.png gave hash 2368659339U not the expected 1171827286U 145: Done 145: ----------------- Test 9 (molecule legends) 145: file test9_1.svg gave hash 923579170U not the expected 1484349178U 145: Done 145: ----------------- Test Github852: Lines used to wedge bonds are too thick 145: file test852_1.png gave hash 2345477955U not the expected 736085072U 145: file test852_2.png gave hash 2980031162U not the expected 1438089260U 145: ---------------- 145: ---------------- 145: ---------------- 145: ---------------- 145: Done 145: ----------------- Test Github860: Atom symbols in wrong order if bond comes from right 145: file test860_1.png gave hash 988661147U not the expected 2065140854U 145: file test860_2.png gave hash 1783539966U not the expected 3098360765U 145: file test860_3.png gave hash 55970806U not the expected 3439618110U 145: Done 145: ----------------- Test Github #910: ugly coordinates generated for peptide chains 145: Done 145: ----------------- Test Github #932: mistake in SVG for wedged bonds 145: Done 145: ----------------- Test Github #953: default color should not be cyan 145: Done 145: ----------------- Test Github #983: wedged bonds between chiral centers drawn improperly 145: Done 145: ----------------- Test Deuterium, Tritium 145: Done 145: ----------------- Test crossed bonds 145: Done 145: ----------------- Testing drawing a second molecule 145: file test10_5.svg gave hash 1068653509U not the expected 1334786394U 145: file test10_6.svg gave hash 2996130233U not the expected 961103536U 145: Done 145: ----------------- Testing drawing a grid of molecules 145: Done 145: ----------------- Testing drawMolecules 145: file test12_1.svg gave hash 2982175789U not the expected 881731720U 145: Done 145: ----------------- Test JSON Configuration 145: Done 145: ----------------- Testing github 1090: escape html characters in SVG output 145: Done 145: ----------------- Testing github 1035: overflow bug in SVG color generation 145: Done 145: ----------------- Testing github 1271: MolDraw2D not drawing anything for molecules aligned with the X or Y axes 145: Done 145: ----------------- Testing github 1322: add custom atom labels 145: Done 145: ----------------- Testing use of a black & white palette 145: Done 145: ----------------- Testing use of continuous highlighting with drawMolecules 145: Done 145: ----------------- Test 17 - Testing maximum font size 145: Done 145: ----------------- Testing github 1829: crash when drawMolecules() is called with an empty list 145: Done 145: ----------------- Testing use of fixed scales for drawing. 145: Done 145: ----------------- Testing rotation of 2D drawing. 145: Done 145: ----------------- Testing inclusion of molecule metadata 145: Done 145: ----------------- Testing Github2063: Drawing racemic bond stereo as crossed bonds should be the default 145: Done 145: ----------------- Testing Github2151: MolDraw2D: line width should be controlled by MolDrawOptions 145: file testGithub2151_1.svg gave hash 3620378781U not the expected 4119581143U 145: file testGithub2151_2.svg gave hash 3896781930U not the expected 425960913U 145: Done 145: ----------------- Testing testGithub2762: MolDraw2D: HCl and ethane should be drawn 145: Done 145: ----------------- Testing testGithub2931: multi-coloured molecule highlights. 145: file testGithub2931_1.svg gave hash 811930351U not the expected 3635831631U 145: file testGithub2931_3.svg gave hash 1986517899U not the expected 2885834646U 145: Done 145: ----------------- Testing annotation of 2D Drawing. 145: file test20_1.png gave hash 3948107650U not the expected 1672353490U 145: file test20_2.png gave hash 76004515U not the expected 1073213605U 145: file test20_3.png gave hash 2576848427U not the expected 471234756U 145: file test20_4.png gave hash 2436713093U not the expected 2803490234U 145: Done 145: ----------------- Test 21 - different font 145: Done 145: ----------------- Test 22 - draw explicit methyls. 145: Done 145: ----------------- Testing drawing of legends. 145: Done 145: ----------------- Test Github 3305 - change and scale line widths. 145: file testGithub3305_1.png gave hash 1511161822U not the expected 1801411420U 145: file testGithub3305_2.png gave hash 2530249581U not the expected 2904846519U 145: file testGithub3305_3.png gave hash 1056218547U not the expected 2915229647U 145: file testGithub3305_4.png gave hash 3099888250U not the expected 1911551403U 145: file testGithub3305_5.png gave hash 1702931839U not the expected 614319597U 145: file testGithub3305_5.svg gave hash 911738919U not the expected 3435115096U 145: file testGithub3305_6.png gave hash 4041722001U not the expected 3926947401U 145: file testGithub3305_7.png gave hash 1767819280U not the expected 1720405002U 145: Done 145: ----------------- Test Github 3391 - maxFontSize interacting badly with DrawMolecules. 145: Done 145: ----------------- Test Github 4156 - bad scale for radicals in grid 145: Done 145: ----------------- Test JSON atomColourPalette 145: Done 145: ----------------- Test draw aromatic OR queries 145: Done 145: ----------------- Test AND queries 145: Done 142/222 Test #145: moldraw2DTest1 ......................... Passed 42.79 sec test 146 Start 146: moldraw2DTestCatch 146: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D/moldraw2DTestCatch 146: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D 146: Test timeout computed to be: 1500 146: Randomness seeded to: 4068840327 146: file testAtomTags_3.svg gave hash 1931256064U not the expected 2244078420U 146: file contourMol_1.svg gave hash 2850377565U not the expected 2604538953U 146: file contourMol_2.svg gave hash 2484697137U not the expected 572669511U 146: file contourMol_3.svg gave hash 206731862U not the expected 936771429U 146: file contourMol_4.svg gave hash 677339869U not the expected 3302971362U 146: file contourMol_5.svg gave hash 2184112624U not the expected 2230414999U 146: file testGithub3226_1.png gave hash 1298537421U not the expected 2350054896U 146: file testGithub3226_2.png gave hash 4249073986U not the expected 606206725U 146: file testGithub3226_3.png gave hash 1401608198U not the expected 2282880418U 146: file testPNGMetadata_1.png gave hash 2404275697U not the expected 2423299691U 146: file testPNGMetadata_2.png gave hash 2335719695U not the expected 2803353117U 146: file testGithub3369_1.svg gave hash 1012801087U not the expected 3091976328U 146: [01:22:46] Font file /<>/Data/Fonts/ComicNeue-Regular.ttf not found. 146: [01:22:46] Falling back to original font file /<>/Data/Fonts/Telex-Regular.ttf. 146: file testHandDrawn-1.svg gave hash 2072486955U not the expected 2253418236U 146: [01:22:46] Font file /<>/Data/Fonts/ComicNeue-Regular.ttf not found. 146: [01:22:46] Falling back to original font file /<>/Data/Fonts/Telex-Regular.ttf. 146: file testHandDrawn-1.png gave hash 2732783930U not the expected 698316547U 146: [01:22:46] Font file /<>/Data/Fonts/ComicNeue-Regular.ttf not found. 146: [01:22:46] Falling back to original font file /<>/Data/Fonts/Telex-Regular.ttf. 146: file testHandDrawn-2.svg gave hash 2224670338U not the expected 4132716144U 146: [01:22:46] Font file /<>/Data/Fonts/ComicNeue-Regular.ttf not found. 146: [01:22:46] Falling back to original font file /<>/Data/Fonts/Telex-Regular.ttf. 146: file testHandDrawn-2.png gave hash 1383801794U not the expected 1605553248U 146: [01:22:46] Font file /<>/Data/Fonts/ComicNeue-Regular.ttf not found. 146: [01:22:46] Falling back to original font file /<>/Data/Fonts/Telex-Regular.ttf. 146: file testHandDrawn-3.svg gave hash 633044862U not the expected 4199337510U 146: [01:22:46] Font file /<>/Data/Fonts/ComicNeue-Regular.ttf not found. 146: [01:22:46] Falling back to original font file /<>/Data/Fonts/Telex-Regular.ttf. 146: file testHandDrawn-3.png gave hash 3459141761U not the expected 2881952238U 146: [01:22:46] Font file /<>/Data/Fonts/ComicNeue-Regular.ttf not found. 146: [01:22:46] Falling back to original font file /<>/Data/Fonts/Telex-Regular.ttf. 146: file testHandDrawn-4.svg gave hash 2180320567U not the expected 4197407865U 146: [01:22:46] Font file /<>/Data/Fonts/ComicNeue-Regular.ttf not found. 146: [01:22:46] Falling back to original font file /<>/Data/Fonts/Telex-Regular.ttf. 146: file testHandDrawn-4.png gave hash 751103982U not the expected 3431655453U 136: --------------------------------- 136: test getO3AForProbeConfs 136: 136: *********************************************************** 143/222 Test #136: testO3AAlign ........................... Passed 135.91 sec test 147 Start 147: moldraw2DRxnTest1 147: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D/moldraw2DRxnTest1 147: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D 147: Test timeout computed to be: 1500 147: ----------------- Test 1 147: file rxn_test1_1.png gave hash 3931149906U not the expected 1556334749U 147: file rxn_test1_2.png gave hash 665316462U not the expected 1924084263U 147: file rxn_test1_3.png gave hash 583399715U not the expected 1644921059U 147: file rxn_test1_4.png gave hash 3197024324U not the expected 2471435686U 147: file rxn_test1_5.png gave hash 3779444276U not the expected 1428782307U 147: file rxn_test1_6.png gave hash 4083260446U not the expected 483353696U 147: file rxn_test1_7.png gave hash 3485241449U not the expected 528963379U 147: file rxn_test1_7.svg gave hash 798375802U not the expected 1881564163U 147: Done 147: ----------------- Test 2: some examples that caused problems in testing 147: file rxn_test2_1.png gave hash 4000022879U not the expected 399415052U 147: 3 [cH:1]1[cH:2][cH:3][c:4][cH:5][cH:6]1>>CC(C)[c:1]1[cH:2][cH:3][c:4][cH:5][cH:6]1 CN1CCC(CC1)N(C)S(=O)(=O)c2ccccc2 CC(C)c1ccc(cc1)S(=O)(=O)N(C)C2CCN(CC2)C 147: file rxn_test2_2_1.png gave hash 1840548677U not the expected 1215378243U 147: 3 [cH:1]1[cH:2][cH:3][c:4][cH:5][cH:6]1>>[cH:3]1[cH:2][c:1]([cH:6][cH:5][c:4]1)Cl Cc1cccc(c1C)N2CCN(CC2)CCCNC(=O)c3cc([nH]c3C)c4ccccc4 Cc1cccc(c1C)N2CCN(CC2)CCCNC(=O)c3cc([nH]c3C)c4ccc(cc4)Cl 147: file rxn_test2_2_2.png gave hash 751090601U not the expected 3645141778U 147: 2 Cc1c(cc([nH]1)[c:1]2[cH:2][cH:3][cH:4][cH:5][cH:6]2)[C:7](=[O:8])[NH:9][CH2:10][CH2:11]>>CCc1nc(c(n1[c:1]2[cH:2][cH:3][cH:4][cH:5][cH:6]2)C)[C:7](=[O:8])[NH:9][CH2:10][CH2:11] Cc1c(cc([nH]1)c2ccccc2)C(=O)NCCN3CCN(C 147: 2 C3)c4cccc(c4Cl)Cl CCc1nc(c(n1c2ccccc2)C)C(=O)NCCN3CCN(CC3)c4cccc(c4Cl)Cl 147: 3 [c:1][C:2](=[O:3])[NH:4]CCC[CH2:5][N:6]([CH2:7])[CH2:8]>>[c:1][C:2](=[O:3])[NH:4]C[CH2:5][N:6]([CH2:7])[CH2:8] CCCn1c(c(cc1c2ccccc2)C(=O)NCCCCN3CCN(CC3)c4cccc(c4Cl)Cl)C CCCn1c(c(cc1c2ccccc2)C(=O)NCCN3CCN(CC3)c4cccc(c4Cl)Cl)C 147: file rxn_test2_2_3.png gave hash 4146401115U not the expected 551946805U 147: 3 [CH3:1]c1c(cc(n1[CH3:2])C(C)(C)C)[C:3]>>[CH3:2]c1c(c(nc(n1)[CH3:1])[C:3])OC Cc1cccc(c1C)N2CCN(CC2)CCNC(=O)c3cc(n(c3C)C)C(C)(C)C Cc1cccc(c1C)N2CCN(CC2)CCNC(=O)c3c(c(nc(n3)C)C)OC 147: file rxn_test2_2_4.png gave hash 3607216253U not the expected 4234617566U 147: Done 147: ----------------- Test 3: test reactant highlighting 147: file rxn_test3_1.png gave hash 188543052U not the expected 4176857511U 147: file rxn_test3_1.svg gave hash 1959543526U not the expected 2165658826U 147: Done 147: ----------------- Test 4: some examples from SMARTS in testing 147: draw! 147: file rxn_test4_1.png gave hash 3540073973U not the expected 4187207676U 147: file rxn_test4_1.svg gave hash 2683567127U not the expected 3239755313U 147: done 147: file rxn_test4_2.png gave hash 3707674297U not the expected 3490081297U 147: file rxn_test4_2.svg gave hash 4278906476U not the expected 4127054729U 147: Done 144/222 Test #147: moldraw2DRxnTest1 ...................... Passed 1.62 sec test 148 Start 148: pyMolDraw2D 148: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/MolDraw2D/Wrap/testMolDraw2D.py" 148: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D/Wrap 148: Test timeout computed to be: 1500 146: file testHandDrawn-5a.svg gave hash 3172919116U not the expected 3628607349U 146: [01:22:51] Font file /<>/Data/Fonts/ComicNeue-Regular.ttf not found. 146: [01:22:51] Falling back to original font file /<>/Data/Fonts/Telex-Regular.ttf. 146: file testHandDrawn-5b.svg gave hash 3290430369U not the expected 2522138089U 146: [01:22:51] Font file /<>/Data/Fonts/ComicNeue-Regular.ttf not found. 146: [01:22:51] Falling back to original font file /<>/Data/Fonts/Telex-Regular.ttf. 146: file testHandDrawn-5.png gave hash 2231464709U not the expected 3439548169U 146: file testBrackets-5a.svg gave hash 4023768529U not the expected 3061667963U 145/222 Test #148: pyMolDraw2D ............................***Exception: SegFault 1.81 sec test 149 Start 149: testFMCS 149: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS/testFMCS 149: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS 149: Test timeout computed to be: 1500 146: file testSGroupData-3a.svg gave hash 62481132U not the expected 2405789536U 146: file testSGroupData-3a.svg gave hash 62481132U not the expected 2405789536U 146: file testPositionVariation-1b.svg gave hash 823876785U not the expected 174339626U 146: [01:22:52] unrecognized bond typefile testGithub2976.svg gave hash 2858811732U not the expected 2669316911U 146: file testGithub4238_1.png gave hash 697827931U not the expected 3410617836U 146: file testGithub4323_1.png gave hash 1827938735U not the expected 3723958844U 146: file testGithub4323_3.png gave hash 2396952382U not the expected 2185913679U 146: [01:22:53] FIELDDISP info not found for DAT SGroup which isn't associated with an atom. SGroup will not be rendered. 146: file testFlexiCanvas.2a.png gave hash 3537769019U not the expected 3217758043U 146: file testFlexiCanvas.2b.png gave hash 615048826U not the expected 4070063910U 146: file testFlexiCanvas.3.svg gave hash 3867616289U not the expected 2819587550U 146: file testGithub4764.sz1.svg gave hash 2364628953U not the expected 3611125861U 146: file testGithub4764.sz2.svg gave hash 1490175526U not the expected 1936114454U 146: file testGithub4764.sz3.svg gave hash 1662881340U not the expected 2712214121U 146: file testGithub4764.sz1.png gave hash 110741908U not the expected 98827714U 146: file testGithub4764.sz2.png gave hash 2489796213U not the expected 89252465U 146: file testGithub4764.sz3.png gave hash 3163570418U not the expected 148503574U 146: file testGithub_5061.svg gave hash 4026821599U not the expected 83338095U 146: file github5383_1.svg gave hash 2484697137U not the expected 3666750661U 146: file github5383_2.svg gave hash 1068177635U not the expected 0U 146: file github5383_1.png gave hash 1277928613U not the expected 992803933U 146: file acs1996_1.png gave hash 1909632721U not the expected 2957839025U 146: file acs1996_2.png gave hash 1539606209U not the expected 2664798808U 146: file acs1996_3.svg gave hash 3058522544U not the expected 879041204U 146: [01:22:55] ACS drawing mode works best with a flexiCanvas i.e. a drawer created with width and height of -1. The scale will be fixed, and that may not look great with a pre-determined size. 146: file bond_highlights_8.svg gave hash 682598716U not the expected 2956924065U 146: file test_github6112.svg gave hash 3865338574U not the expected 3278777629U 146: file github6336_1.png gave hash 1930712448U not the expected 2958833204U 146: file github6504_1.svg gave hash 3649936662U not the expected 1429448598U 146: file github6504_2.svg gave hash 106020287U not the expected 2871662880U 146: file github6569_1.svg gave hash 1698514747U not the expected 116573839U 146: file github6569_2.svg gave hash 2778768241U not the expected 2367779037U 146: =============================================================================== 146: All tests passed (6525 assertions in 94 test cases) 146: 146/222 Test #146: moldraw2DTestCatch ..................... Passed 12.29 sec test 150 Start 150: pyFMCS 150: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/FMCS/Wrap/testFMCS.py" 150: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS/Wrap 150: Test timeout computed to be: 1500 149: MCS: [#6]-[#6]1-[#6]-[#6]-[#6]-[#6]-[#6]-1 7 atoms, 7 bonds 149: Time elapsed 0.001 seconds 149: 149: test32() 149: MCS: [#6]1:[#6]:[#6]:[#6](:[#6]:[#6]:1)-[#6]=[#6]-[#6](-[#7]-[#6]1:[#6]:[#6](-[#16](-[#7]2-[#6]-[#6]-[#8]-[#6]-[#6]-2)(=[#8])=[#8]):[#6]:[#6]:[#6]:1-[#7](-[#6]-[#6])-[#6]-[#6])=[#8] 31 atoms, 33 bonds 149: Time elapsed 0.146 seconds 149: 149: test190() 149: MCS: [#6]1:[#6]:[#6]2:[#8]:[#6](:[#7]:[#6]:2:[#6]:[#6]:1)-[#6]1:[#6]:[#6](-[#7]-[#6](=[#8])-[#6]):[#6]:[#6]:[#6]:1 19 atoms, 21 bonds 149: Time elapsed 0.021 seconds 149: 149: test3() 149: MCS: [#6]1:[#6]:[#6]:[#6]:[#6]:[#6]:1-[#6]-[#6](=[#8])-[#7]-[#6]-[#6]-[#6]-[#6] 14 atoms, 14 bonds 149: Time elapsed 0.031 seconds 149: 149: testSimpleFast() 149: MCS: [#6]-[#8]-[#6]-[#6]1:[#6]:[#7]:[#6]:[#6](:[#6]:1):[#7]:[#6]1:[#6]:[#6]:[#6]:[#6](:[#6]:1)-[#8]-[#6]1:[#6]:[#6]:[#6](:[#6]:[#6]:1)-[#17] 24 atoms, 26 bonds 149: Time elapsed 0.263 seconds 149: 149: testSimple() 149: MCS: [#6]-&!@[#6]-&!@[#6](-&!@[#7]-&!@[#6](=&!@[#8])-&!@[#6]-&!@[#7]-&!@[#6](=&!@[#8])-&!@[#6])-&!@[#6](-&!@[#7]-&!@[#6])=&!@[#8] 15 atoms, 14 bonds 149: Time elapsed 0.213 seconds 149: MCS MatchFusedRings: [#6]-&!@[#6]-&!@[#6](-&!@[#7]-&!@[#6](=&!@[#8])-&!@[#6]-&!@[#7]-&!@[#6](=&!@[#8])-&!@[#6])-&!@[#6](-&!@[#7]-&!@[#6])=&!@[#8] 15 atoms, 14 bonds 149: Time elapsed 0.305 seconds 149: MCS MatchFusedRingsStrict: [#6]-&!@[#6]-&!@[#6](-&!@[#7]-&!@[#6](=&!@[#8])-&!@[#6]-&!@[#7]-&!@[#6](=&!@[#8])-&!@[#6])-&!@[#6](-&!@[#7]-&!@[#6])=&!@[#8] 15 atoms, 14 bonds 149: Time elapsed 0.357 seconds 149: 149: testSegFault() 149: MCS: [#6]1:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@1 6 atoms, 6 bonds 149: Time elapsed 0.035 seconds 149: MCS MatchFusedRings: [#6]1:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@1 6 atoms, 6 bonds 149: Time elapsed 0.065 seconds 149: MCS MatchFusedRingsStrict: [#6;r6,!R1]1:&@[#6;r6,!R1]:&@[#6;r6,!R1]:&@[#6;r6,!R1]:&@[#6;r6,!R1]:&@[#6;r6,!R1]:&@1 6 atoms, 6 bonds 149: Time elapsed 0.052 seconds 149: 149: testThreshold() 149: MCS: [#6]-[#6]-[#6] 3 atoms, 2 bonds 149: Time elapsed 0.000 seconds 149: 149: testRing1() 149: MCS: [#6]-&!@[#8]-&!@[#6]-&!@[#6]1:&@[#6]:&@[#7]:&@[#6]:&@[#6]2:&@[#6]:&@1:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@[#7]:&@2 16 atoms, 17 bonds 149: Time elapsed 1.382 seconds 149: MCS MatchFusedRings: [#6]-&!@[#8]-&!@[#6]-&!@[#6]1:&@[#6]:&@[#7]:&@[#6]:&@[#6]2:&@[#6]:&@1:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@[#7]:&@2 16 atoms, 17 bonds 149: Time elapsed 1.400 seconds 149: MCS MatchFusedRingsStrict: [#6;r6,!R1]1:&@[#6;r6,!R1]:&@[#7;r6,!R1]:&@[#6;r6,!R1](:&@[#6]:&@[#6]:&@1)-&!@[#6](=&!@[#8])-&!@[#8]-&!@[#6](-&!@[#6])-&!@[#6] 12 atoms, 12 bonds 149: Time elapsed 1.653 seconds 149: 149: testAtomCompareIsotopes() 149: MCS: [0*]-[0*]-[13*] 3 atoms, 2 bonds 149: Time elapsed 0.047 seconds 149: 149: testAtomCompareAnyAtom() 149: MCS: [#6]1:[#6]:[#6]:[#6]:[#6]:[#6]:1-[#6,#7,#8,#9,#17] 7 atoms, 7 bonds 149: Time elapsed 0.001 seconds 149: 149: testAtomCompareAnyAtom() 149: MCS: [#6]1-,:[#6]-,:[#6]-,:[#6]-,:[#6]-,:[#6]-,:1=,-[#6,#7,#8,#9,#17] 7 atoms, 7 bonds 149: Time elapsed 0.001 seconds 149: 149: testAtomCompareAnyAtom() 149: MCS: [#1]-[#6]1:[#6]:[#6]:[#6]:[#6]:[#6]:1-[#6,#8] 8 atoms, 8 bonds 149: Time elapsed 0.000 seconds 149: 149: testAtomCompareAnyAtom() 149: MCS: [#6]1:[#6]:[#6]:[#6]:[#6]:[#6]:1-[#6,#8] 7 atoms, 7 bonds 149: Time elapsed 0.000 seconds 149: 149: testJnk1LigandsDistance() 149: MCS: [#6]-[#6]-[#8]-[#6]1:[#6](:[#6](:[#6]:[#6](:[#7]:1)-[#7]-[#6](=[#8])-[#6]-[#6]1:[#6]:[#6]:[#6]:[#6]:[#6]:1)-[#7])-[#6]#[#7] CCOc1nc(NC(=O)Cc2ccccc2)cc(N)c1C#N 22 atoms, 23 bonds 149: Time elapsed 0.047 seconds 149: MCS: [#6]-[#6]-[#8]-[#6]1:[#6](:[#6](:[#6]:[#6](:[#7]:1)-[#7]-[#6](=[#8])-[#6]-[#6]1:[#6]:[#6]:[#6]:[#6](:[#6]:1)-[#6,#8])-[#7])-[#6]#[#7] *c1cccc(CC(=O)Nc2cc(N)c(C#N)c(OCC)n2)c1 23 atoms, 24 bonds 147/222 Test #150: pyFMCS .................................***Exception: SegFault 1.89 sec test 151 Start 151: FMCStest 151: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS/Test/FMCStest 151: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS/Test 151: Test timeout computed to be: 1500 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_100_15113.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_100_16613.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_100_30745.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_100_30861.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_100_31495.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_100_34869.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_100_36158.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_100_36559.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_100_37434.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_100_39147.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_100_43754.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_100_44011.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_100_44158.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_100_48076.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_100_48961.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_100_49648.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_100_49703.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_100_51128.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_100_51343.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_100_51842.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_100_54554.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_100_55749.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10188_17256.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10188_20244.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10188_20245.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10188_30149.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10188_30499.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10188_36186.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10188_39262.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10188_43966.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10188_45279.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10188_48029.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10188_49064.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10188_49801.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10188_50681.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10188_54039.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10188_58265.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10188_58358.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10188_58866.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10188_60810.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10193_21358.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10193_21597.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10193_30111.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10193_30349.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10193_31746.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10193_31822.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10193_35220.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10193_37603.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10193_37964.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10193_39508.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10193_42164.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10193_42577.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10193_44072.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10193_45522.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10193_46700.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10193_46719.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10193_46744.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10193_48517.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10193_49087.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10193_50034.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10193_51475.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10193_53483.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10193_53506.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10193_54598.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10193_55614.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10193_55737.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10193_57090.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10193_57705.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10193_57785.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10193_58463.txt 151: 151: testChEMBfopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: L_Txt() chembl_II_sets/Target_no_10193_58700.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10193_61003.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10193_61349.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10260_38526.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10260_50778.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10260_52179.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10260_54285.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10280_30224.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10280_31222.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10280_37349.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10280_37369.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10280_37465.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10280_37541.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10280_38371.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10280_44314.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10280_44578.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10280_45765.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10280_46281.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10280_47928.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10280_50624.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10280_51341.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10280_51662.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10280_51767.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10280_53081.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10280_53396.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10280_53407.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10280_58823.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10280_59190.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10280_60672.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10280_61176.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10434_20905.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10434_30074.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10434_30175.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10434_30423.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10434_31555.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10434_34878.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10434_35926.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10434_42168.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_107_20859.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_107_30060.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_107_30061.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_107_30606.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_107_30866.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_107_31249.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_107_34921.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_107_35188.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_107_36636.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_107_37466.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_107_39202.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_107_43952.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_107_49345.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_107_49591.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_107_49854.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_107_51416.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_107_53537.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_107_58879.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_107_60679.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_107_61269.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_108_20600.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_108_20859.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_108_30060.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_108_30606.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_108_30866.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_108_31558.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_108_35188.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_108_37466.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_108_43875.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_108_48911.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_108_49591.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_108_49854.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: no_108_57887.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_108_60679.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_108_6857.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10980_15478.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10980_20853.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10980_30840.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10980_30862.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10980_30918.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10980_30994.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10980_31014.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10980_31508.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10980_31623.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10980_35003.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10980_35004.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10980_35281.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10980_35957.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10980_36520.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10980_36641.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10980_38586.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10980_44431.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10980_45093.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10980_51302.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10980_5247.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10980_52937.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10980_57198.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10980_5739.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_10980_6535.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11140_20205.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11140_20986.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11140_30091.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11140_34698.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11140_34705.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11140_37038.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11140_37272.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11140_37447.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11140_38909.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11140_38953.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11140_39472.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11140_45825.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11140_47179.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11140_49028.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11140_49860.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11140_51984.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11140_53395.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11140_53826.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11140_54121.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11140_54530.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11140_55738.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11140_57725.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11140_58590.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11365_20432.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11365_30331.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11365_37956.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11365_48114.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11365_58566.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11489_34731.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11489_34818.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11489_37318.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11489_37339.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11489_37564.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11489_39504.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11489_39561.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11489_46082.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11489_46089.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11489_47349.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11489_47757.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11489_51593.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11489_54754.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11489_58262.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11489_58958.txt 151: 151: testChEMBL_Txt(fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: ) chembl_II_sets/Target_no_114_16827.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_114_20503.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_114_20724.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_114_30254.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_114_30321.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_114_30572.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_114_31116.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_114_31281.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_114_31443.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_114_34747.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_114_34920.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_114_35040.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_114_36623.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_114_37136.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_114_37208.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_114_38298.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_114_38554.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_114_39088.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_114_39543.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_114_44049.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_114_44562.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_114_45180.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_114_45867.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_114_46087.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_114_46829.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_114_47546.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_114_48395.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_114_50461.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_114_50765.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_114_51669.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_114_52381.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_114_57231.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_114_58246.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11534_30999.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11534_31021.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11534_31650.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11534_35011.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11534_37014.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11534_44598.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11534_48446.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11534_50614.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11534_50615.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11534_50618.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11534_51950.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11575_31616.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11575_38381.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11575_45757.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11575_46816.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11575_50701.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11575_54049.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11575_57890.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11575_61045.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11631_30194.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11631_31421.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11631_35538.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11631_55727.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11631_60676.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11631_61130.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_11631_6444.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_15623.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_20096.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_21591.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_30184.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_30380.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_30745.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_30861.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_31619.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_34869.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_35284.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_36158.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_36915.txt 151: 151: testChEMBL_Txfopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: t() chembl_II_sets/Target_no_121_37434.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_37541.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_37677.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_38837.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_39530.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_43793.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_44158.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_44164.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_44579.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_44593.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_44692.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_44914.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_45878.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_48050.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_48706.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_48944.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_48961.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_49880.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_50055.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_50512.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_51064.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_53537.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_55749.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_58879.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_121_6876.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12209_44664.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12209_46451.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12209_50640.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12209_56102.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12209_58015.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12209_59089.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12209_59092.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12209_61340.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12252_31458.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12252_38481.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12252_42104.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12252_49475.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12252_49933.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12252_50558.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_126_37249.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_126_39117.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_126_48227.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_126_48229.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_126_53969.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_126_54262.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_126_55353.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_126_61212.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12952_20250.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12952_20506.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12952_20626.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12952_20689.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12952_21358.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12952_30158.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12952_30349.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12952_34843.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12952_35220.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12952_36318.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12952_36800.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12952_39349.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12952_45385.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12952_45676.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12952_46700.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12952_46719.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12952_48517.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12952_52690.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12952_53483.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12952_55435.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12952_56102.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12952_58015.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_12952_58375.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_1295fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: 2_58700.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_13001_16724.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_13001_2710.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_13001_30128.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_13001_31250.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_13001_35519.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_13001_36905.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_13001_46788.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_13001_4737.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_13001_55736.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_13001_57473.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_130_16146.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_130_30313.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_130_30539.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_130_30653.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_130_30988.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_130_31179.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_130_31339.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_130_3525.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_130_36886.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_130_37020.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_130_38128.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_130_43952.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_130_45210.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_130_45899.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_130_47889.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_130_51800.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_130_53158.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_130_5330.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_130_55648.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_130_56096.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_130_57287.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_130_57399.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_130_57606.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_130_58470.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_130_60894.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_15010.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_20304.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_20542.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_20788.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_21358.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_30349.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_31103.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_31764.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_31822.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_35220.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_37964.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_42164.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_44072.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_45522.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_46719.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_46744.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_48416.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_49740.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_50034.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_50640.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_53483.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_53506.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_53814.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_55435.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_56074.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_56107.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_57090.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_57705.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_57785.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_57861.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_58583.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_59089.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_15_59092.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_165_20600.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_165_30764.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_165_34876.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_165_37427.tfopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: xt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_165_38266.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_165_45283.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_165_46990.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_165_47123.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_165_47900.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_165_48050.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_165_48062.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_165_48076.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_165_50718.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_165_50972.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_165_51372.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_165_51830.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_165_53049.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_165_53505.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_165_54021.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_165_54565.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_165_54570.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_165_57666.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_165_57890.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_165_58072.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_165_58634.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_165_58643.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_165_59080.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_165_59202.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_165_59346.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_165_60379.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_165_60385.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_165_61098.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_17045_31154.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_17045_35648.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_17045_48914.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_17045_51975.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_17045_52435.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_17045_55790.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_17045_58958.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_17045_61146.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_20191.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_20562.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_20606.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_20607.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_30003.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_30402.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_30726.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_30924.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31457.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31460.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31600.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31620.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31640.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31782.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31797.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31829.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31856.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_34690.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_34691.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_34694.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_35712.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_37497.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_37539.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_48070.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_48219.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_48824.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_48902.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_52867.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_53534.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_54570.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_58727.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_60159.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_19905_60661.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_259_30037.txt 151: 151: testChEMBL_Txt() chefopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: mbl_II_sets/Target_no_259_34734.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_259_35365.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_259_35787.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_259_36793.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_259_37845.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_259_38328.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_259_39374.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_259_43936.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_259_44059.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_259_44405.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_259_44424.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_259_45166.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_259_46158.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_259_46425.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_259_47187.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_259_48435.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_259_48817.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_259_48849.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_259_48957.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_259_48965.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_259_49519.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_259_49921.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_259_50392.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_259_50972.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_259_52405.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_259_52442.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_259_53169.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_259_54640.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_259_57207.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_259_58537.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_259_58920.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_259_60358.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_25_16077.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_25_34943.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_25_36391.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_25_36574.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_25_52906.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_25_54642.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_43_16385.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_43_20333.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_43_20774.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_43_35825.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_43_37637.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_43_47741.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_43_48567.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_43_48841.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_43_49589.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_43_50564.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_43_51201.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_43_53150.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_43_55747.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_43_58276.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_51_20813.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_51_2331.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_51_2391.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_51_30374.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_51_30512.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_51_30796.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_51_31058.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_51_31450.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_51_36609.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_51_36636.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_51_38266.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_51_43800.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_51_47621.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_51_49433.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_51_49550.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_51_49865.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_51_51005.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_51_52373.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_51_53878.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_51_54554.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_51_57508.txtfopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_51_57618.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_51_59484.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_51_6563.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_61_16845.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_61_37106.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_61_37272.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_61_47947.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_61_50754.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_61_55800.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_61_57380.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_65_35328.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_65_36137.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_65_38826.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_65_44596.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_65_51275.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_65_55671.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_72_20155.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_72_30616.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_72_30653.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_72_30988.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_72_31339.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_72_31527.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_72_31631.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_72_36047.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_72_36568.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_72_36636.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_72_37020.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_72_38128.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_72_43952.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_72_45210.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_72_47889.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_72_51064.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_72_51800.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_72_5330.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_72_57508.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_72_58470.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_72_60894.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_87_20730.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_87_20753.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_87_30097.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_87_30663.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_87_35365.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_87_35375.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_87_35918.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_87_36010.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_87_36780.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_87_36793.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_87_37845.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_87_39110.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_87_39546.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_87_43936.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_87_44405.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_87_44424.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_87_44683.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_87_45166.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_87_46648.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_87_46986.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_87_47070.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_87_47187.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_87_48435.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_87_48817.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_87_49138.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_87_49460.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_87_49519.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_87_49532.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_87_49829.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_87_50608.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_87_54640.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_87_61082.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_90_15727.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_90_20155.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_90_30407.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_90_3525.txt 151: 151: testChEMBfopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: fopen testChEMBL_Txt(): No such file or directory 151: L_Txt() chembl_II_sets/Target_no_93_12377.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_93_1308.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_93_34759.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_93_35447.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_93_42214.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_93_45877.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_93_47082.txt 151: 151: testChEMBL_Txt() chembl_II_sets/Target_no_93_57082.txt 151: 151: testFileSDF_RandomSet(): benchmark/chembl13-10000-random-pairs.sdf 151: ERROR: RDKit could not load input file 151: 151: testFileSDF_RandomSet(): benchmark/chembl13_pairs.smi 151: ERROR: RDKit could not load input file 151: 151: testFileSDF_RandomSet(): benchmark/chembl13_knearest_2.smi 151: ERROR: RDKit could not load input file 151: 151: testFileSDF_RandomSet(): benchmark/chembl13_knearest_10.smi 151: ERROR: RDKit could not load input file 151: 151: testFileSDF_RandomSet(): benchmark/chembl13_knearest_100.smi 151: ERROR: RDKit could not load input file 151: 151: testFileSDF_RandomSet(): benchmark/chembl13_threshold_80.smi 151: ERROR: RDKit could not load input file 151: 151: testFileSDF_RandomSet(): benchmark/chembl13_threshold_90.smi 151: ERROR: RDKit could not load input file 148/222 Test #151: FMCStest ............................... Passed 0.21 sec test 152 Start 152: molHashCatchTest 152: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash/molHashCatchTest 152: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash 152: Test timeout computed to be: 1500 149: Time elapsed 0.016 seconds 149: 149: test18() 149: Query +MAP [CH3:0][c:1]1[n:2][c:3]([CH2:4][N:5]([CH:6]([CH3:7])[c:8]2[n:9][cH:10][cH:11][cH:12][cH:13]2)[CH2:14][CH2:15][CH2:16][CH2:17][NH2:18])[cH:19][cH:20][cH:21]1 149: MCS: [#6](:[#7]:[#6]-[#6]-[#7](-[#6](-[#6])-[#6]1:[#7]:[#6]:[#6]:[#6]:[#6]:1)-[#6]-[#6]-[#6]-[#6]-[#7]):[#6]:[#6]:[#6] 21 atoms, 21 bonds 149: Time elapsed 0.025 seconds 149: 149: test504() 149: Query +MAP [CH2:0]([CH2:1][CH2:2][NH:3][C:4]([CH:5]1[CH2:6][CH:7]1[c:8]1[c:9][c:10]([Cl:11])[c:12]([Cl:13])[cH:14][c:15]1)=[O:16])[CH2:17][CH2:18][N:19]1[CH2:20][CH2:21][CH:22]([NH:23][C:24]([NH:25][c:26]2[cH:27][cH:28][c:29]([Cl:30])[cH:31][cH:32]2)=[O:33])[CH2:34]1 149: MCS: [#6](-[#6]-[#6]-[#7]-[#6](-[#6]1-[#6]-[#6]-1-[#6]1:[#6]:[#6](-[#17]):[#6](:[#6]:[#6]:1)-[#17])=[#8])-[#6]-[#6]-[#7](-[#6]-[#6]-[#6]-[#7]-[#6](-[#7]-[#6]1:[#6]:[#6]:[#6]:[#6]:[#6]:1)=[#8])-[#6] 34 atoms, 36 bonds 149: Time elapsed 0.386 seconds 149: MCS: [#6]-[#6]1-[#6]-[#6]-[#6]-[#6]-[#6]-1 7 atoms, 7 bonds 149: Time elapsed 0.004 seconds 149: MCS: [#6]1-[#6]-[#7]-[#6](-[#6]-[#7]-1-[#6]1:[#6](:[#6]:[#6]2:[#6](:[#6](:[#6]:[#7](-[#6]3-[#6]-[#6]-3):[#6]:2:[#6]:1)-[#6](=[#8])-[#8])=[#8])-[#9])-[#6] 25 atoms, 28 bonds 149: Time elapsed 0.103 seconds 149: Query Cc1c(F)c(N2CCNC(C)C2)cc2c1c(=O)c(C(=O)O)cn2C1CC1 26(26) atoms, 29(28) bonds 149: 1 Seeds:1 MCS 25 atoms, 28 bonds for 0.0029 seconds. bond[0]=6 149: STATISTICS: 149: Total Growing Steps = 1, MCS found on 1 step, for 0.0029 seconds 149: Initial Seeds = 1, Mismatched 0 149: Inspected Seeds = 2 149: Rejected by BestSize = 0 149: IndividualBondExcluded = 0 149: MatchCheck Seeds = 2 149: MatchCalls = 2 149: MatchFound = 1 149: fastMatchCalls = 1 149: fastMatchFound = 0 149: slowMatchCalls = 2 149: slowMatchFound = 1 149: DupCacheFound = 0 0 matched, 0 mismatched 149: HashCache size = 1 keys 149: HashCache size = 1 entries 149: FindHashInCache = 2 149: HashFoundInCache= 0 149: ExactMatchCalls = 0 149: ExactMatchFound = 0 149: Time elapsed 0.003 seconds 149: query=OCCl SubstructMatch(useChirality=false) res =1 size=3 149: query=OCCl SubstructMatch(useChirality=true ) res =1 size=3 149: test target = O[C@H](F)CCl query = C(F)C useChirality = 0 149: res sub = 1 size=3 149: MCS: [#6](-[#9])-[#6] 3 atoms, 2 bonds 149: test target = O[C@H](F)CCl query = C(F)C useChirality = 1 149: res sub = 1 size=3 149: MCS: [#6](-[#9])-[#6] 3 atoms, 2 bonds 149: test target = CC[C@H](F)Cl query = CCC useChirality = 0 149: res sub = 1 size=3 149: MCS: [#6]-[#6]-[#6] 3 atoms, 2 bonds 149: test target = CC[C@H](F)Cl query = CCC useChirality = 1 149: res sub = 1 size=3 149: MCS: [#6]-[#6]-[#6] 3 atoms, 2 bonds 149: test target = CCC(F)Cl query = CC useChirality = 0 149: res sub = 1 size=2 149: MCS: [#6]-[#6] 2 atoms, 1 bonds 149: test target = CCC(F)Cl query = CC useChirality = 1 149: res sub = 1 size=2 149: MCS: [#6]-[#6] 2 atoms, 1 bonds 149: test target = C[C@H](F)CCl query = C[C@H](F)C useChirality = 0 149: res sub = 1 size=4 149: MCS: [#6]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 149: test target = C[C@H](F)CCl query = C[C@H](F)C useChirality = 1 149: res sub = 1 size=4 149: MCS: [#6]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 149: test target = C[C@H](F)CCl query = C[C@@H](F)C useChirality = 0 149: res sub = 1 size=4 149: MCS: [#6]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 149: test target = C[C@H](F)CCl query = C[C@@H](F)C useChirality = 1 149: res sub = 1 size=4 149: MCS: [#6]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 149: test target = O[C@H](F)CCl query = CC(F)C useChirality = 0 149: res sub = 0 size=0 149: MCS: [#6]-[#6]-[#9] 3 atoms, 2 bonds 149: test target = O[C@H](F)CCl query = CC(F)C useChirality = 1 149: res sub = 0 size=0 149: MCS: [#6]-[#6]-[#9] 3 atoms, 2 bonds 149: test target = O[C@H](F)CCl query = OC(F)C useChirality = 0 149: res sub = 1 size=4 149: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 149: test target = O[C@H](F)CCl query = OC(F)C useChirality = 1 149: res sub = 1 size=4 149: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 149: test target = O[C@H](F)CCl query = O[C@H](F)C useChirality = 0 149: res sub = 1 size=4 149: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 149: test target = O[C@H](F)CCl query = O[C@H](F)C useChirality = 1 149: res sub = 1 size=4 149: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 149: test target = O[C@H](F)CCl query = O[C@@H](F)C useChirality = 0 149: res sub = 1 size=4 149: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 149: test target = O[C@H](F)CCl query = O[C@@H](F)C useChirality = 1 149: res sub = 0 size=0 149: MCS: [#8]-[#6]-[#6] 3 atoms, 2 bonds 149: test target = OC(F)CCl query = OC(F)C useChirality = 0 149: res sub = 1 size=4 149: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 149: test target = OC(F)CCl query = OC(F)C useChirality = 1 149: res sub = 1 size=4 149: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 149: test target = OC(F)CCl query = O[C@H](F)C useChirality = 0 149: res sub = 1 size=4 149: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 149: test target = OC(F)CCl query = O[C@H](F)C useChirality = 1 149: res sub = 0 size=0 149: MCS: [#9] 1 atoms, 0 bonds 149: test target = OC(F)CCl query = O[C@@H](F)C useChirality = 0 149: res sub = 1 size=4 149: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 149: test target = OC(F)CCl query = O[C@@H](F)C useChirality = 1 149: res sub = 0 size=0 149: MCS: [#9] 1 atoms, 0 bonds 149: test target = O[C@H](F)CCl query = O[C@H]C useChirality = 0 149: res sub = 1 size=3 149: MCS: [#8]-[#6]-[#6] 3 atoms, 2 bonds 149: test target = O[C@H](F)CCl query = O[C@H]C useChirality = 1 149: res sub = 1 size=3 149: MCS: [#8]-[#6]-[#6] 3 atoms, 2 bonds 149: test target = O[C@H](F)CCl query = O[C@@H]C useChirality = 0 149: res sub = 1 size=3 149: MCS: [#8]-[#6]-[#6] 3 atoms, 2 bonds 149: test target = O[C@H](F)CCl query = O[C@@H]C useChirality = 1 149: res sub = 1 size=3 149: MCS: [#8]-[#6]-[#6] 3 atoms, 2 bonds 149: 149: 0. <<<<<<<<< actual MCS: [#6]-[#6]-[#6] 3 atoms, 2 bonds >>>>>>> 149: test target = CC[C@H](F)Cl query = CC[C@H] useChirality = 0 149: res sub = 1 size=3 149: MCS: [#6]-[#6]-[#6] 3 atoms, 2 bonds 149: test target = CC[C@H](F)Cl query = CC[C@H] useChirality = 1 149: res sub = 1 size=3 149: MCS: [#6]-[#6]-[#6] 3 atoms, 2 bonds 149: done 152: Randomness seeded to: 4042498604 152: =============================================================================== 152: All tests passed (304 assertions in 9 test cases) 152: 149/222 Test #152: molHashCatchTest ....................... Passed 0.27 sec test 153 Start 153: pyMolHash 153: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/MolHash/Wrap/testMolHash.py" 153: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash/Wrap 153: Test timeout computed to be: 1500 150/222 Test #153: pyMolHash ..............................***Exception: SegFault 2.12 sec test 154 Start 154: testMMPA 154: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MMPA/testMMPA 154: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MMPA 154: Test timeout computed to be: 1500 154: 154: TEST mol: Case1 Cc1ccccc1NC(=O)[C:7](C)[NH+]1CCCC1 Case1 154: Time elapsed 0.019499 seconds 154: 1: res= NULL,C[*:1].C[C:2](C(=O)Nc1ccccc1[*:1])[NH+]1CCCC1 154: 1: NOREF. Reference data NOT LISTED in test case. 154: 2: res= c1ccc([*:2])c([*:1])c1,C[*:1].C[C:3](C(=O)N[*:2])[NH+]1CCCC1 154: 2: NOREF. Reference data NOT LISTED in test case. 154: 3: res= O=C(Nc1ccccc1[*:1])[*:2],C[*:1].C[C:3]([NH+]1CCCC1)[*:2] 154: 3: NOREF. Reference data NOT LISTED in test case. 154: 4: res= O=C(Nc1ccccc1[*:1])[C:0]([NH+]1CCCC1)[*:2],C[*:1].C[*:2] 154: 4: NOREF. Reference data NOT LISTED in test case. 154: 5: res= O=C(Nc1ccccc1[*:1])[C:0]([*:2])[*:3],C1CC[NH+]([*:3])C1.C[*:1].C[*:2] 154: 5: NOREF. Reference data NOT LISTED in test case. 154: 6: res= C[C:0](C(=O)Nc1ccccc1[*:1])[*:2],C1CC[NH+]([*:2])C1.C[*:1] 154: 6: NOREF. Reference data NOT LISTED in test case. 154: 7: res= NULL,C[C:2](C(=O)N[*:1])[NH+]1CCCC1.Cc1ccccc1[*:1] 154: 7: NOREF. Reference data NOT LISTED in test case. 154: 8: res= O=C(N[*:3])[*:1],C[C:2]([NH+]1CCCC1)[*:1].Cc1ccccc1[*:3] 154: 8: NOREF. Reference data NOT LISTED in test case. 154: 9: res= O=C(N[*:2])[C:0]([NH+]1CCCC1)[*:1],C[*:1].Cc1ccccc1[*:2] 154: 9: NOREF. Reference data NOT LISTED in test case. 154: 10: res= O=C(N[*:3])[C:0]([*:1])[*:2],C1CC[NH+]([*:2])C1.C[*:1].Cc1ccccc1[*:3] 154: 10: NOREF. Reference data NOT LISTED in test case. 154: 11: res= C[C:0](C(=O)N[*:2])[*:1],C1CC[NH+]([*:1])C1.Cc1ccccc1[*:2] 154: 11: NOREF. Reference data NOT LISTED in test case. 154: 12: res= NULL,C[C:2]([NH+]1CCCC1)[*:1].Cc1ccccc1NC(=O)[*:1] 154: 12: NOREF. Reference data NOT LISTED in test case. 154: 13: res= C1CC[NH+]([C:0]([*:1])[*:2])C1,C[*:1].Cc1ccccc1NC(=O)[*:2] 154: 13: NOREF. Reference data NOT LISTED in test case. 154: 14: res= [C:0]([*:1])([*:2])[*:3],C1CC[NH+]([*:3])C1.C[*:1].Cc1ccccc1NC(=O)[*:2] 154: 14: NOREF. Reference data NOT LISTED in test case. 154: 15: res= C[C:0]([*:1])[*:2],C1CC[NH+]([*:2])C1.Cc1ccccc1NC(=O)[*:1] 154: 15: NOREF. Reference data NOT LISTED in test case. 154: 16: res= NULL,C[*:1].Cc1ccccc1NC(=O)[C:2]([NH+]1CCCC1)[*:1] 154: 16: NOREF. Reference data NOT LISTED in test case. 154: 17: res= Cc1ccccc1NC(=O)[C:0]([*:1])[*:2],C1CC[NH+]([*:2])C1.C[*:1] 154: 17: NOREF. Reference data NOT LISTED in test case. 154: 18: res= NULL,C1CC[NH+]([*:1])C1.Cc1ccccc1NC(=O)[C:2](C)[*:1] 154: 18: NOREF. Reference data NOT LISTED in test case. 154: 154: --- UNMATCHED Reference RESULTS: --- 154: 1: Cc1ccccc1NC(=O)[C:7](C)[NH+]1CCCC1,Case1,[*:1][C:7]([*:2])[*:3],C1CC[NH+]([*:3])C1.C[*:2].Cc1ccccc1NC(=O)[*:1] 154: ----------------------------------- 154: Time elapsed 0.007268 seconds 154: 154: TEST 1 mol: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-] ZINC21984717 154: 1: NULL, C[*:1].O=C(NCCO)c1c([*:1])n([O-])c2ccccc2[n+]1=O 154: 1: PASSED. matchedRefRes = 4 154: 2: O=[n+]1c([*:2])c([*:1])n([O-])c2ccccc21, C[*:1].O=C(NCCO)[*:2] 154: 2: PASSED. matchedRefRes = 1 154: 3: O=C(N[*:2])c1c([*:1])n([O-])c2ccccc2[n+]1=O, C[*:1].OCC[*:2] 154: 3: PASSED. matchedRefRes = 6 154: 4: O=C(NC[*:2])c1c([*:1])n([O-])c2ccccc2[n+]1=O, C[*:1].OC[*:2] 154: 4: PASSED. matchedRefRes = 13 154: 5: O=C(NCC[*:2])c1c([*:1])n([O-])c2ccccc2[n+]1=O, C[*:1].O[*:2] 154: 5: PASSED. matchedRefRes = 12 154: 6: NULL, Cc1c([*:1])[n+](=O)c2ccccc2n1[O-].O=C(NCCO)[*:1] 154: 6: PASSED. matchedRefRes = 10 154: 7: O=C(N[*:1])[*:2], Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].OCC[*:1] 154: 7: NOREF. Reference data NOT LISTED in test case.O=C(N[*:1])[*:2],Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].OCC[*:1] 154: 8: O=C(NC[*:1])[*:2], Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].OC[*:1] 154: 8: NOREF. Reference data NOT LISTED in test case.O=C(NC[*:1])[*:2],Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].OC[*:1] 154: 9: O=C(NCC[*:1])[*:2], Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].O[*:1] 154: 9: NOREF. Reference data NOT LISTED in test case.O=C(NCC[*:1])[*:2],Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].O[*:1] 154: 10: NULL, Cc1c(C(=O)N[*:1])[n+](=O)c2ccccc2n1[O-].OCC[*:1] 154: 10: PASSED. matchedRefRes = 3 154: 11: C([*:1])[*:2], Cc1c(C(=O)N[*:2])[n+](=O)c2ccccc2n1[O-].OC[*:1] 154: 11: NOREF. Reference data NOT LISTED in test case.C([*:1])[*:2],Cc1c(C(=O)N[*:2])[n+](=O)c2ccccc2n1[O-].OC[*:1] 154: 12: C(C[*:2])[*:1], Cc1c(C(=O)N[*:1])[n+](=O)c2ccccc2n1[O-].O[*:2] 154: 12: PASSED. matchedRefRes = 8 154: 13: NULL, Cc1c(C(=O)NC[*:1])[n+](=O)c2ccccc2n1[O-].OC[*:1] 154: 13: PASSED. matchedRefRes = 9 154: 14: C([*:1])[*:2], Cc1c(C(=O)NC[*:1])[n+](=O)c2ccccc2n1[O-].O[*:2] 154: 14: PASSED. matchedRefRes = 11 154: 15: NULL, Cc1c(C(=O)NCC[*:1])[n+](=O)c2ccccc2n1[O-].O[*:1] 154: 15: PASSED. matchedRefRes = 2 154: 154: --- UNMATCHED Reference RESULTS: --- 154: 5: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-],ZINC21984717,C([*:1])[*:2],Cc1c(C(=O)N[*:1])[n+](=O)c2ccccc2n1[O-].OC[*:2] 154: 7: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-],ZINC21984717,O=C(N[*:2])[*:1],Cc1c([*:1])[n+](=O)c2ccccc2n1[O-].OCC[*:2] 154: 14: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-],ZINC21984717,O=C(NCC[*:2])[*:1],Cc1c([*:1])[n+](=O)c2ccccc2n1[O-].O[*:2] 154: 15: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-],ZINC21984717,O=C(NC[*:2])[*:1],Cc1c([*:1])[n+](=O)c2ccccc2n1[O-].OC[*:2] 154: ----------------------------------- 154: 154: TEST mol: ZINC21984717 Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-] ZINC21984717 154: Time elapsed 0.006363 seconds 154: 1: res= NULL,C[*:1].O=C(NCCO)c1c([*:1])n([O-])c2ccccc2[n+]1=O 154: 1: PASSED. matchedRefRes = 4 154: 2: res= O=[n+]1c([*:2])c([*:1])n([O-])c2ccccc21,C[*:1].O=C(NCCO)[*:2] 154: 2: PASSED. matchedRefRes = 1 154: 3: res= O=C(N[*:2])c1c([*:1])n([O-])c2ccccc2[n+]1=O,C[*:1].OCC[*:2] 154: 3: PASSED. matchedRefRes = 6 154: 4: res= O=C(NC[*:2])c1c([*:1])n([O-])c2ccccc2[n+]1=O,C[*:1].OC[*:2] 154: 4: PASSED. matchedRefRes = 13 154: 5: res= O=C(NCC[*:2])c1c([*:1])n([O-])c2ccccc2[n+]1=O,C[*:1].O[*:2] 154: 5: PASSED. matchedRefRes = 12 154: 6: res= NULL,Cc1c([*:1])[n+](=O)c2ccccc2n1[O-].O=C(NCCO)[*:1] 154: 6: PASSED. matchedRefRes = 10 154: 7: res= O=C(N[*:1])[*:2],Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].OCC[*:1] 154: 7: NOREF. Reference data NOT LISTED in test case. 154: 8: res= O=C(NC[*:1])[*:2],Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].OC[*:1] 154: 8: NOREF. Reference data NOT LISTED in test case. 154: 9: res= O=C(NCC[*:1])[*:2],Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].O[*:1] 154: 9: NOREF. Reference data NOT LISTED in test case. 154: 10: res= NULL,Cc1c(C(=O)N[*:1])[n+](=O)c2ccccc2n1[O-].OCC[*:1] 154: 10: PASSED. matchedRefRes = 3 154: 11: res= C([*:1])[*:2],Cc1c(C(=O)N[*:2])[n+](=O)c2ccccc2n1[O-].OC[*:1] 154: 11: NOREF. Reference data NOT LISTED in test case. 154: 12: res= C(C[*:2])[*:1],Cc1c(C(=O)N[*:1])[n+](=O)c2ccccc2n1[O-].O[*:2] 154: 12: PASSED. matchedRefRes = 8 154: 13: res= NULL,Cc1c(C(=O)NC[*:1])[n+](=O)c2ccccc2n1[O-].OC[*:1] 154: 13: PASSED. matchedRefRes = 9 154: 14: res= C([*:1])[*:2],Cc1c(C(=O)NC[*:1])[n+](=O)c2ccccc2n1[O-].O[*:2] 154: 14: PASSED. matchedRefRes = 11 154: 15: res= NULL,Cc1c(C(=O)NCC[*:1])[n+](=O)c2ccccc2n1[O-].O[*:1] 154: 15: PASSED. matchedRefRes = 2 154: 154: --- UNMATCHED Reference RESULTS: --- 154: 5: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-],ZINC21984717,C([*:1])[*:2],Cc1c(C(=O)N[*:1])[n+](=O)c2ccccc2n1[O-].OC[*:2] 154: 7: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-],ZINC21984717,O=C(N[*:2])[*:1],Cc1c([*:1])[n+](=O)c2ccccc2n1[O-].OCC[*:2] 154: 14: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-],ZINC21984717,O=C(NCC[*:2])[*:1],Cc1c([*:1])[n+](=O)c2ccccc2n1[O-].O[*:2] 154: 15: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-],ZINC21984717,O=C(NC[*:2])[*:1],Cc1c([*:1])[n+](=O)c2ccccc2n1[O-].OC[*:2] 154: ----------------------------------- 154: 154: TEST mol: Case1-SIMPLE CC(N1CC1)C(=O) Case1-SIMPLE 154: Time elapsed 0.001842 seconds 154: 1: res= NULL,C[*:1].O=CC(N1CC1)[*:1] 154: 1: PASSED. matchedRefRes = 2 154: 2: res= O=CC([*:1])[*:2],C1CN1[*:2].C[*:1] 154: 2: PASSED. matchedRefRes = 3 154: 3: res= C([*:1])([*:2])[*:3],C1CN1[*:3].C[*:1].O=C[*:2] 154: 3: NOREF. Reference data NOT LISTED in test case. 154: 4: res= C1CN1C([*:1])[*:2],C[*:1].O=C[*:2] 154: 4: PASSED. matchedRefRes = 4 154: 5: res= NULL,C1CN1[*:1].CC(C=O)[*:1] 154: 5: PASSED. matchedRefRes = 5 154: 6: res= CC([*:1])[*:2],C1CN1[*:2].O=C[*:1] 154: 6: NOREF. Reference data NOT LISTED in test case. 154: 7: res= NULL,CC(N1CC1)[*:1].O=C[*:1] 154: 7: PASSED. matchedRefRes = 7 154: 154: --- UNMATCHED Reference RESULTS: --- 154: 1: CC(N1CC1)C(=O),Case1-SIMPLE,C([*:1])([*:2])[*:3],C1CN1[*:2].C[*:1].O=C[*:3] 154: 6: CC(N1CC1)C(=O),Case1-SIMPLE,CC([*:1])[*:2],C1CN1[*:1].O=C[*:2] 154: ----------------------------------- 154: 154: TEST mol: Case1 Cc1ccccc1NC(=O)[C:7](C)[NH+]1CCCC1 Case1 154: Time elapsed 0.006919 seconds 154: 1: res= NULL,C[*:1].C[C:2](C(=O)Nc1ccccc1[*:1])[NH+]1CCCC1 154: 1: NOREF. Reference data NOT LISTED in test case. 154: 2: res= c1ccc([*:2])c([*:1])c1,C[*:1].C[C:3](C(=O)N[*:2])[NH+]1CCCC1 154: 2: NOREF. Reference data NOT LISTED in test case. 154: 3: res= O=C(Nc1ccccc1[*:1])[*:2],C[*:1].C[C:3]([NH+]1CCCC1)[*:2] 154: 3: NOREF. Reference data NOT LISTED in test case. 154: 4: res= O=C(Nc1ccccc1[*:1])[C:0]([NH+]1CCCC1)[*:2],C[*:1].C[*:2] 154: 4: NOREF. Reference data NOT LISTED in test case. 154: 5: res= O=C(Nc1ccccc1[*:1])[C:0]([*:2])[*:3],C1CC[NH+]([*:3])C1.C[*:1].C[*:2] 154: 5: NOREF. Reference data NOT LISTED in test case. 154: 6: res= C[C:0](C(=O)Nc1ccccc1[*:1])[*:2],C1CC[NH+]([*:2])C1.C[*:1] 154: 6: NOREF. Reference data NOT LISTED in test case. 154: 7: res= NULL,C[C:2](C(=O)N[*:1])[NH+]1CCCC1.Cc1ccccc1[*:1] 154: 7: NOREF. Reference data NOT LISTED in test case. 154: 8: res= O=C(N[*:3])[*:1],C[C:2]([NH+]1CCCC1)[*:1].Cc1ccccc1[*:3] 154: 8: NOREF. Reference data NOT LISTED in test case. 154: 9: res= O=C(N[*:2])[C:0]([NH+]1CCCC1)[*:1],C[*:1].Cc1ccccc1[*:2] 154: 9: NOREF. Reference data NOT LISTED in test case. 154: 10: res= O=C(N[*:3])[C:0]([*:1])[*:2],C1CC[NH+]([*:2])C1.C[*:1].Cc1ccccc1[*:3] 154: 10: NOREF. Reference data NOT LISTED in test case. 154: 11: res= C[C:0](C(=O)N[*:2])[*:1],C1CC[NH+]([*:1])C1.Cc1ccccc1[*:2] 154: 11: NOREF. Reference data NOT LISTED in test case. 154: 12: res= NULL,C[C:2]([NH+]1CCCC1)[*:1].Cc1ccccc1NC(=O)[*:1] 154: 12: NOREF. Reference data NOT LISTED in test case. 154: 13: res= C1CC[NH+]([C:0]([*:1])[*:2])C1,C[*:1].Cc1ccccc1NC(=O)[*:2] 154: 13: NOREF. Reference data NOT LISTED in test case. 154: 14: res= [C:0]([*:1])([*:2])[*:3],C1CC[NH+]([*:3])C1.C[*:1].Cc1ccccc1NC(=O)[*:2] 154: 14: NOREF. Reference data NOT LISTED in test case. 154: 15: res= C[C:0]([*:1])[*:2],C1CC[NH+]([*:2])C1.Cc1ccccc1NC(=O)[*:1] 154: 15: NOREF. Reference data NOT LISTED in test case. 154: 16: res= NULL,C[*:1].Cc1ccccc1NC(=O)[C:2]([NH+]1CCCC1)[*:1] 154: 16: NOREF. Reference data NOT LISTED in test case. 154: 17: res= Cc1ccccc1NC(=O)[C:0]([*:1])[*:2],C1CC[NH+]([*:2])C1.C[*:1] 154: 17: NOREF. Reference data NOT LISTED in test case. 154: 18: res= NULL,C1CC[NH+]([*:1])C1.Cc1ccccc1NC(=O)[C:2](C)[*:1] 154: 18: NOREF. Reference data NOT LISTED in test case. 154: 154: --- UNMATCHED Reference RESULTS: --- 154: 1: Cc1ccccc1NC(=O)[C:7](C)[NH+]1CCCC1,Case1,[*:1][C:7]([*:2])[*:3],C1CC[NH+]([*:3])C1.C[*:2].Cc1ccccc1NC(=O)[*:1] 154: ----------------------------------- 154: 154: TEST mol: Case2 O=C(OCc1ccccc1)C(O)c1ccccc1 Case2 154: Time elapsed 0.007535 seconds 154: 1: res= NULL,O=C(O[*:1])C(O)c1ccccc1.c1ccc(C[*:1])cc1 154: 1: NOREF. Reference data NOT LISTED in test case. 154: 2: res= C([*:1])[*:2],O=C(O[*:1])C(O)c1ccccc1.c1ccc([*:2])cc1 154: 2: NOREF. Reference data NOT LISTED in test case. 154: 3: res= O=C(O[*:2])[*:1],OC(c1ccccc1)[*:1].c1ccc(C[*:2])cc1 154: 3: NOREF. Reference data NOT LISTED in test case. 154: 4: res= O=C(O[*:1])C(c1ccccc1)[*:2],O[*:2].c1ccc(C[*:1])cc1 154: 4: NOREF. Reference data NOT LISTED in test case. 154: 5: res= O=C(O[*:1])C([*:2])[*:3],O[*:2].c1ccc(C[*:1])cc1.c1ccc([*:3])cc1 154: 5: NOREF. Reference data NOT LISTED in test case. 154: 6: res= O=C(O[*:1])C(O)[*:2],c1ccc(C[*:1])cc1.c1ccc([*:2])cc1 154: 6: NOREF. Reference data NOT LISTED in test case. 154: 7: res= NULL,O=C(OC[*:1])C(O)c1ccccc1.c1ccc([*:1])cc1 154: 7: NOREF. Reference data NOT LISTED in test case. 154: 8: res= O=C(OC[*:2])[*:1],OC(c1ccccc1)[*:1].c1ccc([*:2])cc1 154: 8: NOREF. Reference data NOT LISTED in test case. 154: 9: res= O=C(OC[*:2])C(c1ccccc1)[*:1],O[*:1].c1ccc([*:2])cc1 154: 9: NOREF. Reference data NOT LISTED in test case. 154: 10: res= O=C(OC[*:2])C([*:1])[*:3],O[*:1].c1ccc([*:2])cc1.c1ccc([*:3])cc1 154: 10: NOREF. Reference data NOT LISTED in test case. 154: 11: res= O=C(OC[*:1])C(O)[*:2],c1ccc([*:1])cc1.c1ccc([*:2])cc1 154: 11: NOREF. Reference data NOT LISTED in test case. 154: 12: res= NULL,O=C(OCc1ccccc1)[*:1].OC(c1ccccc1)[*:1] 154: 12: NOREF. Reference data NOT LISTED in test case. 154: 13: res= c1ccc(C([*:1])[*:2])cc1,O=C(OCc1ccccc1)[*:1].O[*:2] 154: 13: NOREF. Reference data NOT LISTED in test case. 154: 14: res= C([*:1])([*:2])[*:3],O=C(OCc1ccccc1)[*:1].O[*:2].c1ccc([*:3])cc1 154: 14: PASSED. matchedRefRes = 1 154: 15: res= OC([*:1])[*:2],O=C(OCc1ccccc1)[*:1].c1ccc([*:2])cc1 154: 15: NOREF. Reference data NOT LISTED in test case. 154: 16: res= NULL,O=C(OCc1ccccc1)C(c1ccccc1)[*:1].O[*:1] 154: 16: NOREF. Reference data NOT LISTED in test case. 154: 17: res= O=C(OCc1ccccc1)C([*:1])[*:2],O[*:1].c1ccc([*:2])cc1 154: 17: NOREF. Reference data NOT LISTED in test case. 154: 18: res= NULL,O=C(OCc1ccccc1)C(O)[*:1].c1ccc([*:1])cc1 154: 18: NOREF. Reference data NOT LISTED in test case. 154: 154: --- ALL PASSED --- 154: ----------------------------------- 154: 5 TEST CASES FAILED 151/222 Test #154: testMMPA ............................... Passed 0.51 sec test 155 Start 155: pyMMPA 155: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/MMPA/Wrap/testMMPA.py" 155: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MMPA/Wrap 155: Test timeout computed to be: 1500 152/222 Test #155: pyMMPA .................................***Exception: SegFault 1.70 sec test 156 Start 156: testRascalMCES 156: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RascalMCES/testRascalMCES 156: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RascalMCES 156: Test timeout computed to be: 1500 149: [01:23:05] The provided InitialSeed is not an MCS and will be ignored 156: Randomness seeded to: 3592146557 156: Timed out after 11 seconds. 133: [01:23:42] UFFTYPER: Unrecognized atom type: S_6+6 (0) 133: [01:23:42] UFFTYPER: Warning: hybridization set to SP3 for atom 0 133: [01:23:42] UFFTYPER: Unrecognized charge state for atom: 0 133: =============================================================================== 133: All tests passed (448 assertions in 10 test cases) 133: 153/222 Test #133: distGeomHelpersCatch ................... Passed 196.74 sec test 157 Start 157: testRascalCluster 157: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RascalMCES/testRascalCluster 157: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RascalMCES 157: Test timeout computed to be: 1500 149: MCS MatchStereo false : [#6]-[#6]-[#6]=[#6]-[#6]-[#6] 6 atoms, 5 bonds 149: MCS MatchStereo true : [#6]-[#6]-[#6] 3 atoms, 2 bonds 149: MCS MatchStereo false : [#6]-[#6]-[#6]=[#6]-[#6]-[#6] 6 atoms, 5 bonds 149: MCS MatchStereo true : [#6]-[#6]-[#6] 3 atoms, 2 bonds 149: MCS MatchStereo false : [#6]-[#6]-[#6]=[#6]-[#6]-[#6] 6 atoms, 5 bonds 149: MCS MatchStereo true : [#6]-[#6]-[#6]=[#6]-[#6]-[#6] 6 atoms, 5 bonds 149: TOTAL Time elapsed 62.66 seconds 154/222 Test #149: testFMCS ............................... Passed 62.77 sec test 158 Start 158: pyMolDraw2D 158: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/RascalMCES/Wrap/testRascalMCES.py" 158: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RascalMCES/Wrap 158: Test timeout computed to be: 1500 155/222 Test #158: pyMolDraw2D ............................***Exception: SegFault 2.00 sec test 159 Start 159: testCIPLabeler 159: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler/testCIPLabeler 159: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler 159: Test timeout computed to be: 1500 159: Randomness seeded to: 1995912720 159: [01:23:57] non kekulizable aromatic bond being treated as bond order 1 159: [01:23:57] non kekulizable aromatic bond being treated as bond order 1 159: [01:23:57] non kekulizable aromatic bond being treated as bond order 1 159: [01:23:57] non kekulizable aromatic bond being treated as bond order 1 159: [01:23:57] non kekulizable aromatic bond being treated as bond order 1 159: [01:23:57] non kekulizable aromatic bond being treated as bond order 1 159: =============================================================================== 159: All tests passed (5977 assertions in 13 test cases) 159: 156/222 Test #159: testCIPLabeler ......................... Passed 0.83 sec test 160 Start 160: pyCIPLabelsWrapTest 160: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/CIPLabeler/Wrap/pyCIPLabelWrapTest.py" 160: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler/Wrap 160: Test timeout computed to be: 1500 157/222 Test #160: pyCIPLabelsWrapTest ....................***Exception: SegFault 2.20 sec test 161 Start 161: pyCIPLabelsValidation 161: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/CIPLabeler/Wrap/pyCIPLabelsValidation.py" 161: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CIPLabeler/Wrap 161: Test timeout computed to be: 1500 158/222 Test #161: pyCIPLabelsValidation ..................***Exception: SegFault 2.09 sec test 162 Start 162: deprotectTest 162: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Deprotect/deprotectTest 162: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Deprotect 162: Test timeout computed to be: 1500 162: Randomness seeded to: 3939010106 162: =============================================================================== 162: All tests passed (111 assertions in 3 test cases) 162: 159/222 Test #162: deprotectTest .......................... Passed 0.32 sec test 163 Start 163: pyDeprotect 163: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/Deprotect/Wrap/rough_test.py" 163: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Deprotect/Wrap 163: Test timeout computed to be: 1500 160/222 Test #163: pyDeprotect ............................***Exception: SegFault 2.18 sec test 164 Start 164: testReducedGraphs 164: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ReducedGraphs/testReducedGraphs 164: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ReducedGraphs 164: Test timeout computed to be: 1500 164: Size: 315 [ 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0.3, 1, 0.3, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 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0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0.3, 1, 0.3, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, ] 164: 161/222 Test #164: testReducedGraphs ...................... Passed 0.30 sec test 165 Start 165: pyReducedGraphs 165: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/ReducedGraphs/Wrap/testReducedGraphs.py" 165: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ReducedGraphs/Wrap 165: Test timeout computed to be: 1500 162/222 Test #165: pyReducedGraphs ........................***Exception: SegFault 1.99 sec test 166 Start 166: trajectoryTest 166: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Trajectory/trajectoryTest 166: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Trajectory 166: Test timeout computed to be: 1500 163/222 Test #166: trajectoryTest ......................... Passed 1.37 sec test 167 Start 167: substructLibraryTest 167: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary/substructLibraryTest 167: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary 167: Test timeout computed to be: 1500 167: [01:24:08] ------------------------------------- 167: [01:24:08] Test1 167: [01:24:09] done 167: [01:24:09] ------------------------------------- 167: [01:24:09] Test2 167: [01:24:09] done 167: [01:24:09] ------------------------------------- 167: [01:24:09] Test3 (stereo options) 167: [01:24:10] Done (stereo options) 167: [01:24:10] ------------------------------------- 167: [01:24:10] Test4 (trusted smiles) 167: [01:24:10] Done (trusted smiles) 167: [01:24:10] ------------------------------------- 167: [01:24:10] Testing C++ docs 167: [01:24:10] Done (C++ doc tests) 167: [01:24:10] ------------------------------------- 167: [01:24:10] Testing C++ ring query: PatternHolder 167: [01:24:10] Done (C++ ring query tests) 167: [01:24:10] ------------------------------------- 167: [01:24:10] Testing C++ ring query: TautomerPatternHolder 167: [01:24:10] Done (C++ ring query tests) 167: [01:24:10] ------------------------------------- 167: [01:24:10] Add Patterns 167: [01:24:17] ------------------------------------- 167: [01:24:17] testing PatternHolder 167: [01:24:17] ------------------------------------- 167: [01:24:17] testing TautomerPatternHolder 167: [01:24:18] ------------------------------------- 167: [01:24:18] testSegFaultInHolder 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: '[01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: dsafsdf' 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] SMILES Parse Error: syntax error while parsing: dsafsdf 167: [01:24:18] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 167: [01:24:18] ------------------------------------- 167: [01:24:18] Results do not depend on numThreads 156: Timed out after 71 seconds. 167: [01:24:33] ------------------------------------- 167: [01:24:33] Results do not depend on numThreads (all same) 167: [01:24:33] ------------------------------------- 167: [01:24:33] testTautomerQueries 167: [01:24:33] Pattern fingerprints for tautomersearch aren't tautomer fingerprints, ignoring... 167: [01:24:33] ------------------------------------- 167: [01:24:33] github3881 recursive smarts with rings 164/222 Test #167: substructLibraryTest ................... Passed 25.60 sec test 168 Start 168: substructLibraryCatchTest 168: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary/substructLibraryCatchTest 168: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary 168: Test timeout computed to be: 1500 157: Randomness seeded to: 924777465 157: /<>/Code/GraphMol/RascalMCES/data/chembl_1907596.smi 168: Randomness seeded to: 247172957 168: =============================================================================== 168: All tests passed (171 assertions in 5 test cases) 168: 165/222 Test #168: substructLibraryCatchTest .............. Passed 1.60 sec test 169 Start 169: pySubstructLibrary 169: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/SubstructLibrary/Wrap/rough_test.py" 169: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary/Wrap 169: Test timeout computed to be: 1500 166/222 Test #169: pySubstructLibrary .....................***Exception: SegFault 2.18 sec test 170 Start 170: testRGroupDecomp 170: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition/testRGroupDecomp 170: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition 170: Test timeout computed to be: 1500 170: [01:24:39] Non terminal R group defined. To allow set allowNonTerminalRGroups in RGroupDecompositionParameters 170: [01:24:39] WARNING: not removing hydrogen atom with dummy atom neighbors 170: iterative 170: bulk 170: bulk, no symmetry 170: [01:25:00] Relabelling existing label 170: Best mapping 167/222 Test #170: testRGroupDecomp ....................... Passed 25.59 sec test 171 Start 171: testRGroupDecompInternals 171: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition/testRGroupDecompInternals 171: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition 171: Test timeout computed to be: 1500 171: [01:25:03] WARNING: not removing hydrogen atom with dummy atom neighbors 171: [01:25:03] WARNING: not removing hydrogen atom with dummy atom neighbors 171: [01:25:03] WARNING: not removing hydrogen atom with dummy atom neighbors 171: [01:25:03] WARNING: not removing hydrogen atom with dummy atom neighbors 171: [01:25:03] WARNING: not removing hydrogen atom with dummy atom neighbors 171: [01:25:03] WARNING: not removing hydrogen atom with dummy atom neighbors 171: [01:25:03] WARNING: not removing hydrogen atom with dummy atom neighbors 171: [01:25:03] WARNING: not removing hydrogen atom with dummy atom neighbors 171: [01:25:03] WARNING: not removing hydrogen atom with dummy atom neighbors 171: [01:25:03] WARNING: not removing hydrogen atom with dummy atom neighbors 171: [01:25:03] WARNING: not removing hydrogen atom with dummy atom neighbors 171: [01:25:03] WARNING: not removing hydrogen atom with dummy atom neighbors 171: [01:25:03] WARNING: not removing hydrogen atom with dummy atom neighbors 171: [01:25:03] WARNING: not removing hydrogen atom with dummy atom neighbors 171: [01:25:03] WARNING: not removing hydrogen atom with dummy atom neighbors 171: [01:25:03] WARNING: not removing hydrogen atom with dummy atom neighbors 171: [01:25:03] WARNING: not removing hydrogen atom with dummy atom neighbors 171: [01:25:03] WARNING: not removing hydrogen atom with dummy atom neighbors 171: [01:25:03] WARNING: not removing hydrogen atom with dummy atom neighbors 171: [01:25:03] WARNING: not removing hydrogen atom with dummy atom neighbors 171: [01:25:03] WARNING: not removing hydrogen atom with dummy atom neighbors 168/222 Test #171: testRGroupDecompInternals .............. Passed 0.17 sec test 172 Start 172: rgroupCatchTests 172: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition/rgroupCatchTests 172: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition 172: Test timeout computed to be: 1500 172: Randomness seeded to: 1389546556 172: =============================================================================== 172: All tests passed (203 assertions in 13 test cases) 172: 169/222 Test #172: rgroupCatchTests ....................... Passed 0.99 sec test 173 Start 173: pyRGroupDecomposition 173: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/RGroupDecomposition/Wrap/test_rgroups.py" 173: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition/Wrap 173: Test timeout computed to be: 1500 170/222 Test #173: pyRGroupDecomposition ..................***Exception: SegFault 2.00 sec test 174 Start 174: molInterchangeTest1 174: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange/molInterchangeTest1 174: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange 174: Test timeout computed to be: 1500 174: [01:25:06] test1: basics 174: [01:25:06] done 174: [01:25:06] test2: basic writing 174: {"rdkitjson":{"version":11},"defaults":{"atom":{"z":6,"impHs":0,"chg":0,"nRad":0,"isotope":0,"stereo":"unspecified"},"bond":{"bo":1,"stereo":"unspecified"}},"molecules":[{"name":"mol1 name","atoms":[{"impHs":3},{"impHs":3}],"bonds":[{"atoms":[0,1]}],"extensions":[{"name":"rdkitRepresentation","formatVersion":2,"toolkitVersion":"2023.09.3","cipRanks":[0,0]}]}]} 174: {"rdkitjson":{"version":11},"defaults":{"atom":{"z":6,"impHs":0,"chg":0,"nRad":0,"isotope":0,"stereo":"unspecified"},"bond":{"bo":1,"stereo":"unspecified"}},"molecules":[{"name":"test mol","atoms":[{"z":9},{"stereo":"cw"},{"z":17},{"z":8,"impHs":1},{"impHs":3}],"bonds":[{"atoms":[0,1]},{"atoms":[1,2]},{"atoms":[1,3]},{"atoms":[1,4]}],"extensions":[{"name":"rdkitRepresentation","formatVersion":2,"toolkitVersion":"2023.09.3","cipRanks":[3,1,4,2,0],"cipCodes":[[1,"S"]]}]}]} 174: {"rdkitjson":{"version":11},"defaults":{"atom":{"z":6,"impHs":0,"chg":0,"nRad":0,"isotope":0,"stereo":"unspecified"},"bond":{"bo":1,"stereo":"unspecified"}},"molecules":[{"name":"test mol","atoms":[{"impHs":1},{"impHs":1},{"impHs":1},{"impHs":1},{"impHs":1},{"impHs":1}],"bonds":[{"bo":2,"atoms":[0,1]},{"atoms":[1,2]},{"bo":2,"atoms":[2,3]},{"atoms":[3,4]},{"bo":2,"atoms":[4,5]},{"atoms":[5,0]}],"extensions":[{"name":"rdkitRepresentation","formatVersion":2,"toolkitVersion":"2023.09.3","aromaticAtoms":[0,1,2,3,4,5],"aromaticBonds":[0,1,2,3,4,5],"cipRanks":[0,0,0,0,0,0],"atomRings":[[0,5,4,3,2,1]]}]}]} 174: {"rdkitjson":{"version":11},"defaults":{"atom":{"z":6,"impHs":0,"chg":0,"nRad":0,"isotope":0,"stereo":"unspecified"},"bond":{"bo":1,"stereo":"unspecified"}},"molecules":[{"name":"test mol","atoms":[{"impHs":3},{"impHs":2},{},{},{"z":7,"impHs":2},{"impHs":1},{},{"impHs":3},{"z":7},{"impHs":1}],"bonds":[{"atoms":[0,1]},{"atoms":[1,2]},{"bo":2,"atoms":[2,3]},{"atoms":[3,4]},{"atoms":[3,5]},{"bo":2,"atoms":[5,6]},{"atoms":[6,7]},{"atoms":[6,8]},{"bo":2,"atoms":[8,9]},{"atoms":[9,2]}],"extensions":[{"name":"rdkitRepresentation","formatVersion":2,"toolkitVersion":"2023.09.3","aromaticAtoms":[2,3,5,6,8,9],"aromaticBonds":[2,4,5,7,8,9],"cipRanks":[0,2,4,5,8,3,7,1,9,6],"atomRings":[[2,9,8,6,5,3]]}]}]} 174: [01:25:06] done 174: [01:25:06] test3: writing conformers 174: {"rdkitjson":{"version":11},"defaults":{"atom":{"z":6,"impHs":0,"chg":0,"nRad":0,"isotope":0,"stereo":"unspecified"},"bond":{"bo":1,"stereo":"unspecified"}},"molecules":[{"name":"example 2","atoms":[{"z":8},{"stereo":"cw"},{"z":17,"isotope":35},{"z":9},{"z":1},{"z":1}],"bonds":[{"atoms":[0,1]},{"atoms":[1,2]},{"atoms":[1,3]},{"atoms":[0,4]},{"atoms":[1,5]}],"conformers":[{"dim":2,"coords":[[-1.1987,-0.0452],[-0.3332,0.4555],[0.1659,1.322],[0.5332,-0.0438],[-2.0652,0.4541],[-0.8339,1.3212]]},{"dim":3,"coords":[[0.9553,-0.3743,-0.4679],[-0.3616,-0.131,-0.0794],[-0.5097,1.6255,0.1705],[-0.5778,-0.7919,1.1042],[1.5276,0.1063,0.1627],[-1.0339,-0.4345,-0.8902]]}],"extensions":[{"name":"rdkitRepresentation","formatVersion":2,"toolkitVersion":"2023.09.3","cipCodes":[[1,"S"]]},{"name":"partialCharges","generator":"RDKit","formatVersion":10,"generatorVersion":"2023.09.3","values":[-0.352,0.273,-0.055,-0.198,0.215,0.117]}]}]} 174: [01:25:06] done 174: [01:25:06] test4: writing properties 174: {"rdkitjson":{"version":11},"defaults":{"atom":{"z":6,"impHs":0,"chg":0,"nRad":0,"isotope":0,"stereo":"unspecified"},"bond":{"bo":1,"stereo":"unspecified"}},"molecules":[{"atoms":[{"impHs":3},{"impHs":3}],"bonds":[{"atoms":[0,1]}],"properties":{"foo_string":"bar","foo_int":1,"foo_double":1.2},"extensions":[{"name":"rdkitRepresentation","formatVersion":2,"toolkitVersion":"2023.09.3","cipRanks":[0,0]}]}]} 174: [01:25:06] done 174: [01:25:06] test5: writing partial charges 174: {"rdkitjson":{"version":11},"defaults":{"atom":{"z":6,"impHs":0,"chg":0,"nRad":0,"isotope":0,"stereo":"unspecified"},"bond":{"bo":1,"stereo":"unspecified"}},"molecules":[{"atoms":[{"impHs":3},{"z":8,"impHs":1}],"bonds":[{"atoms":[0,1]}],"extensions":[{"name":"rdkitRepresentation","formatVersion":2,"toolkitVersion":"2023.09.3","cipRanks":[0,1]},{"name":"partialCharges","generator":"RDKit","formatVersion":10,"generatorVersion":"2023.09.3","values":[0.5,-0.5]}]}]} 174: [01:25:06] testing parse options 174: [01:25:06] done 174: [01:25:06] testing github #2046: CIPRank values from JSONDataToMols are not unsigned 174: {"rdkitjson":{"version":11},"defaults":{"atom":{"z":6,"impHs":0,"chg":0,"nRad":0,"isotope":0,"stereo":"unspecified"},"bond":{"bo":1,"stereo":"unspecified"}},"molecules":[{"name":"test mol","atoms":[{"impHs":2},{"impHs":2},{"impHs":2},{"z":8},{"impHs":1,"stereo":"cw"},{"z":9}],"bonds":[{"atoms":[0,1]},{"atoms":[1,2]},{"atoms":[2,3]},{"atoms":[3,4]},{"atoms":[4,5]},{"atoms":[4,0]}],"extensions":[{"name":"rdkitRepresentation","formatVersion":2,"toolkitVersion":"2023.09.3","cipRanks":[1,0,2,4,3,5],"cipCodes":[[4,"S"]],"atomRings":[[0,1,2,3,4]]}]}]} 174: [01:25:06] done 174: [01:25:06] testing 'either' stereochemistry 174: [01:25:06] done 171/222 Test #174: molInterchangeTest1 .................... Passed 0.15 sec test 175 Start 175: molInterchangeCatchTest 175: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange/molInterchangeCatchTest 175: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange 175: Test timeout computed to be: 1500 175: Randomness seeded to: 313613661 175: [01:25:06] unrecognized bond type 12 set to zero while writing 175: [01:25:06] unrecognized bond type 0 set to zero while writing 175: =============================================================================== 175: All tests passed (117 assertions in 5 test cases) 175: 172/222 Test #175: molInterchangeCatchTest ................ Passed 0.14 sec test 176 Start 176: pyMolInterchange 176: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/MolInterchange/Wrap/testMolInterchange.py" 176: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange/Wrap 176: Test timeout computed to be: 1500 173/222 Test #176: pyMolInterchange .......................***Exception: SegFault 1.93 sec test 177 Start 177: testSLNParse 177: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse/testSLNParse 177: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse 177: Test timeout computed to be: 1500 177: [01:25:08] SLN Parse Error: syntax error while parsing: CH4[I=13] 177: [01:25:08] Failed parsing SLN 'CH4[I=13]' 177: [01:25:08] SLN Parser error: Atom ID 1 appears *after* its ring closure. 177: [01:25:08] SLN Parser error: Ring closure 1 does not have a corresponding opener. 177: [01:25:08] SLN Parse Error: syntax error while parsing: CH2(C@1H2)CH2(CH2CH2C[1]H2) 177: [01:25:08] Failed parsing SLN 'CH2(C@1H2)CH2(CH2CH2C[1]H2)' 177: [01:25:08] SLN Parse Error: syntax error while parsing: CH2(CH2[1])CH2(CH2CH2CH2@1) 177: [01:25:08] Failed parsing SLN 'CH2(CH2[1])CH2(CH2CH2CH2@1)' 177: [01:25:08] SLN Parse Error: syntax error while parsing: CH4 fff 177: [01:25:08] Failed parsing SLN 'CH4 fff' 177: [01:25:08] SLN Parse Error: syntax error while parsing: C[charge=+1] foo 177: [01:25:08] Failed parsing SLN 'C[charge=+1] foo' 177: [01:25:08] Query property 'is' ignored on non-query atom 177: [01:25:08] Query property 'is' ignored on non-query atom 174/222 Test #177: testSLNParse ........................... Passed 0.14 sec test 178 Start 178: pySLNParse 178: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/SLNParse/Wrap/testSLN.py" 178: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse/Wrap 178: Test timeout computed to be: 1500 175/222 Test #178: pySLNParse .............................***Exception: SegFault 2.02 sec test 179 Start 179: pyGraphMolWrap 179: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/Wrap/rough_test.py" 179: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap 179: Test timeout computed to be: 1500 176/222 Test #179: pyGraphMolWrap .........................***Exception: SegFault 2.77 sec test 180 Start 180: pyTestConformerWrap 180: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/Wrap/testConformer.py" 180: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap 180: Test timeout computed to be: 1500 177/222 Test #180: pyTestConformerWrap ....................***Exception: SegFault 1.91 sec test 181 Start 181: pyTestTrajectory 181: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/Wrap/testTrajectory.py" 181: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap 181: Test timeout computed to be: 1500 178/222 Test #181: pyTestTrajectory .......................***Exception: SegFault 1.87 sec test 182 Start 182: pyTestSGroups 182: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/Wrap/testSGroups.py" 182: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap 182: Test timeout computed to be: 1500 179/222 Test #182: pyTestSGroups ..........................***Exception: SegFault 1.77 sec test 183 Start 183: pyTestThreads 183: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/Wrap/testThreads.py" 183: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap 183: Test timeout computed to be: 1500 180/222 Test #183: pyTestThreads ..........................***Exception: SegFault 1.88 sec test 184 Start 184: pyTestMultithreadedMolSupplier 184: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/Wrap/testMultithreadedMolSupplier.py" 184: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap 184: Test timeout computed to be: 1500 132: [01:25:21] done 181/222 Test #184: pyTestMultithreadedMolSupplier .........***Exception: SegFault 2.24 sec test 185 Start 185: pyTestPropertyLists 185: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/Wrap/testPropertyLists.py" 185: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap 185: Test timeout computed to be: 1500 182/222 Test #185: pyTestPropertyLists ....................***Exception: SegFault 1.83 sec test 186 Start 186: pyCDXMLTest 186: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/Wrap/test_cdxml.py" 186: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap 186: Test timeout computed to be: 1500 183/222 Test #186: pyCDXMLTest ............................***Exception: SegFault 1.77 sec test 187 Start 187: molStandardizeTest 187: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/molStandardizeTest 187: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize 187: Test timeout computed to be: 1500 184/222 Test #187: molStandardizeTest ..................... Passed 2.54 sec test 188 Start 188: molNormalizeTest 188: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/molNormalizeTest 188: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize 188: Test timeout computed to be: 1500 188: [01:25:29] Can't kekulize mol. Unkekulized atoms: 3 7 8 9 188: [01:25:29] Initializing Normalizer 188: [01:25:29] Running Normalizer 188: [01:25:29] Rule applied: BrokenazidetoN=N+=N- 188: [01:25:29] Initializing Normalizer 188: [01:25:29] Running Normalizer 188: [01:25:29] Initializing Normalizer 188: [01:25:29] Running Normalizer 185/222 Test #188: molNormalizeTest ....................... Passed 0.43 sec test 189 Start 189: molValidateTest 189: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/molValidateTest 189: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize 189: Test timeout computed to be: 1500 186/222 Test #189: molValidateTest ........................ Passed 0.13 sec test 190 Start 190: molChargeTest 190: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/molChargeTest 190: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize 190: Test timeout computed to be: 1500 187/222 Test #190: molChargeTest .......................... Passed 0.16 sec test 191 Start 191: molTautomerTest 191: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/molTautomerTest 191: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize 191: Test timeout computed to be: 1500 191: [01:25:31] Tautomer enumeration stopped at 292 tautomers: max transforms reached 191: [01:25:32] Tautomer enumeration stopped at 292 tautomers: max transforms reached 191: [01:25:32] Tautomer enumeration stopped at 50 tautomers: max tautomers reached 191: [01:25:33] Tautomer enumeration stopped at 23 tautomers: canceled 191: Enumeration was canceled due to timeout (50 ms) 191: 375 191: Enumeration has completed 191: [01:25:36] Tautomer enumeration stopped at 21 tautomers: canceled 191: CN=c1cc[nH]cn1 191: CN=c1ccnc[nH]1 191: CNc1ccncn1 191: res: CNc1ccncn1 191: CN=c1cccc[nH]1 191: CNc1ccccn1 191: res: CNc1ccccn1 188/222 Test #191: molTautomerTest ........................ Passed 7.96 sec test 192 Start 192: molStandardizeSmallTest 192: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/molStandardizeSmallTest 192: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize 192: Test timeout computed to be: 1500 189/222 Test #192: molStandardizeSmallTest ................ Passed 0.13 sec test 193 Start 193: molFragmentTest 193: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/molFragmentTest 193: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize 193: Test timeout computed to be: 1500 193: [01:25:38] SMARTS Parse Error: syntax error while parsing: [Cl 193: [01:25:38] SMARTS Parse Error: Failed parsing SMARTS '[Cl' for input: '[Cl' 190/222 Test #193: molFragmentTest ........................ Passed 0.17 sec test 194 Start 194: molStandardizeCatchTest 194: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/molStandardizeCatchTest 194: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize 194: Test timeout computed to be: 1500 194: Randomness seeded to: 63062509 194: * - * - * - * m1 194: * - * - * - * m2 194: * - * - * - * m1 194: * - * - * - * m2 194: [01:25:38] Can't kekulize mol. Unkekulized atoms: 3 7 194: [01:25:38] Can't kekulize mol. Unkekulized atoms: 3 8 194: [01:25:38] Can't kekulize mol. Unkekulized atoms: 2 3 4 132: CNC[C@H]1CC[C@H](C[NH3+])CC1 132: C1=NC[C@]2(CN3CC[C@@H]2C3)O1 132: O=C(O)[C@@H]1[C@H](C(=O)O)[C@H]2CC[C@@H]1O2 194: =============================================================================== 194: All tests passed (18691 assertions in 41 test cases) 194: 191/222 Test #194: molStandardizeCatchTest ................ Passed 7.22 sec test 195 Start 195: pyMolStandardize 195: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/MolStandardize/Wrap/testMolStandardize.py" 195: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/Wrap 195: Test timeout computed to be: 1500 132: O=C(CCc1ccccc1)OC[C@H]1C[C@@H]2O[C@H]1[C@H]1C(=O)OC(=O)[C@H]12 192/222 Test #195: pyMolStandardize .......................***Exception: SegFault 1.32 sec test 196 Start 196: testScaffoldNetwork 196: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ScaffoldNetwork/testScaffoldNetwork 196: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ScaffoldNetwork 196: Test timeout computed to be: 1500 132: Cn1cc(C2=NC[C@]3(CN4CC[C@@H]3C4)O2)c2ccccc21 196: Randomness seeded to: 140320175 196: =============================================================================== 196: All tests passed (269 assertions in 19 test cases) 196: 193/222 Test #196: testScaffoldNetwork .................... Passed 1.98 sec test 197 Start 197: pyScaffoldNetwork 197: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/ScaffoldNetwork/Wrap/testScaffoldNetwork.py" 197: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ScaffoldNetwork/Wrap 197: Test timeout computed to be: 1500 132: Nc1ncnc2c1ncn2[C@@H]1C=C(CO)[C@@H](O)[C@H]1O 194/222 Test #197: pyScaffoldNetwork ......................***Exception: SegFault 1.19 sec test 198 Start 198: pyScaffoldNetworkPickling 198: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/ScaffoldNetwork/Wrap/testPickleScaffoldNetwork.py" 198: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ScaffoldNetwork/Wrap 198: Test timeout computed to be: 1500 132: CO[C@H]1[C@@H](N)[C@@H](O)[C@@H](O)[C@H]1O 132: CO[C@@H]1[C@@H](N)[C@@H](O)[C@@H](O)[C@H]1O 195/222 Test #198: pyScaffoldNetworkPickling ..............***Exception: SegFault 1.17 sec test 199 Start 199: testMolEnumerator 199: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolEnumerator/testMolEnumerator 199: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolEnumerator 199: Test timeout computed to be: 1500 199: Randomness seeded to: 3046190956 199: [01:25:51] can only enumerate SRUs with CONNECT=HT or CONNECT=HH 132: CCS[C@@H]1[C@@H](N)[C@@H](O)[C@@H](O)[C@H]1O 199: =============================================================================== 199: All tests passed (321 assertions in 16 test cases) 199: 196/222 Test #199: testMolEnumerator ...................... Passed 0.16 sec test 200 Start 200: pyMolEnumerator 200: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/MolEnumerator/Wrap/rough_test.py" 200: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolEnumerator/Wrap 200: Test timeout computed to be: 1500 132: CCCCC[C@H](O)/C=C/[C@@]1(F)[C@H](O)C[C@H](O)[C@@H]1C/C=C\CCCC(=O)OC 197/222 Test #200: pyMolEnumerator ........................***Exception: SegFault 1.17 sec test 201 Start 201: testAbbreviations 201: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Abbreviations/testAbbreviations 201: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Abbreviations 201: Test timeout computed to be: 1500 201: Randomness seeded to: 3709013727 201: [01:25:52] SMARTS Parse Error: syntax error while parsing: *fail 201: [01:25:52] SMARTS Parse Error: Failed parsing SMARTS '*fail' for input: '*fail' 201: [01:25:52] no suitable SubstanceGroups found 201: =============================================================================== 201: All tests passed (195 assertions in 12 test cases) 201: 198/222 Test #201: testAbbreviations ...................... Passed 0.08 sec test 202 Start 202: pyAbbreviations 202: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/Abbreviations/Wrap/testAbbreviations.py" 202: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Abbreviations/Wrap 202: Test timeout computed to be: 1500 199/222 Test #202: pyAbbreviations ........................***Exception: SegFault 1.20 sec test 203 Start 203: generalizedSubstructCatch 203: Test command: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/GeneralizedSubstruct/generalizedSubstructCatch 203: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/GeneralizedSubstruct 203: Test timeout computed to be: 1500 203: Randomness seeded to: 2082016359 203: =============================================================================== 203: All tests passed (180 assertions in 10 test cases) 203: 200/222 Test #203: generalizedSubstructCatch .............. Passed 0.42 sec test 204 Start 204: pyGeneralizedSubstruct 204: Test command: /usr/bin/python3.12 "/<>/Code/GraphMol/GeneralizedSubstruct/Wrap/testGeneralizedSubstruct.py" 204: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/GraphMol/GeneralizedSubstruct/Wrap 204: Test timeout computed to be: 1500 201/222 Test #204: pyGeneralizedSubstruct .................***Exception: SegFault 1.19 sec test 205 Start 205: testQuery 205: Test command: /<>/obj-arm-linux-gnueabihf/Code/Query/testQuery 205: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/Query 205: Test timeout computed to be: 1500 205: Query 205: Query2 205: Equality 205: Greater 205: GreaterEqual 205: Less 205: LessEqual 205: Open Range 205: Closed Range 205: Float 205: With Tolerance 205: Set 205: And 205: Or 205: XOr 205: pointer and copy foo 205: Set2 202/222 Test #205: testQuery .............................. Passed 0.01 sec test 206 Start 206: testMatCalc 206: Test command: /<>/obj-arm-linux-gnueabihf/Code/DataManip/MetricMatrixCalc/testMatCalc 206: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/DataManip/MetricMatrixCalc 206: Test timeout computed to be: 1500 206: 1.68022e+08 206: 1.73149e+08 206: 1.05549e+08 206: 7.20603e+07 206: 1.41535e+08 206: 1.08592e+08 206: 1.11334e+08 206: 2.05553e+08 206: 1.54962e+08 206: 8.08231e+07 206: 5.61421e+07 206: 1.28874e+08 206: 1.59011e+08 206: 8.69902e+07 206: 1.31367e+08 206: 2.27389e+08 206: 1.60289e+08 206: 7.79813e+07 206: 1.61001e+08 206: 2.07599e+08 206: 2.24432e+08 206: 1.39725e+08 206: 2.42614e+08 206: 1.77578e+08 206: 1.05908e+08 206: 9.06742e+07 206: 1.8087e+08 206: 1.98182e+08 206: 2.03052e+08 206: 1.7673e+08 206: 9.32798e+07 206: 1.37969e+08 206: 1.83778e+08 206: 2.1228e+08 206: 5.06157e+07 206: 1.566e+08 206: 2.37142e+08 206: 1.49345e+08 206: 7.05819e+07 206: 1.71633e+08 206: 1.96817e+08 206: 2.18246e+08 206: 9.49496e+07 206: 2.25618e+08 206: 1.30219e+08 203/222 Test #206: testMatCalc ............................ Passed 0.01 sec test 207 Start 207: pyMatCalc 207: Test command: /usr/bin/python3.12 "/<>/Code/DataManip/MetricMatrixCalc/Wrap/testMatricCalc.py" 207: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/DataManip/MetricMatrixCalc/Wrap 207: Test timeout computed to be: 1500 132: CCCCC[C@@H](O)/C=C/[C@@]1(F)[C@H](C/C=C\CCCC(=O)OC)[C@H](O)C[C@@H]1O 207: ..... 207: ---------------------------------------------------------------------- 207: Ran 5 tests in 0.879s 207: 207: OK 204/222 Test #207: pyMatCalc .............................. Passed 1.41 sec test 208 Start 208: testSimDivPickers 208: Test command: /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers/testSimDivPickers 208: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers 208: Test timeout computed to be: 1500 208: [01:25:57] ------------------------------------- 208: [01:25:57] Testing github issue 1421: MaxMinPicker picking non-existent element. 208: [01:25:57] Done 208: [01:25:57] ------------------------------------- 208: [01:25:57] Testing github issue 2245: MinMax Diversity picker seeding shows deterministic / non-random behaviour. 208: [01:25:57] Done 205/222 Test #208: testSimDivPickers ...................... Passed 0.02 sec test 209 Start 209: pickersTestsCatch 209: Test command: /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers/pickersTestsCatch 209: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers 209: Test timeout computed to be: 1500 209: Randomness seeded to: 1539203540 209: =============================================================================== 209: All tests passed (21267 assertions in 1 test case) 209: 206/222 Test #209: pickersTestsCatch ...................... Passed 0.18 sec test 210 Start 210: pySimDivPickers 210: Test command: /usr/bin/python3.12 "/<>/Code/SimDivPickers/Wrap/testPickers.py" 210: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers/Wrap 210: Test timeout computed to be: 1500 210: [01:25:57] the useCache argument is deprecated and ignored 210: ...[01:25:58] the useCache argument is deprecated and ignored 210: [01:25:58] the useCache argument is deprecated and ignored 210: .[01:25:58] the useCache argument is deprecated and ignored 132: CNC(=O)Oc1cccc2c1OC[C@@H]1CCN(C)[C@H]21 210: ....... 210: ---------------------------------------------------------------------- 210: Ran 11 tests in 3.615s 210: 210: OK 207/222 Test #210: pySimDivPickers ........................ Passed 4.19 sec test 211 Start 211: pyRanker 211: Test command: /usr/bin/python3.12 "/<>/Code/ML/InfoTheory/Wrap/testRanker.py" 211: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/ML/InfoTheory/Wrap 211: Test timeout computed to be: 1500 132: CNC(=O)Oc1ccc2c(c1)[C@@H]1[C@@H](CCN1C)CO2 211: ..[01:26:01] 211: 211: **** 211: Invariant Violation 211: Can't rank more bits than the ensemble size 211: Violation occurred on line 156 in file ./Code/ML/InfoTheory/InfoBitRanker.cpp 211: Failed Expression: num <= dp_maskBits->getNumOnBits() 211: **** 211: 211: ... 211: ---------------------------------------------------------------------- 211: Ran 5 tests in 0.052s 211: 211: OK 208/222 Test #211: pyRanker ............................... Passed 0.58 sec test 212 Start 212: testChemicalFeatures 212: Test command: /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures/testChemicalFeatures 212: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures 212: Test timeout computed to be: 1500 212: ----------------------------------------- 212: Test1 212: Done 209/222 Test #212: testChemicalFeatures ................... Passed 0.01 sec test 213 Start 213: pyFeatures 213: Test command: /usr/bin/python3.12 "/<>/Code/ChemicalFeatures/Wrap/testFeatures.py" 213: Working Directory: /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures/Wrap 213: Test timeout computed to be: 1500 132: CN1CC[C@H]2COc3c(O)cccc3[C@H]21 210/222 Test #213: pyFeatures .............................***Exception: SegFault 1.15 sec test 214 Start 214: pythonTestDbCLI 214: Test command: /usr/bin/python3.12 "/<>/Projects/test_list.py" "--testDir" "/<>/Projects" 214: Working Directory: /<>/obj-arm-linux-gnueabihf/Projects 214: Test timeout computed to be: 1500 132: CC(=O)C[C@@]12CCC[C@H]1[C@@H]1CCC3=CC(=O)CC[C@@H]3[C@H]1CC2 132: O=C(O)[C@@H]1C[C@H]2C[C@@H](CCc3nn[nH]n3)CC[C@H]2CN1 132: COc1ccc2c(c1)OC[C@@H](N1CCC(O)(c3ccc(F)cc3)CC1)[C@H]2O 132: Oc1ccc2c(c1)OC[C@@H](N1CCC(Cc3ccccc3)CC1)[C@H]2O 214: FFFFFFFFFFFF 214: ====================================================================== 214: FAIL: test1Create (__main__.TestCase.test1Create) 214: ---------------------------------------------------------------------- 214: Traceback (most recent call last): 214: File "/<>/Projects/DbCLI/TestDbCLI.py", line 22, in test1Create 214: self.assertFalse(res) 214: AssertionError: -11 is not false 214: 214: ====================================================================== 214: FAIL: test2_1SearchFPs (__main__.TestCase.test2_1SearchFPs) 214: ---------------------------------------------------------------------- 214: Traceback (most recent call last): 214: File "/<>/Projects/DbCLI/TestDbCLI.py", line 74, in test2_1SearchFPs 214: self.assertTrue(os.path.exists('testData/bzr/Compounds.sqlt')) 214: AssertionError: False is not true 214: 214: ====================================================================== 214: FAIL: test2_2SearchAtomPairs (__main__.TestCase.test2_2SearchAtomPairs) 214: ---------------------------------------------------------------------- 214: Traceback (most recent call last): 214: File "/<>/Projects/DbCLI/TestDbCLI.py", line 106, in test2_2SearchAtomPairs 214: self.assertTrue(os.path.exists('testData/bzr/Compounds.sqlt')) 214: AssertionError: False is not true 214: 214: ====================================================================== 214: FAIL: test2_3SearchTorsions (__main__.TestCase.test2_3SearchTorsions) 214: ---------------------------------------------------------------------- 214: Traceback (most recent call last): 214: File "/<>/Projects/DbCLI/TestDbCLI.py", line 139, in test2_3SearchTorsions 214: self.assertTrue(os.path.exists('testData/bzr/Compounds.sqlt')) 214: AssertionError: False is not true 214: 214: ====================================================================== 214: FAIL: test2_4SearchProps (__main__.TestCase.test2_4SearchProps) 214: ---------------------------------------------------------------------- 214: Traceback (most recent call last): 214: File "/<>/Projects/DbCLI/TestDbCLI.py", line 171, in test2_4SearchProps 214: self.assertTrue(os.path.exists('testData/bzr/Compounds.sqlt')) 214: AssertionError: False is not true 214: 214: ====================================================================== 214: FAIL: test2_5SearchSmarts (__main__.TestCase.test2_5SearchSmarts) 214: ---------------------------------------------------------------------- 214: Traceback (most recent call last): 214: File "/<>/Projects/DbCLI/TestDbCLI.py", line 212, in test2_5SearchSmarts 214: self.assertFalse(res) 214: AssertionError: -11 is not false 214: 214: ====================================================================== 214: FAIL: test2_6SearchBoth (__main__.TestCase.test2_6SearchBoth) 214: ---------------------------------------------------------------------- 214: Traceback (most recent call last): 214: File "/<>/Projects/DbCLI/TestDbCLI.py", line 276, in test2_6SearchBoth 214: self.assertFalse(res) 214: AssertionError: -11 is not false 214: 214: ====================================================================== 214: FAIL: test2_7SearchGobbi (__main__.TestCase.test2_7SearchGobbi) 214: ---------------------------------------------------------------------- 214: Traceback (most recent call last): 214: File "/<>/Projects/DbCLI/TestDbCLI.py", line 300, in test2_7SearchGobbi 214: self.assertTrue(os.path.exists('testData/bzr/Compounds.sqlt')) 214: AssertionError: False is not true 214: 214: ====================================================================== 214: FAIL: test2_8SearchThresh (__main__.TestCase.test2_8SearchThresh) 214: ---------------------------------------------------------------------- 214: Traceback (most recent call last): 214: File "/<>/Projects/DbCLI/TestDbCLI.py", line 335, in test2_8SearchThresh 214: self.assertTrue(os.path.exists('testData/bzr/Compounds.sqlt')) 214: AssertionError: False is not true 214: 214: ====================================================================== 214: FAIL: test4CreateOptions (__main__.TestCase.test4CreateOptions) 214: ---------------------------------------------------------------------- 214: Traceback (most recent call last): 214: File "/<>/Projects/DbCLI/TestDbCLI.py", line 372, in test4CreateOptions 214: self.assertFalse(res) 214: AssertionError: -11 is not false 214: 214: ====================================================================== 214: FAIL: test5TestBackwardsCompat (__main__.TestCase.test5TestBackwardsCompat) 214: ---------------------------------------------------------------------- 214: Traceback (most recent call last): 214: File "/<>/Projects/DbCLI/TestDbCLI.py", line 495, in test5TestBackwardsCompat 214: self.assertFalse(res) 214: AssertionError: -11 is not false 214: 214: ====================================================================== 214: FAIL: test6Update (__main__.TestCase.test6Update) 214: ---------------------------------------------------------------------- 214: Traceback (most recent call last): 214: File "/<>/Projects/DbCLI/TestDbCLI.py", line 531, in test6Update 214: self.assertFalse(res) 214: AssertionError: -11 is not false 214: 214: ---------------------------------------------------------------------- 214: Ran 12 tests in 7.097s 214: 214: FAILED (failures=12) 214: !!! TEST FAILURE: python TestDbCLI.py {'dir': 'DbCLI'} 211/222 Test #214: pythonTestDbCLI ........................***Failed 7.59 sec FFFFFFFFFFFF ====================================================================== FAIL: test1Create (__main__.TestCase.test1Create) ---------------------------------------------------------------------- Traceback (most recent call last): File "/<>/Projects/DbCLI/TestDbCLI.py", line 22, in test1Create self.assertFalse(res) AssertionError: -11 is not false ====================================================================== FAIL: test2_1SearchFPs (__main__.TestCase.test2_1SearchFPs) ---------------------------------------------------------------------- Traceback (most recent call last): File "/<>/Projects/DbCLI/TestDbCLI.py", line 74, in test2_1SearchFPs self.assertTrue(os.path.exists('testData/bzr/Compounds.sqlt')) AssertionError: False is not true ====================================================================== FAIL: test2_2SearchAtomPairs (__main__.TestCase.test2_2SearchAtomPairs) ---------------------------------------------------------------------- Traceback (most recent call last): File "/<>/Projects/DbCLI/TestDbCLI.py", line 106, in test2_2SearchAtomPairs self.assertTrue(os.path.exists('testData/bzr/Compounds.sqlt')) AssertionError: False is not true ====================================================================== FAIL: test2_3SearchTorsions (__main__.TestCase.test2_3SearchTorsions) ---------------------------------------------------------------------- Traceback (most recent call last): File "/<>/Projects/DbCLI/TestDbCLI.py", line 139, in test2_3SearchTorsions self.assertTrue(os.path.exists('testData/bzr/Compounds.sqlt')) AssertionError: False is not true ====================================================================== FAIL: test2_4SearchProps (__main__.TestCase.test2_4SearchProps) ---------------------------------------------------------------------- Traceback (most recent call last): File "/<>/Projects/DbCLI/TestDbCLI.py", line 171, in test2_4SearchProps self.assertTrue(os.path.exists('testData/bzr/Compounds.sqlt')) AssertionError: False is not true ====================================================================== FAIL: test2_5SearchSmarts (__main__.TestCase.test2_5SearchSmarts) ---------------------------------------------------------------------- Traceback (most recent call last): File "/<>/Projects/DbCLI/TestDbCLI.py", line 212, in test2_5SearchSmarts self.assertFalse(res) AssertionError: -11 is not false ====================================================================== FAIL: test2_6SearchBoth (__main__.TestCase.test2_6SearchBoth) ---------------------------------------------------------------------- Traceback (most recent call last): File "/<>/Projects/DbCLI/TestDbCLI.py", line 276, in test2_6SearchBoth self.assertFalse(res) AssertionError: -11 is not false ====================================================================== FAIL: test2_7SearchGobbi (__main__.TestCase.test2_7SearchGobbi) ---------------------------------------------------------------------- Traceback (most recent call last): File "/<>/Projects/DbCLI/TestDbCLI.py", line 300, in test2_7SearchGobbi self.assertTrue(os.path.exists('testData/bzr/Compounds.sqlt')) AssertionError: False is not true ====================================================================== FAIL: test2_8SearchThresh (__main__.TestCase.test2_8SearchThresh) ---------------------------------------------------------------------- Traceback (most recent call last): File "/<>/Projects/DbCLI/TestDbCLI.py", line 335, in test2_8SearchThresh self.assertTrue(os.path.exists('testData/bzr/Compounds.sqlt')) AssertionError: False is not true ====================================================================== FAIL: test4CreateOptions (__main__.TestCase.test4CreateOptions) ---------------------------------------------------------------------- Traceback (most recent call last): File "/<>/Projects/DbCLI/TestDbCLI.py", line 372, in test4CreateOptions self.assertFalse(res) AssertionError: -11 is not false ====================================================================== FAIL: test5TestBackwardsCompat (__main__.TestCase.test5TestBackwardsCompat) ---------------------------------------------------------------------- Traceback (most recent call last): File "/<>/Projects/DbCLI/TestDbCLI.py", line 495, in test5TestBackwardsCompat self.assertFalse(res) AssertionError: -11 is not false ====================================================================== FAIL: test6Update (__main__.TestCase.test6Update) ---------------------------------------------------------------------- Traceback (most recent call last): File "/<>/Projects/DbCLI/TestDbCLI.py", line 531, in test6Update self.assertFalse(res) AssertionError: -11 is not false ---------------------------------------------------------------------- Ran 12 tests in 7.097s FAILED (failures=12) !!! TEST FAILURE: python TestDbCLI.py {'dir': 'DbCLI'} test 215 Start 215: pythonTestDirRoot 215: Test command: /usr/bin/python3.12 "/<>/rdkit/test_list.py" "--testDir" "/<>/rdkit" 215: Working Directory: /<>/obj-arm-linux-gnueabihf/rdkit 215: Test timeout computed to be: 1500 215: ......................... 215: ---------------------------------------------------------------------- 215: Ran 25 tests in 0.476s 215: 215: OK 212/222 Test #215: pythonTestDirRoot ...................... Passed 0.92 sec test 216 Start 216: pythonTestDirML 216: Test command: /usr/bin/python3.12 "/<>/rdkit/ML/test_list.py" "--testDir" "/<>/rdkit/ML" 216: Working Directory: /<>/obj-arm-linux-gnueabihf/rdkit 216: Test timeout computed to be: 1500 216: /<>/rdkit/ML/UnitTestBuildComposite.py:21: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release 216: from rdkit.ML import BuildComposite 132: Oc1ccc2c(c1)OC[C@H](N1CCC(O)(c3ccccc3)CC1)[C@@H]2O 216: /<>/rdkit/ML/UnitTestBuildComposite.py:83: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release 216: refCompos = pickle.load(pklF) 216: ...../<>/rdkit/ML/UnitTestBuildComposite.py:198: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release 216: refCompos = pickle.load(pklFile) 216: . 216: ---------------------------------------------------------------------- 216: Ran 6 tests in 0.648s 216: 216: OK 216: /<>/rdkit/ML/UnitTestScreenComposite.py:20: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release 216: from rdkit.ML import ScreenComposite 216: /<>/rdkit/ML/UnitTestScreenComposite.py:276: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release 216: compos = pickle.load(pklF) 216: ../<>/rdkit/ML/UnitTestScreenComposite.py:330: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release 216: compos = pickle.load(pklF) 216: .......... 216: ---------------------------------------------------------------------- 216: Ran 12 tests in 0.294s 216: 216: OK 132: CC(=O)c1ccc2c(c1)[C@@]13CCCC[C@H]1[C@@H](C2)N(CC1CC1)CC3 216: /<>/rdkit/ML/UnitTestAnalyzeComposite.py:19: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release 216: from rdkit.ML import AnalyzeComposite 216: /<>/rdkit/ML/UnitTestAnalyzeComposite.py:31: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release 216: c1 = pickle.load(pklF) 216: . 216: ---------------------------------------------------------------------- 216: Ran 1 test in 0.093s 216: 216: OK 216: ... 216: ---------------------------------------------------------------------- 216: Ran 3 tests in 0.004s 216: 216: OK 216: ........ 216: ---------------------------------------------------------------------- 216: Ran 8 tests in 0.002s 216: 216: OK 216: /<>/rdkit/ML/Composite/UnitTestComposite.py:14: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release 216: from rdkit.ML.Composite import Composite 216: /<>/rdkit/ML/Composite/UnitTestComposite.py:15: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release 216: from rdkit.ML.DecTree.DecTree import DecTreeNode as Node 216: .... 216: ---------------------------------------------------------------------- 216: Ran 4 tests in 0.354s 216: 216: OK 132: CC(=O)O[C@@H]1CC[C@@H]2CN3CCc4cc5c(cc4[C@@H]3C[C@@H]2C1)OCO5 216: ..... 216: ---------------------------------------------------------------------- 216: Ran 5 tests in 0.005s 216: 216: OK 216: ......... 216: ---------------------------------------------------------------------- 216: Ran 9 tests in 0.011s 216: 216: OK 216: ............ 216: ---------------------------------------------------------------------- 216: Ran 12 tests in 0.005s 216: 216: OK 132: COc1cc2c(cc1OC)[C@@H]1C[C@@H]3C[C@H](O)CC[C@@H]3CN1CC2 216: ..... 216: ---------------------------------------------------------------------- 216: Ran 5 tests in 0.053s 216: 216: OK 216: No entry for terminal type "unknown"; 216: using dumb terminal settings. 216: No entry for terminal type "unknown"; 216: using dumb terminal settings. 216: /<>/rdkit/ML/DecTree/UnitTestTreeUtils.py:8: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release 216: from rdkit.ML.DecTree import TreeUtils 216: . 216: ---------------------------------------------------------------------- 216: Ran 1 test in 0.001s 216: 216: OK 216: /<>/rdkit/ML/DecTree/UnitTestTree.py:13: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release 216: from rdkit.ML.DecTree import Tree 216: ...... 216: ---------------------------------------------------------------------- 216: Ran 6 tests in 0.005s 216: 216: OK 216: /<>/rdkit/ML/DecTree/UnitTestXVal.py:12: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release 216: from rdkit.ML.DecTree import CrossValidate, randomtest 132: N#C[C@@H]1C[C@@H]2CN3CCc4cc5c(cc4[C@@H]3C[C@@H]2C[C@@H]1O)OCO5 216: .... 216: ---------------------------------------------------------------------- 216: Ran 4 tests in 0.452s 216: 216: OK 216: /<>/rdkit/ML/DecTree/UnitTestID3.py:12: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release 216: from rdkit.ML.DecTree import ID3 216: ...... 216: ---------------------------------------------------------------------- 216: Ran 6 tests in 0.044s 216: 216: OK 216: /<>/rdkit/ML/DecTree/UnitTestPrune.py:9: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release 216: from rdkit.ML.DecTree import ID3, CrossValidate, PruneTree 216: .. 216: ---------------------------------------------------------------------- 216: Ran 2 tests in 0.277s 216: 216: OK 216: /<>/rdkit/ML/DecTree/UnitTestQuantTree.py:12: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release 216: from rdkit.ML.DecTree import BuildQuantTree 132: COC(=O)[C@@H]1C[C@](C)(C(=O)O)NC(=O)N1 216: .......... 216: ---------------------------------------------------------------------- 216: Ran 10 tests in 0.027s 216: 216: OK 132: CC(=O)OC1=C(Sc2ccccc2)C[C@H]2Cc3cc4cccc(O)c4c(O)c3C(=O)[C@H]2C1 216: /<>/rdkit/ML/DecTree/UnitTestSigTree.py:15: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release 216: from rdkit.ML.DecTree.BuildSigTree import BuildSigTree, _GenerateRandomEnsemble 216: ..... 216: ---------------------------------------------------------------------- 216: Ran 5 tests in 0.160s 216: 216: OK 216: .. 216: ---------------------------------------------------------------------- 216: Ran 2 tests in 0.012s 216: 216: OK 156: Timed out after 121 seconds. 132: Nc1ncnc2c1ncn2[C@@H]1C[C@H](CO)[C@@H](O)C1 216: ... 216: ---------------------------------------------------------------------- 216: Ran 3 tests in 0.025s 216: 216: OK 216: !!! TEST FAILURE: python UnitTestMolDescriptors.py {} 132: C[C@H](C(N)=O)N1CC[C@@]23CCCC[C@@H]2[C@@H]1Cc1ccc(OCc2cccc(F)c2)cc13 216: ... 216: ---------------------------------------------------------------------- 216: Ran 3 tests in 0.834s 216: 216: OK 216: /<>/rdkit/ML/KNN/UnitTestKNN.py:11: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release 216: from rdkit.ML.KNN import (CrossValidate, DistFunctions, KNNModel, 216: ....No entry for terminal type "unknown"; 216: using dumb terminal settings. 216: .. 216: ---------------------------------------------------------------------- 216: Ran 6 tests in 0.962s 216: 216: OK 216: No entry for terminal type "unknown"; 216: using dumb terminal settings. 216: !!! TEST FAILURE: python UnitTestPackage.py {} 132: CN1C(=O)CC[C@@]2(C)C1=CCc1cc(Cl)ccc12 216: /<>/rdkit/ML/NaiveBayes/UnitTestNB.py:12: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release 216: from rdkit.ML.NaiveBayes import CrossValidate 216: .... 216: ---------------------------------------------------------------------- 216: Ran 4 tests in 0.025s 216: 216: OK 132: Cc1nc(COc2ccc3c(c2)[C@@H](O)[C@@H](Cc2cccnc2)CO3)ccc1[N+](=O)[O-] 216: /<>/rdkit/ML/Neural/UnitTestTrainer.py:14: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release 216: from rdkit.ML.Neural import Network, Trainers 132: [01:26:36] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 132: [01:26:36] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 156: =============================================================================== 156: All tests passed (2552 assertions in 23 test cases) 156: 213/222 Test #156: testRascalMCES ......................... Passed 216.56 sec test 217 Start 217: pythonTestDirDataStructs 217: Test command: /usr/bin/python3.12 "/<>/rdkit/DataStructs/test_list.py" "--testDir" "/<>/rdkit/DataStructs" 217: Working Directory: /<>/obj-arm-linux-gnueabihf/rdkit 217: Test timeout computed to be: 1500 216: ..... 216: ---------------------------------------------------------------------- 216: Ran 5 tests in 7.510s 216: 216: OK 216: /<>/rdkit/ML/Neural/UnitTestOther.py:12: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release 216: from rdkit.ML.Neural.ActFuncs import Sigmoid, TanH 217: .................................. 217: ---------------------------------------------------------------------- 217: Ran 34 tests in 0.016s 217: 217: OK 216: .... 216: ---------------------------------------------------------------------- 216: Ran 4 tests in 0.005s 216: 216: OK 217: ..... 217: ---------------------------------------------------------------------- 217: Ran 5 tests in 0.032s 217: 217: OK 216: .... 216: ---------------------------------------------------------------------- 216: Ran 4 tests in 0.002s 216: 216: OK 217: ....... 217: ---------------------------------------------------------------------- 217: Ran 7 tests in 0.004s 217: 217: OK 216: .... 216: ---------------------------------------------------------------------- 216: Ran 4 tests in 0.014s 216: 216: OK 217: !!! TEST FAILURE: python UnitTestDocTests.py {} 214/222 Test #217: pythonTestDirDataStructs ...............***Failed 3.37 sec .................................. ---------------------------------------------------------------------- Ran 34 tests in 0.016s OK ..... ---------------------------------------------------------------------- Ran 5 tests in 0.032s OK ....... ---------------------------------------------------------------------- Ran 7 tests in 0.004s OK !!! TEST FAILURE: python UnitTestDocTests.py {} test 218 Start 218: pythonTestDirDbase 218: Test command: /usr/bin/python3.12 "/<>/rdkit/Dbase/test_list.py" "--testDir" "/<>/rdkit/Dbase" 218: Working Directory: /<>/obj-arm-linux-gnueabihf/rdkit 218: Test timeout computed to be: 1500 216: !!! TEST FAILURE: python test_list.py {'dir': 'Descriptors'} 216: !!! TEST FAILURE: python test_list.py {'dir': 'ModelPackage'} 215/222 Test #216: pythonTestDirML ........................***Failed 31.92 sec /<>/rdkit/ML/UnitTestBuildComposite.py:21: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release from rdkit.ML import BuildComposite /<>/rdkit/ML/UnitTestBuildComposite.py:83: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release refCompos = pickle.load(pklF) ...../<>/rdkit/ML/UnitTestBuildComposite.py:198: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release refCompos = pickle.load(pklFile) . ---------------------------------------------------------------------- Ran 6 tests in 0.648s OK /<>/rdkit/ML/UnitTestScreenComposite.py:20: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release from rdkit.ML import ScreenComposite /<>/rdkit/ML/UnitTestScreenComposite.py:276: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release compos = pickle.load(pklF) ../<>/rdkit/ML/UnitTestScreenComposite.py:330: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release compos = pickle.load(pklF) .......... ---------------------------------------------------------------------- Ran 12 tests in 0.294s OK /<>/rdkit/ML/UnitTestAnalyzeComposite.py:19: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release from rdkit.ML import AnalyzeComposite /<>/rdkit/ML/UnitTestAnalyzeComposite.py:31: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release c1 = pickle.load(pklF) . ---------------------------------------------------------------------- Ran 1 test in 0.093s OK ... ---------------------------------------------------------------------- Ran 3 tests in 0.004s OK ........ ---------------------------------------------------------------------- Ran 8 tests in 0.002s OK /<>/rdkit/ML/Composite/UnitTestComposite.py:14: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release from rdkit.ML.Composite import Composite /<>/rdkit/ML/Composite/UnitTestComposite.py:15: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release from rdkit.ML.DecTree.DecTree import DecTreeNode as Node .... ---------------------------------------------------------------------- Ran 4 tests in 0.354s OK ..... ---------------------------------------------------------------------- Ran 5 tests in 0.005s OK ......... ---------------------------------------------------------------------- Ran 9 tests in 0.011s OK ............ ---------------------------------------------------------------------- Ran 12 tests in 0.005s OK ..... ---------------------------------------------------------------------- Ran 5 tests in 0.053s OK No entry for terminal type "unknown"; using dumb terminal settings. No entry for terminal type "unknown"; using dumb terminal settings. /<>/rdkit/ML/DecTree/UnitTestTreeUtils.py:8: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release from rdkit.ML.DecTree import TreeUtils . ---------------------------------------------------------------------- Ran 1 test in 0.001s OK /<>/rdkit/ML/DecTree/UnitTestTree.py:13: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release from rdkit.ML.DecTree import Tree ...... ---------------------------------------------------------------------- Ran 6 tests in 0.005s OK /<>/rdkit/ML/DecTree/UnitTestXVal.py:12: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release from rdkit.ML.DecTree import CrossValidate, randomtest .... ---------------------------------------------------------------------- Ran 4 tests in 0.452s OK /<>/rdkit/ML/DecTree/UnitTestID3.py:12: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release from rdkit.ML.DecTree import ID3 ...... ---------------------------------------------------------------------- Ran 6 tests in 0.044s OK /<>/rdkit/ML/DecTree/UnitTestPrune.py:9: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release from rdkit.ML.DecTree import ID3, CrossValidate, PruneTree .. ---------------------------------------------------------------------- Ran 2 tests in 0.277s OK /<>/rdkit/ML/DecTree/UnitTestQuantTree.py:12: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release from rdkit.ML.DecTree import BuildQuantTree .......... ---------------------------------------------------------------------- Ran 10 tests in 0.027s OK /<>/rdkit/ML/DecTree/UnitTestSigTree.py:15: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release from rdkit.ML.DecTree.BuildSigTree import BuildSigTree, _GenerateRandomEnsemble ..... ---------------------------------------------------------------------- Ran 5 tests in 0.160s OK .. ---------------------------------------------------------------------- Ran 2 tests in 0.012s OK ... ---------------------------------------------------------------------- Ran 3 tests in 0.025s OK !!! TEST FAILURE: python UnitTestMolDescriptors.py {} ... ---------------------------------------------------------------------- Ran 3 tests in 0.834s OK /<>/rdkit/ML/KNN/UnitTestKNN.py:11: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release from rdkit.ML.KNN import (CrossValidate, DistFunctions, KNNModel, ....No entry for terminal type "unknown"; using dumb terminal settings. .. ---------------------------------------------------------------------- Ran 6 tests in 0.962s OK No entry for terminal type "unknown"; using dumb terminal settings. !!! TEST FAILURE: python UnitTestPackage.py {} /<>/rdkit/ML/NaiveBayes/UnitTestNB.py:12: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release from rdkit.ML.NaiveBayes import CrossValidate .... ---------------------------------------------------------------------- Ran 4 tests in 0.025s OK /<>/rdkit/ML/Neural/UnitTestTrainer.py:14: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release from rdkit.ML.Neural import Network, Trainers ..... ---------------------------------------------------------------------- Ran 5 tests in 7.510s OK /<>/rdkit/ML/Neural/UnitTestOther.py:12: DeprecationWarning: This module is deprecated and will be removed in the 2024.03 release from rdkit.ML.Neural.ActFuncs import Sigmoid, TanH .... ---------------------------------------------------------------------- Ran 4 tests in 0.005s OK .... ---------------------------------------------------------------------- Ran 4 tests in 0.002s OK .... ---------------------------------------------------------------------- Ran 4 tests in 0.014s OK !!! TEST FAILURE: python test_list.py {'dir': 'Descriptors'} !!! TEST FAILURE: python test_list.py {'dir': 'ModelPackage'} test 219 Start 219: pythonTestDirSimDivFilters 219: Test command: /usr/bin/python3.12 "/<>/rdkit/SimDivFilters/test_list.py" "--testDir" "/<>/rdkit/SimDivFilters" 219: Working Directory: /<>/obj-arm-linux-gnueabihf/rdkit 219: Test timeout computed to be: 1500 218: No entry for terminal type "unknown"; 218: using dumb terminal settings. 218: .. 218: ---------------------------------------------------------------------- 218: Ran 2 tests in 0.040s 218: 218: OK 219: No entry for terminal type "unknown"; 219: using dumb terminal settings. 218: ........... 218: ---------------------------------------------------------------------- 218: Ran 11 tests in 0.071s 218: 218: OK 218: . 218: ---------------------------------------------------------------------- 218: Ran 1 test in 0.003s 218: 218: OK 218: FF......F...... 218: ====================================================================== 218: FAIL: test1Txt (__main__.TestCase.test1Txt) 218: test reading from a text file 218: ---------------------------------------------------------------------- 218: Traceback (most recent call last): 218: File "/<>/rdkit/Dbase/UnitTestDbUtils.py", line 77, in test1Txt 218: self._confirm(tblName, dbName=self.tempDbName) 218: File "/<>/rdkit/Dbase/UnitTestDbUtils.py", line 59, in _confirm 218: assert len(res) == len(colHeads), 'bad number of columns' 218: AssertionError: bad number of columns 218: 218: ====================================================================== 218: FAIL: test3Txt (__main__.TestCase.test3Txt) 218: test reading from a text file including null markers 218: ---------------------------------------------------------------------- 218: Traceback (most recent call last): 218: File "/<>/rdkit/Dbase/UnitTestDbUtils.py", line 87, in test3Txt 218: self._confirm(tblName, dbName=self.tempDbName) 218: File "/<>/rdkit/Dbase/UnitTestDbUtils.py", line 59, in _confirm 218: assert len(res) == len(colHeads), 'bad number of columns' 218: AssertionError: bad number of columns 218: 218: ====================================================================== 218: FAIL: test_DatabaseToDatabase (__main__.TestCase.test_DatabaseToDatabase) 218: ---------------------------------------------------------------------- 218: Traceback (most recent call last): 218: File "/<>/rdkit/Dbase/UnitTestDbUtils.py", line 219, in test_DatabaseToDatabase 218: self._confirm(tblName, dbName=self.tempDbName, colHeads=['id', 'val']) 218: File "/<>/rdkit/Dbase/UnitTestDbUtils.py", line 59, in _confirm 218: assert len(res) == len(colHeads), 'bad number of columns' 218: AssertionError: bad number of columns 218: 218: ---------------------------------------------------------------------- 218: Ran 15 tests in 0.044s 218: 218: FAILED (failures=3) 219: !!! TEST FAILURE: python SimilarityPickers.py {} 218: ...... 218: ---------------------------------------------------------------------- 218: Ran 6 tests in 0.011s 218: 218: OK 216/222 Test #219: pythonTestDirSimDivFilters .............***Failed 1.58 sec No entry for terminal type "unknown"; using dumb terminal settings. !!! TEST FAILURE: python SimilarityPickers.py {} test 220 Start 220: pythonTestDirVLib 220: Test command: /usr/bin/python3.12 "/<>/rdkit/VLib/test_list.py" "--testDir" "/<>/rdkit/VLib" 220: Working Directory: /<>/obj-arm-linux-gnueabihf/rdkit 220: Test timeout computed to be: 1500 218: !!! TEST FAILURE: python UnitTestDbUtils.py {} 217/222 Test #218: pythonTestDirDbase .....................***Failed 1.65 sec No entry for terminal type "unknown"; using dumb terminal settings. .. ---------------------------------------------------------------------- Ran 2 tests in 0.040s OK ........... ---------------------------------------------------------------------- Ran 11 tests in 0.071s OK . ---------------------------------------------------------------------- Ran 1 test in 0.003s OK FF......F...... ====================================================================== FAIL: test1Txt (__main__.TestCase.test1Txt) test reading from a text file ---------------------------------------------------------------------- Traceback (most recent call last): File "/<>/rdkit/Dbase/UnitTestDbUtils.py", line 77, in test1Txt self._confirm(tblName, dbName=self.tempDbName) File "/<>/rdkit/Dbase/UnitTestDbUtils.py", line 59, in _confirm assert len(res) == len(colHeads), 'bad number of columns' AssertionError: bad number of columns ====================================================================== FAIL: test3Txt (__main__.TestCase.test3Txt) test reading from a text file including null markers ---------------------------------------------------------------------- Traceback (most recent call last): File "/<>/rdkit/Dbase/UnitTestDbUtils.py", line 87, in test3Txt self._confirm(tblName, dbName=self.tempDbName) File "/<>/rdkit/Dbase/UnitTestDbUtils.py", line 59, in _confirm assert len(res) == len(colHeads), 'bad number of columns' AssertionError: bad number of columns ====================================================================== FAIL: test_DatabaseToDatabase (__main__.TestCase.test_DatabaseToDatabase) ---------------------------------------------------------------------- Traceback (most recent call last): File "/<>/rdkit/Dbase/UnitTestDbUtils.py", line 219, in test_DatabaseToDatabase self._confirm(tblName, dbName=self.tempDbName, colHeads=['id', 'val']) File "/<>/rdkit/Dbase/UnitTestDbUtils.py", line 59, in _confirm assert len(res) == len(colHeads), 'bad number of columns' AssertionError: bad number of columns ---------------------------------------------------------------------- Ran 15 tests in 0.044s FAILED (failures=3) ...... ---------------------------------------------------------------------- Ran 6 tests in 0.011s OK !!! TEST FAILURE: python UnitTestDbUtils.py {} test 221 Start 221: pythonTestSping 221: Test command: /usr/bin/python3.12 "/<>/rdkit/Chem/test_list.py" "--testDir" "/<>/rdkit/sping" 221: Working Directory: /<>/obj-arm-linux-gnueabihf/rdkit 221: Test timeout computed to be: 1500 220: ....No entry for terminal type "unknown"; 220: using dumb terminal settings. 220: ......... 220: ---------------------------------------------------------------------- 220: Ran 13 tests in 0.030s 220: 220: OK 218/222 Test #221: pythonTestSping ........................***Exception: SegFault 1.27 sec test 222 Start 222: pythonTestDirChem 222: Test command: /usr/bin/python3.12 "/<>/rdkit/Chem/test_list.py" "--testDir" "/<>/rdkit/Chem" "--buildType" "None" 222: Working Directory: /<>/obj-arm-linux-gnueabihf/rdkit/Chem 222: Test timeout computed to be: 1500 220: !!! TEST FAILURE: python UnitTestNodeLib.py {} 220: !!! TEST FAILURE: python test_list.py {'dir': 'NodeLib'} 219/222 Test #220: pythonTestDirVLib ......................***Failed 2.02 sec ....No entry for terminal type "unknown"; using dumb terminal settings. ......... ---------------------------------------------------------------------- Ran 13 tests in 0.030s OK !!! TEST FAILURE: python UnitTestNodeLib.py {} !!! TEST FAILURE: python test_list.py {'dir': 'NodeLib'} 220/222 Test #222: pythonTestDirChem ......................***Exception: SegFault 1.27 sec 132: [01:26:52] Molecule does not have explicit Hs. Consider calling AddHs() 221/222 Test #132: testDistGeomHelpers .................... Passed 388.10 sec 157: =============================================================================== 157: All tests passed (93 assertions in 5 test cases) 157: 222/222 Test #157: testRascalCluster ...................... Passed 208.69 sec 74% tests passed, 58 tests failed out of 222 Total Test time (real) = 509.09 sec The following tests FAILED: 2 - pyCoordGen (SEGFAULT) 26 - pyForceFieldConstraints (SEGFAULT) 61 - pyDepictor (SEGFAULT) 85 - pyChemReactions (SEGFAULT) 86 - pyChemReactionEnumerations (SEGFAULT) 87 - pyChemReactionSanitize (SEGFAULT) 91 - pyTautomerQuery (SEGFAULT) 96 - pyFilterCatalog (SEGFAULT) 98 - pyFragCatalog (SEGFAULT) 114 - pyMolDescriptors (SEGFAULT) 115 - pyMolDescriptors3D (SEGFAULT) 119 - fpTestCatch (Failed) 121 - pyTestGenerator (SEGFAULT) 122 - pyTestMHFP (SEGFAULT) 124 - pyPartialCharges (SEGFAULT) 126 - pyMolTransforms (SEGFAULT) 131 - pyForceFieldHelpers (SEGFAULT) 134 - pyDistGeomHelpers (SEGFAULT) 138 - pyMolAlign (SEGFAULT) 140 - pyChemicalFeatures (SEGFAULT) 142 - pyShapeHelpers (SEGFAULT) 144 - pyMolCatalog (SEGFAULT) 148 - pyMolDraw2D (SEGFAULT) 150 - pyFMCS (SEGFAULT) 153 - pyMolHash (SEGFAULT) 155 - pyMMPA (SEGFAULT) 158 - pyMolDraw2D (SEGFAULT) 160 - pyCIPLabelsWrapTest (SEGFAULT) 161 - pyCIPLabelsValidation (SEGFAULT) 163 - pyDeprotect (SEGFAULT) 165 - pyReducedGraphs (SEGFAULT) 169 - pySubstructLibrary (SEGFAULT) 173 - pyRGroupDecomposition (SEGFAULT) 176 - pyMolInterchange (SEGFAULT) 178 - pySLNParse (SEGFAULT) 179 - pyGraphMolWrap (SEGFAULT) 180 - pyTestConformerWrap (SEGFAULT) 181 - pyTestTrajectory (SEGFAULT) 182 - pyTestSGroups (SEGFAULT) 183 - pyTestThreads (SEGFAULT) 184 - pyTestMultithreadedMolSupplier (SEGFAULT) 185 - pyTestPropertyLists (SEGFAULT) 186 - pyCDXMLTest (SEGFAULT) 195 - pyMolStandardize (SEGFAULT) 197 - pyScaffoldNetwork (SEGFAULT) 198 - pyScaffoldNetworkPickling (SEGFAULT) 200 - pyMolEnumerator (SEGFAULT) 202 - pyAbbreviations (SEGFAULT) 204 - pyGeneralizedSubstruct (SEGFAULT) 213 - pyFeatures (SEGFAULT) 214 - pythonTestDbCLI (Failed) 216 - pythonTestDirML (Failed) 217 - pythonTestDirDataStructs (Failed) 218 - pythonTestDirDbase (Failed) 219 - pythonTestDirSimDivFilters (Failed) 220 - pythonTestDirVLib (Failed) 221 - pythonTestSping (SEGFAULT) 222 - pythonTestDirChem (SEGFAULT) Errors while running CTest make[2]: *** [Makefile:94: test] Error 8 make[2]: Leaving directory '/<>/obj-arm-linux-gnueabihf' dh_auto_test: error: cd obj-arm-linux-gnueabihf && make -j4 test ARGS\+=--verbose ARGS\+=-j4 returned exit code 2 make[1]: [debian/rules:133: override_dh_auto_test] Error 25 (ignored) make[1]: Leaving directory '/<>' create-stamp debian/debhelper-build-stamp dh_testroot -a -O--buildsystem=cmake dh_prep -a -O--buildsystem=cmake debian/rules override_dh_auto_install make[1]: Entering directory '/<>' dh_auto_install cd obj-arm-linux-gnueabihf && make -j4 install DESTDIR=/<>/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[2]: Entering directory '/<>/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/<> -B/<>/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/RDConfig.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/VLib -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/VLib/Filter.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/VLib/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/VLib/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/VLib/NodeLib -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/VLib/NodeLib/SmilesSupply.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/VLib/NodeLib/SmilesDupeFilter.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/VLib/NodeLib/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/VLib/NodeLib/DbMolSupply.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/VLib/NodeLib/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/VLib/NodeLib/SmartsMolFilter.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/VLib/NodeLib/SDSupply.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/VLib/NodeLib/SmilesOutput.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/VLib/NodeLib/DbPickleSupplier.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/VLib/NodeLib/SmartsRemover.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/VLib/NodeLib/demo.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/VLib/Supply.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/VLib/Output.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/VLib/Node.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/VLib/Transform.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/RDRandom.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ForceField -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ForceField/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Avalon -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Avalon/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Numerics -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Numerics/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/DataStructs -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/DataStructs/BitUtils.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/DataStructs/BitEnsemble.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/DataStructs/LazySignature.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/DataStructs/BitEnsembleDb.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/DataStructs/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/DataStructs/VectCollection.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/DataStructs/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/DataStructs/TopNContainer.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/DataStructs/HierarchyVis.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Geometry -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Geometry/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Dbase -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Dbase/DbModule.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Dbase/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Dbase/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Dbase/DbUtils.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Dbase/DbInfo.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Dbase/StorageUtils.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Dbase/DbConnection.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Dbase/DbReport.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Dbase/DbResultSet.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/utils -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/utils/listutils.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/utils/retest.txt -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/utils/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/utils/chemdraw.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/utils/chemutils.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/utils/fileutils.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/utils/spiral.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/utils/chemdraw_qax.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/utils/comhack.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/utils/cactvs.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/TestRunner.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/Qt -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/Qt/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/Qt/pidQt.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/Qt/pidQt4.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/TK -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/TK/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/TK/pidTK.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/patches -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/patches/Imaging-1.1-fixplugin-path -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/patches/Imaging-1.1.1.diff -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/examples -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/examples/formatted-strings.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/examples/tkCanvas-with-scrollbars.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/examples/tkCanvasPIL-with-scrollbars.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/pagesizes.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/README -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/utils.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/ReportLab -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/ReportLab/pidReportLab.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/ReportLab/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/Pyart -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/Pyart/pidPyart.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/Pyart/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/Pyart/Fontmapping.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/colors.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pidPIL.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/symbol-18.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-14.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/courier-bold-24.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-8.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/courier-12.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/times-8.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/courier-bold-24.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/times-bold-24.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/helvetica-18.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/metrics.dat -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/symbol-8.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/courier-12.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-8.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/courier-bold-12.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/times-bold-24.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/courier-bold-14.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/courier-8.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-24.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/symbol-14.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/courier-14.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/times-bold-12.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-10.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/courier-bold-12.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/helvetica-10.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/times-18.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/courier-bold-14.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-18.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/helvetica-12.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/courier-bold-18.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/courier-10.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/courier-14.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/times-24.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/courier-8.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/courier-bold-8.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/symbol-10.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/symbol-14.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/times-bold-10.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/times-14.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/times-10.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/helvetica-14.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/times-bold-14.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/times-18.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/courier-bold-10.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/courier-10.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-10.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/times-12.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/times-bold-18.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/symbol-12.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/times-8.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/times-bold-8.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/courier-bold-10.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/helvetica-18.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/removemedium.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-14.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/times-bold-8.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-18.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/courier-bold-18.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/symbol-24.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/times-bold-12.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-12.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/courier-24.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/symbol-18.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/helvetica-24.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/helvetica-12.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/courier-bold-8.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/courier-18.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-12.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/times-14.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/symbol-8.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/symbol-10.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/courier-18.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/courier-8.pil.1 -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/times-bold-10.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/times-12.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/symbol-12.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/symbol-24.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/times-24.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/helvetica-14.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/helvetica-8.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/helvetica-24.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/times-10.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/courier-24.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/times-bold-18.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/times-bold-14.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/helvetica-10.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/helvetica-8.pil -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-24.pbm -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/util -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/util/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/util/HTMLPiddler.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/WX -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/WX/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/WX/pidWxDc.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/WX/pidWX.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PS -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PS/fontinfo.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PS/psmetrics.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PS/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PS/latin1MetricsCache.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PS/pidPS.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PDF -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PDF/pdfdoc.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PDF/pdfgen.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PDF/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PDF/pdfutils.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PDF/pdfmetrics.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PDF/pdfgeom.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/PDF/pidPDF.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/pid.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/SVG -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/SVG/pidSVG.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/SVG/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/tests -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/tests/pidtest.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/tests/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/tests/testallps.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/tests/pstests.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/sping/stringformat.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/SimDivFilters -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/SimDivFilters/SimilarityPickers.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/SimDivFilters/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/SimDivFilters/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/RDLogger.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/DataManip -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/DataManip/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/DataManip/Metric -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/DataManip/Metric/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/DistanceGeometry -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/DistanceGeometry/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/six.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/MACCSkeys.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Descriptors.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/TemplateAlign.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/PandasTools.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/RegistrationHash.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/TorsionFingerprints.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/MolSurf.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/MCS.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/AtomPairs -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/AtomPairs/Sheridan.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/AtomPairs/Utils.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/AtomPairs/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/AtomPairs/Torsions.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/AtomPairs/Pairs.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/EnumerateHeterocycles.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/BRICS.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/EState -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/EState/AtomTypes.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/EState/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/EState/EState_VSA.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/EState/Fingerprinter.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/EState/EState.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/FilterCatalog.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/fmcs -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/fmcs/fmcs -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/fmcs/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/fmcs/fmcs.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/inchi.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/SimpleEnum -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/SimpleEnum/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/SimpleEnum/Enumerator.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/BuildFragmentCatalog.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Fingerprints -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Fingerprints/MolSimilarity.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Fingerprints/SimilarityScreener.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Fingerprints/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Fingerprints/ClusterMols.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Fingerprints/DbFpSupplier.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Fingerprints/FingerprintMols.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Features -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Features/FeatDirUtilsRD.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Features/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Features/ShowFeats.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/AllChem.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/EnumerateStereoisomers.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/SaltRemover.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Fraggle -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Fraggle/FraggleSim.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Fraggle/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/FeatFinderCLI.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/FragmentCatalog.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/ChemicalFeatures.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Suppliers -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Suppliers/DbMolSupplier.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Suppliers/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Suppliers/MolSupplier.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/GraphDescriptors.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/PandasPatcher.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Pharm3D -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Pharm3D/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Pharm3D/ExcludedVolume.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Pharm3D/EmbedLib.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Pharm3D/Pharmacophore.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Draw -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Draw/FreeSans.ttf -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Draw/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Draw/InteractiveRenderer.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Draw/SimilarityMaps.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Draw/cairoCanvas.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Draw/IPythonConsole.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Draw/canvasbase.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Draw/spingCanvas.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Draw/mplCanvas.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Draw/MolDrawing.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Draw/qtCanvas.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Draw/aggCanvas.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Scaffolds -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Scaffolds/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Scaffolds/MurckoScaffold.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Scaffolds/ScaffoldNetwork.ipynb -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/SATIS.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/SpacialScore.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/MolStandardize -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/MolStandardize/charge.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/MolStandardize/tautomer.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/MolStandardize/resonance.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/MolStandardize/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/MolStandardize/fragment.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/MolStandardize/utils.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/MolStandardize/standardize.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/MolStandardize/validate.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/MolStandardize/normalize.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/MolStandardize/validations.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/MolStandardize/errors.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/MolStandardize/metal.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/MolStandardize/test_standardizer.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/MolKey -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/MolKey/InchiInfo.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/MolKey/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/MolKey/MolKey.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/MolCatalog.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Pharm2D -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Pharm2D/Generate.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Pharm2D/SigFactory.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Pharm2D/LazyGenerator.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Pharm2D/Utils.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Pharm2D/Gobbi_Pharm2D.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Pharm2D/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Pharm2D/Matcher.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Lipinski.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Recap.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/ReducedGraphs.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/FeatMaps -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/FeatMaps/FeatMapPoint.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/FeatMaps/FeatMaps.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/FeatMaps/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/FeatMaps/FeatMapParser.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/FeatMaps/FeatMapUtils.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Descriptors3D.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Graphs.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/QED.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Subshape -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Subshape/testCombined.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Subshape/SubshapeObjects.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Subshape/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Subshape/BuilderUtils.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Subshape/SubshapeBuilder.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Subshape/SubshapeAligner.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Crippen.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Randomize.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/nbtests -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/nbtests/ChEMBL_quinolones.tsv -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/nbtests/rdkit-structure-renderer.ipynb -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/nbtests/github4823.ipynb -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/PyMol.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/DSViewer.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/ChemicalForceFields.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Fragments.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/MolDb -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/MolDb/Loader_sa.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/MolDb/Loader.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/MolDb/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/MolDb/Loader_orig.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/MolDb/FingerprintUtils.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/FastSDMolSupplier.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/PropertyMol.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/FragmentMatcher.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/FunctionalGroups.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/ChemUtils -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/ChemUtils/TemplateExpand.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/ChemUtils/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/ChemUtils/AlignDepict.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/ChemUtils/DescriptorUtilities.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/ChemUtils/BulkTester.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/ChemUtils/SDFToCSV.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/ShowMols.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Scoring -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Scoring/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Scoring/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Scoring/Scoring.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/AnalyzeComposite.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/CompositeRun.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/DecTree -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/DecTree/Tree.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/DecTree/ID3.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/DecTree/TreeUtils.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/DecTree/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/DecTree/BuildSigTree.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/DecTree/DecTree.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/DecTree/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/DecTree/QuantTree.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/DecTree/SigTree.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/DecTree/CrossValidate.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/DecTree/Forest.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/DecTree/TreeVis.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/DecTree/BuildQuantTree.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/DecTree/randomtest.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/DecTree/PruneTree.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/GrowComposite.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/files.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/InfoTheory -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/InfoTheory/BitRank.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/InfoTheory/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/InfoTheory/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/InfoTheory/BitClusterer.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/InfoTheory/entropy.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/EnrichPlot.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/MatOps.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Neural -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Neural/NetNode.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Neural/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Neural/Network.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Neural/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Neural/ActFuncs.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Neural/Trainers.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Neural/CrossValidate.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Neural/architecture.txt -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/ScreenComposite.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/SLT -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/SLT/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/SLT/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/SLT/Risk.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/MLUtils -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/MLUtils/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/MLUtils/VoteImg.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Descriptors -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Descriptors/Descriptors.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Descriptors/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Descriptors/Parser.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Descriptors/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Descriptors/CompoundDescriptors.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Descriptors/MoleculeDescriptors.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Data -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Data/DataUtils.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Data/Quantize.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Data/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Data/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Data/MLData.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Data/FindQuantBounds.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Data/Stats.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Data/SplitData.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Data/Transforms.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/BuildComposite.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/NaiveBayes -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/NaiveBayes/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/NaiveBayes/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/NaiveBayes/CrossValidate.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/NaiveBayes/ClassificationModel.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/ModelPackage -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/ModelPackage/PackageUtils.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/ModelPackage/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/ModelPackage/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/ModelPackage/Packager.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/KNN -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/KNN/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/KNN/DistFunctions.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/KNN/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/KNN/KNNModel.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/KNN/CrossValidate.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/KNN/KNNClassificationModel.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/KNN/KNNRegressionModel.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Cluster -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Cluster/ClusterUtils.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Cluster/murtagh_test.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Cluster/Butina.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Cluster/Resemblance.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Cluster/Clusters.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Cluster/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Cluster/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Cluster/ClusterVis.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Cluster/Murtagh.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Cluster/Standardize.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Composite -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Composite/Composite.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Composite/AdjustComposite.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Composite/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Composite/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Composite/BayesComposite.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Data -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/SmartsLib -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/SmartsLib/RLewis_smarts.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/SmartsLib/patty_rules.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/SmartsLib/tests -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/SmartsLib/tests/bench2.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/SmartsLib/tests/mols.1000.pkl.gz -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/SmartsLib/tests/fps.1000.counts.pkl.gz -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/Functional_Group_Hierarchy.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/FunctionalGroups.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/NCI -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/NCI/first_200.props.sdf -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/NCI/first_200.tpsa.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/NCI/first_5k.tpsa.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/NCI/first_5K.smi -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/Pains -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/Pains/test_data -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/Pains/test_data/run_tests.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/Pains/test_data/test_set3.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/Pains/test_data/wehi_mols.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/Pains/README.md -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/Pains/wehi_pains.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/struchk -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/struchk/checkfgs.trn -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/struchk/checkfgs.opt -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/struchk/checkfgs.chk -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/Crippen.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/FragmentDescriptors.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/BaseFeatures.fdef -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/Fonts -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/Fonts/roboto_regular_license.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/Fonts/font_dumper.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/Fonts/telex_font_license.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/Fonts/amadeus_font_license.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/Fonts/Telex-Regular.ttf -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/Fonts/Amadeus.ttf -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/DTDs -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/DTDs/RD_Model.dtd -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/DTDs/validate.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/DTDs/RD_Dataset.dtd -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/Salts.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/rddata.sql -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/RDData.sqlt -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/RDTests.sqlt -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Notebooks -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Notebooks/FingerprintGenerators.ipynb -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-DummyCores.ipynb -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-example-lactam.ipynb -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-Tests.ipynb -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-GA.ipynb -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Notebooks/MolStandardize.ipynb -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-MutipleCores.ipynb -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-GenericCores.ipynb -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-RingSubstitution.ipynb -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-StereoChemTest.ipynb -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Notebooks/compounds.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Images -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Images/wiki -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Images/wiki/morganfp_atomenv1.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Images/logo.lrg.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Images/logo.inkscape.svg -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Images/logo.ai -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Images/logo_plain.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Images/logo.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Images/logo_plain.inkscape.svg -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/Makefile -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/introduction_jp.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_27.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_28.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_57.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_22.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_61.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_37.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_26.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_18.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_48.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_17.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_38.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_29.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_47.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_8.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_42.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_50.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_10.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_14.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_62.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_49.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_7.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_2.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_15.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_51.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_56.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_4.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_9.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_43.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_33.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_39.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_52.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_1.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_25.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_41.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_44.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_58.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_19.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_11.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_55.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_35.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_3.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_12.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_20.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_59.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_24.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_46.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_31.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_5.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_6.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_13.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_40.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_30.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_16.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_45.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_34.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_54.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_53.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_21.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_60.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_32.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_36.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_23.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/Getting_Started_with_RDKit_in_Python_jp.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/The_RDKit_Book_jp.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/The_RDKit_database_cartridge_jp.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/terminology_jp.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/Supplementary_Text_jp.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/Installation_jp.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/An_overview_of_the_RDKit_jp.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/RDKit_cookbook_jp.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/index.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/conf.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/Backwards_incompatible_changes_jp.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Analysis -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Analysis/ForceField -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Analysis/ForceField/UFF Parameters.ods -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Analysis/ForceField/ForceFieldTerms.new.odt -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/LeadLikeT80_CorrMat.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/LeadLikeT80_Correlation.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/FragmentLikeT80_CorrMat.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/DrugLikeT80_Correlation.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/README -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/DrugLikeT80_CorrMat.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/FragmentLikeT80_Correlation.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/Makefile -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/Install.md -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/Cartridge.md -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/data -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/data/chiral.mol -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/data/bzr.sdf -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/data/s1p_chembldoc89753.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/data/invalid.mol -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/data/5ht3ligs.sdf -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/data/actives_5ht3.sdf.gz -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/data/MinimalFeatures.fdef -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/data/cdk2.sdf -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/data/solubility.train.sdf -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/data/README.md -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/data/test_multi_colours.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/data/solubility.test.sdf -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/data/input.mol -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/data/AmideBond.rxn -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/data/bzr.smi -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/data/actives_5ht3.sdf -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/GettingStartedInPython.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/Cookbook.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/Overview.md -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/GettingStartedInC++.md -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_21_im5.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/EnhancedStereoSSS_molC.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_17_im0.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/query_bonds.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_34_im0.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_36_im1.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/mcs_example_3.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/cdk2_mol2.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/nontetstereo_ex2.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_1_im0.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/nontetstereo_sp2.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_7_im4.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/atom_labels_3.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/nontetstereo_missing1.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_32_im0.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_21_im3.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/potential_stereo_double_bond3.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/atom_annotation_1.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/parastereo_1.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_21_im1.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_33_im2.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_35_im0.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/EnhancedStereoSSS_molE.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_28_im1.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/cdk2_mol1.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_20_im1.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_21_im2.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_1.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/EnhancedStereoSSS_molD.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_38_im0.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/similarity_map_fp3.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_39_im0.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_0_im2.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_13_im1.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/similarity_map_fp2.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_29_im0.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/reaction1.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/nontetstereo_ex1.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_7.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_30_im1.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_1_im1.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/atom_labels_2.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_0_im1.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_5.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_21_im0.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_10.jpg -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/similarity_map_rf.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/similarity_map_fp1.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/parastereo_2.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/nontetstereo_sp1.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/similarity_map_crippen.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/Cc1ccccc1.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_34_im2.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/EnhancedStereoSSS_molG.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/atom_labels_1.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_28_im0.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/substruct_search_parameters1.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_7_im1.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/nontetstereo_oh2.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_22_im0.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_32_im1.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/nontetstereo_tb2.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_7_im3.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_37_im1.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_3.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_7_im2.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/ary_group.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/query_atoms.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/mcs_example_1.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/nontetstereo_sp4.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_4.png -- Installing: 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/<>/debian/tmp/usr/share/RDKit/Docs/Book/C++Examples/example15.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/C++Examples/example14.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/C++Examples/example16.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/C++Examples/example3.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/C++Examples/example12.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/C++Examples/CMakeLists.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/C++Examples/example1.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/C++Examples/example5.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/C++Examples/example4.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/C++Examples/example8.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Descriptors.Descriptors.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Cluster.Murtagh.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Recap.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.DataStructs.cDataStructs.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Composite.AdjustComposite.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.MCS.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.VLib.NodeLib.DbPickleSupplier.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.FeatFinderCLI.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.BRICS.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Draw.cairoCanvas.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.QED.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdtrajectory.rst -- 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/<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.RDRandom.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.utils.cactvs.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.DataStructs.BitUtils.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Data.FindQuantBounds.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Cluster.ClusterVis.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.VLib.NodeLib.SmilesSupply.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdSLNParse.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Geometry.rdGeometry.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Fraggle.FraggleSim.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Fraggle.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdFingerprintGenerator.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Pharm3D.Pharmacophore.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdMolCatalog.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Suppliers.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.SigTree.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Neural.Trainers.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.MolKey.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.InfoTheory.rdInfoTheory.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Data.Quantize.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.CompositeRun.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.MolKey.InchiInfo.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.KNN.CrossValidate.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.QuantTree.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdCIPLabeler.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Crippen.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Fingerprints.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.MolStandardize.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Draw.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.inchi.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.FeatMaps.FeatMapPoint.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdMolTransforms.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.AtomPairs.Utils.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.utils.fileutils.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Descriptors3D.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Draw.aggCanvas.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Dbase.DbModule.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdqueries.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Dbase.DbReport.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Pharm2D.Matcher.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.FeatMaps.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.utils.listutils.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Lipinski.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.EState.Fingerprinter.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Scaffolds.MurckoScaffold.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.PeriodicTable.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.MLUtils.VoteImg.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.VLib.Node.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Data.DataUtils.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Dbase.DbInfo.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Pharm2D.SigFactory.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Draw.qtCanvas.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdchem.rst -- 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/<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdDeprotect.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Cluster.Standardize.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Randomize.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.BuildSigTree.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Subshape.SubshapeObjects.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Scaffolds.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Dbase.DbResultSet.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.six.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdForceFieldHelpers.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.TestRunner.rst -- Installing: 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/<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ForceField.rdForceField.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Pharm3D.ExcludedVolume.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Composite.Composite.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.TreeVis.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdEHTTools.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.BuildQuantTree.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Draw.MolDrawing.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.MolDb.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdDistGeom.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.utils.spiral.rst -- Installing: 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Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.MolSurf.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/index.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/api-docs.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/exts -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/exts/extapi.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/conf.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/RDKit_Book.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/BackwardsIncompatibleChanges.md -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/CIPLabeling.md -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/CodingStandards.md -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/images -- Installing: 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/<>/debian/tmp/usr/share/RDKit/Docs/Code/images/enhanced_stereo_and1_and2_base.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/images/enhanced_stereo_abs_and_expand.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/SGroups.md -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/gsocGeneralFileReader.md -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/EnhancedStereo.md -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/Chem -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/Chem/Pharm2D.triangles.ai -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/Chem/Pharm2D.triangles.jpg -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/Chem/Pharm2D.signatures.ai -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/Chem/FragmentCatalogs.html -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/Chem/Pharm2D.signatures.jpg -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/RD.css -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/Fastcluster -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/centroid.tsv -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/clustered.tsv -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/fastcluster.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/clustered_parse.tsv -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/README.md -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/fp.tsv -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/testdata -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/testdata/cdk2.sdf -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/testdata/converted.smi -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/testdata/sdf2smi.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/cdk2.smi -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/AtomAtomSimilarity -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/AtomAtomSimilarity/AtomAtomPathSimilarity.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/pzc -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/pzc/p_con.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/pzc/readme.md -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/pzc/p_con.html -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/indexing.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/search_mmp_db.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_smirks.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_search_subs_smart_output.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/simple.smi -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_search_trans_output.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_search_subs_output.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_smirks_mol_trans.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_search_trans_smarts_output.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_mmps_maxratio.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_smiles_mol_trans.smi -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample.smi -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_input_smi.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_mol_trans_output.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_mmps_default.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_search_smi_output.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_cansmirks.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_input_trans.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_input_subs.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_mmps_sym.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_input_trans_smarts.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_input_subs_smarts.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_mmps_sym_maxheavy.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_transfroms.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_fragmented.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_mmps_maxheavy.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/README.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/create_mmp_db.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/rfrag.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/test_list.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/cansmirk.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/test_rfrag.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/mol_transform.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/NIBRSubstructureFilters -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/NIBRSubstructureFilters/examples -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/NIBRSubstructureFilters/examples/chembl24_structs_randomtestSample_100.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/NIBRSubstructureFilters/examples/chembl24_structs_randomtestSample_100_out.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/NIBRSubstructureFilters/assignSubstructureFilters.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/NIBRSubstructureFilters/FilterSet_NIBR2019_wPubChemExamples.html -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/NIBRSubstructureFilters/README.md -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/NIBRSubstructureFilters/SubstructureFilter_HitTriaging_wPubChemExamples.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/NIBRSubstructureFilters/filterExamples.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/PBF -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/PBF/Makefile -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/PBF/PBFRDKit.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/PBF/demo.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/PBF/testData -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/PBF/testData/egfr.sdf -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/PBF/testData/egfr.out -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/PBF/PBFRDKit.h -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/PBF/pbf.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/PBF/README -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/data -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/data/crystal_aligned.pdb -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/data/SKE_renamed.pdb -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/data/1d4i_BEG.pdb -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/data/ACP_crystal_aligned_1.pdb -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/data/5dpv.pdb -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/data/docked_2c6e_SKE_pH74_netcharge1.pdb -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/data/1C9_renamed.pdb -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/data/aurka_protein_2c6e.pdb -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/data/4i23_1C9.pdb -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/data/3w2c_N15.pdb -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/data/N15_renamed.pdb -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/data/docked_2c6e_ACP_pH74_netcharge1.pdb -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/data/ACP_crystal_aligned_2.pdb -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/data/4i24_1C9.pdb -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/data/docked_2c6e_N15_pH74_netcharge1.pdb -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/data/3m11_AKI.pdb -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/data/docked_2c6e_AKI_pH74_netcharge1.pdb -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/data/SKE_crystal_aligned_1.pdb -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/data/ACP_renamed.pdb -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/data/AKI_renamed.pdb -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/data/JVE_renamed.pdb -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/data/docked_2c6e_JVE_pH74_netcharge1.pdb -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/data/5dt0.pdb -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/data/6c83.pdb -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/data/4uzh_JVE.pdb -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/data/lig_crystal_aligned.pdb -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/data/docked_3w2p_1C9_pH74_netcharge1.pdb -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/data/BEG_test.pdb -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/CalcLigRMSD.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/figures -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/figures/5dpv_complex.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/figures/6c83_complex.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/figures/BEG.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/figures/1C9.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/figures/AKI.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/figures/JVE.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/figures/N15.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/README.md -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CalcLigRMSD/Examples_CalcLigRMSD.ipynb -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/RxnRoleAssignment -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/RxnRoleAssignment/__init__.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/RxnRoleAssignment/utils.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/RxnRoleAssignment/README.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/RxnRoleAssignment/identifyReactants.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/MolVS -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/MolVS/molvs_cli.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/SA_Score -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/SA_Score/data -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/SA_Score/data/zim.100.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/SA_Score/fpscores.pkl.gz -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/SA_Score/sascorer.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/SA_Score/README -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/SA_Score/UnitTestSAScore.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/IFG -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/IFG/README -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/IFG/ifg.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CMakeLists.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/ConformerParser -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/ConformerParser.h -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/CMakeLists.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/Wrap -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/Wrap/CMakeLists.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/Wrap/test_list.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/Wrap/testConformerParser.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/Wrap/rdConformerParser.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/ConformerParser.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/test_list.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/test.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/LEF -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/LEF/CreateFps.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/LEF/DistancePlot.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/LEF/DistancePredict.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/LEF/ClusterFps.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/LEF/README.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/LEF/AddLabels.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/NP_Score -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/NP_Score/publicnp.model.gz -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/NP_Score/README -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/NP_Score/npscorer.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/FreeWilson -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/FreeWilson/freewilson.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/FreeWilson/data -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/FreeWilson/data/CHEMBL2321810_act.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/FreeWilson/data/CHEMBL2321810_scaffold.mol -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/FreeWilson/data/CHEMBL2321810.smi -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/FreeWilson/test -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/FreeWilson/test/test_freewilson.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/FreeWilson/pytest.ini -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/FreeWilson/README.md -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/FreeWilson/setup.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/FreeWilson/requirements.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/ChiralPairs -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/ChiralPairs/ChiralDescriptors.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/ChiralPairs/README.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/Glare -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/Glare/glare.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/Glare/README.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/M_Kossner -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/M_Kossner/Frames.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/M_Kossner/BaseFeatures_DIP2_NoMicrospecies.fdef -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/M_Kossner/README -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/fraggle -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/fraggle/fraggle.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/fraggle/atomcontrib.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/fraggle/data -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/fraggle/data/fragmentation_tversky_out -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/fraggle/data/final_fraggle_results.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/fraggle/data/query.smi -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/fraggle/data/query_fragmentation.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/fraggle/data/ChEMBL_11265_actives.smi -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/fraggle/cxn_tversky.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/fraggle/rdkit_tversky.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/fraggle/readme.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Projects -- Installing: /<>/debian/tmp/usr/share/RDKit/Projects/__pycache__ -- Installing: /<>/debian/tmp/usr/share/RDKit/Projects/DbCLI -- Installing: /<>/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData -- Installing: /<>/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData/bzr.sdf -- Installing: /<>/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData/README -- Installing: /<>/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData/pubchem.200.sdf -- Installing: /<>/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData/bzr.2.smi -- Installing: /<>/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData/bzr.smi -- Installing: /<>/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData/bzr_q1.mol -- Installing: /<>/debian/tmp/usr/share/RDKit/Projects/DbCLI/moe_like.dsc -- Installing: /<>/debian/tmp/usr/share/RDKit/Projects/DbCLI/TestDbCLI.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Projects/DbCLI/CreateDb.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Projects/DbCLI/SearchDb.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Scripts -- Installing: /<>/debian/tmp/usr/share/RDKit/Scripts/create_deb_packages.sh -- Installing: /<>/debian/tmp/usr/share/RDKit/Scripts/PythonFormat.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Scripts/FeatFinderCLI.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Scripts/README.md -- Installing: /<>/debian/tmp/usr/share/RDKit/Scripts/test.sh -- Installing: /<>/debian/tmp/usr/share/RDKit/README -- Installing: /<>/debian/tmp/usr/share/RDKit/license.txt -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/CoordGen.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdCoordGen.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitga.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitga.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitga.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitRDGeneral.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitRDGeneral.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitRDGeneral.so -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/Exceptions.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/BadFileException.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/BoostStartInclude.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/BoostEndInclude.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/Dict.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/FileParseException.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/Invariant.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/RDAny.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/RDValue.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/RDValue-doublemagic.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/RDValue-taggedunion.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/RDLog.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/RDProps.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/RDThreads.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/StreamOps.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/types.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/utils.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/versions.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/RDConfig.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/LocaleSwitcher.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/Ranking.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/hanoiSort.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/RDExportMacros.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/export.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/test.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/ConcurrentQueue.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/hash -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/hash/detail -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/hash/detail/float_functions.hpp -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/hash/detail/hash_float.hpp -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/hash/hash_fwd.hpp -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/hash/hash.hpp -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/hash/extensions.hpp -- Installing: /<>/debian/tmp/usr/lib/libRDKitRDBoost.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitRDBoost.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitRDBoost.so -- Installing: /<>/debian/tmp/usr/include/rdkit/RDBoost/Wrap.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDBoost/PySequenceHolder.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDBoost/list_indexing_suite.hpp -- Installing: /<>/debian/tmp/usr/include/rdkit/RDBoost/python.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDBoost/boost_numpy.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDBoost/python_streambuf.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/rdBase.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitRDStreams.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitRDStreams.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitRDStreams.so -- Installing: /<>/debian/tmp/usr/include/rdkit/RDStreams/streams.h -- Installing: /<>/debian/tmp/usr/lib/libRDKitDataStructs.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitDataStructs.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitDataStructs.so -- Installing: /<>/debian/tmp/usr/include/rdkit/DataStructs/base64.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DataStructs/BitOps.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DataStructs/BitVect.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DataStructs/BitVects.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DataStructs/BitVectUtils.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DataStructs/DatastructsException.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DataStructs/DatastructsStreamOps.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DataStructs/DiscreteDistMat.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DataStructs/DiscreteValueVect.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DataStructs/ExplicitBitVect.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DataStructs/SparseBitVect.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DataStructs/SparseIntVect.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DataStructs/FPBReader.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DataStructs/MultiFPBReader.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/DataStructs/cDataStructs.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitRDGeometryLib.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitRDGeometryLib.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitRDGeometryLib.so -- Installing: /<>/debian/tmp/usr/include/rdkit/Geometry/Grid3D.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Geometry/GridUtils.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Geometry/point.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Geometry/Transform2D.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Geometry/Transform3D.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Geometry/Transform.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Geometry/UniformGrid3D.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Geometry/Utils.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Geometry/rdGeometry.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitAlignment.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitAlignment.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitAlignment.so -- Installing: /<>/debian/tmp/usr/include/rdkit/Numerics/Alignment/AlignPoints.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Numerics/rdAlignment.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitEigenSolvers.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitEigenSolvers.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitEigenSolvers.so -- Installing: /<>/debian/tmp/usr/include/rdkit/Numerics/EigenSolvers/PowerEigenSolver.h -- Installing: /<>/debian/tmp/usr/lib/libRDKitOptimizer.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitOptimizer.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitOptimizer.so -- Installing: /<>/debian/tmp/usr/include/rdkit/Numerics/Optimizer/BFGSOpt.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Numerics/Matrix.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Numerics/SquareMatrix.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Numerics/SymmMatrix.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Numerics/Vector.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Numerics/Conrec.h -- Installing: /<>/debian/tmp/usr/lib/libRDKitForceField.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitForceField.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitForceField.so -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/Contrib.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/ForceField.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/UFF/AngleBend.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/UFF/BondStretch.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/UFF/Contribs.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/UFF/DistanceConstraint.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/UFF/AngleConstraint.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/UFF/TorsionConstraint.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/UFF/PositionConstraint.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/UFF/Nonbonded.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/UFF/Params.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/UFF/Inversion.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/UFF/TorsionAngle.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/MMFF/AngleBend.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/MMFF/BondStretch.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/MMFF/StretchBend.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/MMFF/OopBend.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/MMFF/TorsionAngle.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/MMFF/Nonbonded.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/MMFF/Contribs.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/MMFF/DistanceConstraint.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/MMFF/AngleConstraint.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/MMFF/TorsionConstraint.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/MMFF/PositionConstraint.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/MMFF/Params.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ForceField/rdForceField.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitDistGeometry.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitDistGeometry.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitDistGeometry.so -- Installing: /<>/debian/tmp/usr/include/rdkit/DistGeom/BoundsMatrix.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DistGeom/ChiralSet.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DistGeom/ChiralViolationContrib.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DistGeom/DistGeomUtils.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DistGeom/DistViolationContrib.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DistGeom/FourthDimContrib.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DistGeom/TriangleSmooth.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/DistanceGeometry/DistGeom.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitCatalogs.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitCatalogs.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitCatalogs.so -- Installing: /<>/debian/tmp/usr/include/rdkit/Catalogs/CatalogEntry.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Catalogs/Catalog.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Catalogs/CatalogParams.h -- Installing: /<>/debian/tmp/usr/lib/libRDKitGraphMol.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitGraphMol.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitGraphMol.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Atom.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/atomic_data.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/AtomIterators.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Bond.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/BondIterators.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Canon.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Chirality.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Conformer.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/details.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/GraphMol.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolOps.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolPickler.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/PeriodicTable.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/QueryAtom.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/QueryBond.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/QueryOps.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/RDKitBase.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/RDKitQueries.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Resonance.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/RingInfo.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Rings.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ROMol.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/RWMol.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/SanitException.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/SubstanceGroup.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/StereoGroup.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MonomerInfo.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/new_canon.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolBundle.h -- Installing: /<>/debian/tmp/usr/lib/libRDKitSmilesParse.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitSmilesParse.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitSmilesParse.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/SmilesParse/primes.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/SmilesParse/SmartsWrite.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/SmilesParse/SmilesParse.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/SmilesParse/SmilesParseOps.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/SmilesParse/SmilesWrite.h -- Installing: /<>/debian/tmp/usr/lib/libRDKitDepictor.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitDepictor.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitDepictor.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Depictor/DepictUtils.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Depictor/EmbeddedFrag.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Depictor/RDDepictor.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdDepictor.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitMarvinParser.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMarvinParser.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMarvinParser.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MarvinParser/MarvinParser.h -- Installing: /<>/debian/tmp/usr/lib/libRDKitFileParsers.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitFileParsers.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitFileParsers.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/CDXMLParser.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/FileParsers.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/FileParserUtils.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/MolFileStereochem.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/MolSupplier.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/MolWriters.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/SequenceParsers.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/SequenceWriters.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/GeneralFileReader.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/MultithreadedMolSupplier.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/MultithreadedSmilesMolSupplier.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/MultithreadedSDMolSupplier.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/PNGParser.h -- Installing: /<>/debian/tmp/usr/lib/libRDKitSubstructMatch.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitSubstructMatch.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitSubstructMatch.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Substruct/SubstructMatch.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Substruct/SubstructUtils.h -- Installing: /<>/debian/tmp/usr/lib/libRDKitGenericGroups.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitGenericGroups.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitGenericGroups.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/GenericGroups/GenericGroups.h -- Installing: /<>/debian/tmp/usr/lib/libRDKitChemReactions.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitChemReactions.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitChemReactions.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/Reaction.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/ReactionParser.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/ReactionPickler.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/ReactionFingerprints.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/ReactionUtils.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/ReactionRunner.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/PreprocessRxn.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/SanitizeRxn.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/Enumerate/Enumerate.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/Enumerate/EnumerateBase.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/Enumerate/EnumerateTypes.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/Enumerate/EnumerationPickler.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/Enumerate/EnumerationStrategyBase.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/Enumerate/CartesianProduct.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/Enumerate/RandomSample.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/Enumerate/RandomSampleAllBBs.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdChemReactions.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitChemTransforms.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitChemTransforms.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitChemTransforms.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemTransforms/ChemTransforms.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemTransforms/MolFragmenter.h -- Installing: /<>/debian/tmp/usr/lib/libRDKitTautomerQuery.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitTautomerQuery.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitTautomerQuery.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/TautomerQuery/TautomerQuery.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdTautomerQuery.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitSubgraphs.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitSubgraphs.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitSubgraphs.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Subgraphs/Subgraphs.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Subgraphs/SubgraphUtils.h -- Installing: /<>/debian/tmp/usr/lib/libRDKitFilterCatalog.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitFilterCatalog.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitFilterCatalog.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FilterCatalog/FilterCatalogEntry.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FilterCatalog/FilterCatalog.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FilterCatalog/FilterMatcherBase.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FilterCatalog/FilterMatchers.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FilterCatalog/FunctionalGroupHierarchy.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdfiltercatalog.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitFragCatalog.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitFragCatalog.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitFragCatalog.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FragCatalog/FragCatalogEntry.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FragCatalog/FragCatalogUtils.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FragCatalog/FragCatGenerator.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FragCatalog/FragCatParams.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FragCatalog/FragFPGenerator.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdfragcatalog.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitDescriptors.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitDescriptors.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitDescriptors.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/Crippen.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/BCUT.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/Lipinski.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/MolDescriptors.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/MolSurf.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/ConnectivityDescriptors.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/MQN.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/RegisterDescriptor.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/Property.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/AUTOCORR2D.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/Data3Ddescriptors.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/MolData3Ddescriptors.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/USRDescriptor.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/AtomFeat.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/OxidationNumbers.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/MolDescriptors3D.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/EEM.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/PBF.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/PMI.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/AUTOCORR3D.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/RDF.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/MORSE.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/GETAWAY.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/WHIM.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/CoulombMat.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdMolDescriptors.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitFingerprints.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitFingerprints.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitFingerprints.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Fingerprints/AtomPairs.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Fingerprints/Fingerprints.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Fingerprints/MorganFingerprints.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Fingerprints/MACCS.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Fingerprints/MHFP.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Fingerprints/FingerprintGenerator.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Fingerprints/AtomPairGenerator.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Fingerprints/MorganGenerator.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Fingerprints/RDKitFPGenerator.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Fingerprints/TopologicalTorsionGenerator.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Fingerprints/FingerprintUtil.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdFingerprintGenerator.so -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdMHFPFingerprint.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitPartialCharges.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitPartialCharges.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitPartialCharges.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/PartialCharges/GasteigerCharges.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/PartialCharges/GasteigerParams.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdPartialCharges.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolTransforms.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolTransforms.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolTransforms.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolTransforms/MolTransforms.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdMolTransforms.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitForceFieldHelpers.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitForceFieldHelpers.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitForceFieldHelpers.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ForceFieldHelpers/FFConvenience.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ForceFieldHelpers/UFF/AtomTyper.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ForceFieldHelpers/UFF/Builder.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ForceFieldHelpers/UFF/UFF.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ForceFieldHelpers/MMFF/AtomTyper.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ForceFieldHelpers/MMFF/Builder.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ForceFieldHelpers/MMFF/MMFF.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ForceFieldHelpers/CrystalFF/TorsionAngleM6.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ForceFieldHelpers/CrystalFF/TorsionPreferences.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdForceFieldHelpers.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitDistGeomHelpers.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitDistGeomHelpers.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitDistGeomHelpers.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/DistGeomHelpers/Embedder.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdDistGeom.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolAlign.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolAlign.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolAlign.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitO3AAlign.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitO3AAlign.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitO3AAlign.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolAlign/AlignMolecules.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolAlign/O3AAlignMolecules.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdMolAlign.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolChemicalFeatures.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolChemicalFeatures.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolChemicalFeatures.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolChemicalFeatures/FeatureParser.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolChemicalFeatures/MolChemicalFeatureFactory.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolChemicalFeatures/MolChemicalFeatureDef.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolChemicalFeatures/MolChemicalFeature.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdMolChemicalFeatures.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitShapeHelpers.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitShapeHelpers.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitShapeHelpers.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ShapeHelpers/ShapeEncoder.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ShapeHelpers/ShapeUtils.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdShapeHelpers.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolCatalog.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolCatalog.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolCatalog.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolCatalog/MolCatalogEntry.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolCatalog/MolCatalog.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolCatalog/MolCatalogParams.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdMolCatalog.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2D.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2DSVG.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2Dwx.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2DJS.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2DUtils.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2DHelpers.h -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolDraw2D.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolDraw2D.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolDraw2D.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2DCairo.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Draw/rdMolDraw2D.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitFMCS.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitFMCS.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitFMCS.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FMCS/FMCS.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FMCS/Graph.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdFMCS.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolHash.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolHash.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolHash.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolHash/MolHash.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolHash/nmmolhash.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdMolHash.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitMMPA.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMMPA.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMMPA.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MMPA/MMPA.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdMMPA.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitRascalMCES.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitRascalMCES.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitRascalMCES.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/RascalMCES/RascalMCES.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/RascalMCES/RascalOptions.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/RascalMCES/RascalClusterOptions.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/RascalMCES/RascalResult.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdRascalMCES.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitCIPLabeler.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitCIPLabeler.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitCIPLabeler.so -- Installing: /<>/debian/tmp/usr/include/rdkit/CIPLabeler/CIPLabeler.h -- Installing: /<>/debian/tmp/usr/include/rdkit/CIPLabeler/TooManyNodesException.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdCIPLabeler.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitDeprotect.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitDeprotect.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitDeprotect.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Deprotect/Deprotect.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdDeprotect.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitReducedGraphs.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitReducedGraphs.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitReducedGraphs.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ReducedGraphs/ReducedGraphs.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdReducedGraphs.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitTrajectory.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitTrajectory.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitTrajectory.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Trajectory/Snapshot.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Trajectory/Trajectory.h -- Installing: /<>/debian/tmp/usr/lib/libRDKitSubstructLibrary.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitSubstructLibrary.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitSubstructLibrary.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/SubstructLibrary/SubstructLibrary.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/SubstructLibrary/SubstructLibrarySerialization.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/SubstructLibrary/PatternFactory.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdSubstructLibrary.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitRGroupDecomposition.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitRGroupDecomposition.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitRGroupDecomposition.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/RGroupDecomposition/RGroupDecomp.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/RGroupDecomposition/RGroupDecompParams.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdRGroupDecomposition.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolInterchange.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolInterchange.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolInterchange.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolInterchange/MolInterchange.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolInterchange/details.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdMolInterchange.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitSLNParse.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitSLNParse.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitSLNParse.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/SLNParse/SLNAttribs.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/SLNParse/SLNParse.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/SLNParse/SLNParseOps.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdSLNParse.so -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdchem.so -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdmolops.so -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdqueries.so -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdmolfiles.so -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdtrajectory.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolStandardize.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolStandardize.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolStandardize.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/MolStandardize.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/Metal.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/Normalize.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/Validate.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/Charge.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/Tautomer.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/Fragment.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogEntry.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogParams.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogUtils.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogEntry.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogParams.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogUtils.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/TransformCatalog/TransformCatalogEntry.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/TransformCatalog/TransformCatalogParams.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/TransformCatalog/TransformCatalogUtils.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogEntry.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogParams.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogUtils.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/MolStandardize/rdMolStandardize.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitScaffoldNetwork.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitScaffoldNetwork.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitScaffoldNetwork.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ScaffoldNetwork/ScaffoldNetwork.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/Scaffolds/rdScaffoldNetwork.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolEnumerator.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolEnumerator.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolEnumerator.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolEnumerator/MolEnumerator.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolEnumerator/LinkNode.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdMolEnumerator.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitAbbreviations.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitAbbreviations.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitAbbreviations.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Abbreviations/Abbreviations.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdAbbreviations.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitGeneralizedSubstruct.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitGeneralizedSubstruct.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitGeneralizedSubstruct.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/GeneralizedSubstruct/XQMol.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdGeneralizedSubstruct.so -- Installing: /<>/debian/tmp/usr/include/rdkit/Query/AndQuery.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Query/EqualityQuery.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Query/GreaterEqualQuery.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Query/GreaterQuery.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Query/LessEqualQuery.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Query/LessQuery.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Query/NullQueryAlgebra.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Query/OrQuery.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Query/Query.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Query/QueryObjects.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Query/RangeQuery.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Query/SetQuery.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Query/XOrQuery.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Features/Feature.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DataManip/MetricMatrixCalc/MetricFuncs.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DataManip/MetricMatrixCalc/MetricMatrixCalc.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/DataManip/Metric/rdMetricMatrixCalc.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitSimDivPickers.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitSimDivPickers.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitSimDivPickers.so -- Installing: /<>/debian/tmp/usr/include/rdkit/SimDivPickers/DistPicker.h -- Installing: /<>/debian/tmp/usr/include/rdkit/SimDivPickers/LeaderPicker.h -- Installing: /<>/debian/tmp/usr/include/rdkit/SimDivPickers/HierarchicalClusterPicker.h -- Installing: /<>/debian/tmp/usr/include/rdkit/SimDivPickers/MaxMinPicker.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/SimDivFilters/rdSimDivPickers.so -- Installing: /<>/debian/tmp/usr/lib/libRDKithc.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKithc.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKithc.so -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Cluster/Clustering.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitInfoTheory.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitInfoTheory.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitInfoTheory.so -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/InfoTheory/rdInfoTheory.so -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/ML/Data/cQuantize.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitChemicalFeatures.so.1.2023.09.3 -- Installing: /<>/debian/tmp/usr/lib/libRDKitChemicalFeatures.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitChemicalFeatures.so -- Installing: /<>/debian/tmp/usr/include/rdkit/ChemicalFeatures/ChemicalFeature.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ChemicalFeatures/FreeChemicalFeature.h -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/Chem/rdChemicalFeatures.so -- Installing: /<>/debian/tmp/usr/lib/python3.12/site-packages/rdkit/RDPaths.py -- Installing: /<>/debian/tmp/usr/lib/cmake/rdkit/rdkit-targets.cmake -- Installing: /<>/debian/tmp/usr/lib/cmake/rdkit/rdkit-targets-none.cmake -- Installing: /<>/debian/tmp/usr/lib/cmake/rdkit/rdkit-config.cmake -- Installing: /<>/debian/tmp/usr/lib/cmake/rdkit/rdkit-config-version.cmake make[2]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[1]: Leaving directory '/<>' debian/rules override_dh_install make[1]: Entering directory '/<>' mkdir -p /<>/debian/tmp/usr/lib/python3 mv /<>/debian/tmp/usr/lib/python3.12/site-packages /<>/debian/tmp/usr/lib/python3/dist-packages rm -f -rf /<>/debian/tmp/usr/lib/python3.12 ln -sf /usr/share/fonts/truetype/freefont/FreeSans.ttf /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Draw/FreeSans.ttf dh_install -ppython3-rdkit /usr/lib/python3 rm -f -rf /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/docs/ rm -f -rf /<>/debian/tmp/usr/share/RDKit/Projects/__pycache__ dh_numpy3 dh_install mkdir -p /<>/debian/rdkit-doc/usr/share/doc/rdkit/ cp /<>/Docs/Book/_build/latex/RDKit.pdf /<>/debian/rdkit-doc/usr/share/doc/rdkit/ cp -a /<>/Docs/Book/_build/html /<>/debian/rdkit-doc/usr/share/doc/rdkit/ pg_buildext install /<>/Code/PgSQL/rdkit build-%v postgresql-%v-rdkit ### PostgreSQL 16 install ### make[2]: Entering directory '/<>/build-16' /bin/mkdir -p '/<>/debian/postgresql-16-rdkit/usr/lib/postgresql/16/lib' /bin/mkdir -p '/<>/debian/postgresql-16-rdkit/usr/share/postgresql/16/extension' /bin/mkdir -p '/<>/debian/postgresql-16-rdkit/usr/share/postgresql/16/extension' /usr/bin/install -c -m 755 rdkit.so '/<>/debian/postgresql-16-rdkit/usr/lib/postgresql/16/lib/rdkit.so' /usr/bin/install -c -m 644 /<>/Code/PgSQL/rdkit/rdkit.control '/<>/debian/postgresql-16-rdkit/usr/share/postgresql/16/extension/' /usr/bin/install -c -m 644 rdkit--4.4.0.sql '/<>/debian/postgresql-16-rdkit/usr/share/postgresql/16/extension/' /bin/mkdir -p '/<>/debian/postgresql-16-rdkit/usr/lib/postgresql/16/lib/bitcode/rdkit' /bin/mkdir -p '/<>/debian/postgresql-16-rdkit/usr/lib/postgresql/16/lib/bitcode'/rdkit/ /usr/bin/install -c -m 644 rdkit_io.bc '/<>/debian/postgresql-16-rdkit/usr/lib/postgresql/16/lib/bitcode'/rdkit/./ /usr/bin/install -c -m 644 mol_op.bc '/<>/debian/postgresql-16-rdkit/usr/lib/postgresql/16/lib/bitcode'/rdkit/./ /usr/bin/install -c -m 644 bfp_op.bc '/<>/debian/postgresql-16-rdkit/usr/lib/postgresql/16/lib/bitcode'/rdkit/./ /usr/bin/install -c -m 644 sfp_op.bc '/<>/debian/postgresql-16-rdkit/usr/lib/postgresql/16/lib/bitcode'/rdkit/./ /usr/bin/install -c -m 644 rxn_op.bc '/<>/debian/postgresql-16-rdkit/usr/lib/postgresql/16/lib/bitcode'/rdkit/./ /usr/bin/install -c -m 644 rdkit_gist.bc '/<>/debian/postgresql-16-rdkit/usr/lib/postgresql/16/lib/bitcode'/rdkit/./ /usr/bin/install -c -m 644 bfp_gist.bc '/<>/debian/postgresql-16-rdkit/usr/lib/postgresql/16/lib/bitcode'/rdkit/./ /usr/bin/install -c -m 644 bfp_gin.bc '/<>/debian/postgresql-16-rdkit/usr/lib/postgresql/16/lib/bitcode'/rdkit/./ /usr/bin/install -c -m 644 low_gist.bc '/<>/debian/postgresql-16-rdkit/usr/lib/postgresql/16/lib/bitcode'/rdkit/./ /usr/bin/install -c -m 644 guc.bc '/<>/debian/postgresql-16-rdkit/usr/lib/postgresql/16/lib/bitcode'/rdkit/./ /usr/bin/install -c -m 644 cache.bc '/<>/debian/postgresql-16-rdkit/usr/lib/postgresql/16/lib/bitcode'/rdkit/./ /usr/bin/install -c -m 644 adapter.bc '/<>/debian/postgresql-16-rdkit/usr/lib/postgresql/16/lib/bitcode'/rdkit/./ /usr/bin/install -c -m 644 bitstring.bc '/<>/debian/postgresql-16-rdkit/usr/lib/postgresql/16/lib/bitcode'/rdkit/./ cd '/<>/debian/postgresql-16-rdkit/usr/lib/postgresql/16/lib/bitcode' && /usr/lib/llvm-17/bin/llvm-lto -thinlto -thinlto-action=thinlink -o rdkit.index.bc rdkit/rdkit_io.bc rdkit/mol_op.bc rdkit/bfp_op.bc rdkit/sfp_op.bc rdkit/rxn_op.bc rdkit/rdkit_gist.bc rdkit/bfp_gist.bc rdkit/bfp_gin.bc rdkit/low_gist.bc rdkit/guc.bc rdkit/cache.bc rdkit/adapter.bc rdkit/bitstring.bc make[2]: Leaving directory '/<>/build-16' ### End 16 install ### ln -sf /usr/share/javascript/jquery/jquery.js /<>/debian/rdkit-doc/usr/share/doc/rdkit//html/cppapi/jquery.js ln -sf /usr/share/javascript/jquery/jquery.js /<>/debian/rdkit-doc/usr/share/doc/rdkit//html/_static/jquery.js ln -sf /usr/share/javascript/underscore/underscore.js /<>/debian/rdkit-doc/usr/share/doc/rdkit//html/_static/underscore.js make[1]: Leaving directory '/<>' dh_installdocs -a -O--buildsystem=cmake debian/rules override_dh_installchangelogs make[1]: Entering directory '/<>' dh_installchangelogs ReleaseNotes.md make[1]: Leaving directory '/<>' debian/rules override_dh_python3 make[1]: Entering directory '/<>' dh_python3 -ppython3-rdkit I: dh_python3 fs:431: renaming rdBase.so to rdBase.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdForceField.so to rdForceField.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdAlignment.so to rdAlignment.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming cDataStructs.so to cDataStructs.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdGeometry.so to rdGeometry.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdSimDivPickers.so to rdSimDivPickers.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdMetricMatrixCalc.so to rdMetricMatrixCalc.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming DistGeom.so to DistGeom.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdAbbreviations.so to rdAbbreviations.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdCIPLabeler.so to rdCIPLabeler.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdChemReactions.so to rdChemReactions.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdChemicalFeatures.so to rdChemicalFeatures.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdCoordGen.so to rdCoordGen.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdDepictor.so to rdDepictor.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdDeprotect.so to rdDeprotect.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdDistGeom.so to rdDistGeom.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdFMCS.so to rdFMCS.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdFingerprintGenerator.so to rdFingerprintGenerator.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdForceFieldHelpers.so to rdForceFieldHelpers.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdGeneralizedSubstruct.so to rdGeneralizedSubstruct.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdMHFPFingerprint.so to rdMHFPFingerprint.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdMMPA.so to rdMMPA.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdMolAlign.so to rdMolAlign.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdMolCatalog.so to rdMolCatalog.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdMolChemicalFeatures.so to rdMolChemicalFeatures.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdMolDescriptors.so to rdMolDescriptors.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdMolEnumerator.so to rdMolEnumerator.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdMolHash.so to rdMolHash.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdMolInterchange.so to rdMolInterchange.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdMolTransforms.so to rdMolTransforms.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdPartialCharges.so to rdPartialCharges.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdRGroupDecomposition.so to rdRGroupDecomposition.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdRascalMCES.so to rdRascalMCES.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdReducedGraphs.so to rdReducedGraphs.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdSLNParse.so to rdSLNParse.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdShapeHelpers.so to rdShapeHelpers.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdSubstructLibrary.so to rdSubstructLibrary.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdTautomerQuery.so to rdTautomerQuery.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdchem.so to rdchem.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdfiltercatalog.so to rdfiltercatalog.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdfragcatalog.so to rdfragcatalog.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdmolfiles.so to rdmolfiles.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdmolops.so to rdmolops.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdqueries.so to rdqueries.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdtrajectory.so to rdtrajectory.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdMolDraw2D.so to rdMolDraw2D.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdScaffoldNetwork.so to rdScaffoldNetwork.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdMolStandardize.so to rdMolStandardize.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming rdInfoTheory.so to rdInfoTheory.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming cQuantize.so to cQuantize.cpython-312-arm-linux-gnueabihf.so I: dh_python3 fs:431: renaming Clustering.so to Clustering.cpython-312-arm-linux-gnueabihf.so dh_numpy3 -ppython3-rdkit make[1]: Leaving directory '/<>' dh_installsystemduser -a -O--buildsystem=cmake dh_lintian -a -O--buildsystem=cmake dh_perl -a -O--buildsystem=cmake dh_link -a -O--buildsystem=cmake dh_strip_nondeterminism -a -O--buildsystem=cmake dh_compress -a -O--buildsystem=cmake dh_fixperms -a -O--buildsystem=cmake debian/rules override_dh_missing make[1]: Entering directory '/<>' dh_missing --list-missing dh_missing: warning: usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/DrugLikeT80_CorrMat.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/DrugLikeT80_Correlation.csv exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/FragmentLikeT80_CorrMat.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/FragmentLikeT80_Correlation.csv exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/LeadLikeT80_CorrMat.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/LeadLikeT80_Correlation.csv exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/README exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Analysis/ForceField/ForceFieldTerms.new.odt exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Analysis/ForceField/UFF Parameters.ods exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/BackwardsIncompatibleChanges.md exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/CMakeLists.txt exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/FindMyRDKit.cmake exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example1.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example10.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example11.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example12.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example13.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example14.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example15.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example16.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example17.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example2.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example3.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example4.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example5.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example6.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example7.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example8.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example9.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/Cartridge.md exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/Cookbook.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/GettingStartedInC++.md exists in debian/tmp but is not installed to anywhere dh_missing: 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usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_46.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_47.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_48.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_49.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_5.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_50.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_51.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_52.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_53.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_54.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_55.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_56.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_57.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_58.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_59.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_6.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_60.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_61.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_62.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_7.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_8.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_9.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/terminology_jp.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/CIPLabeling.md exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/Chem/FragmentCatalogs.html exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/Chem/Pharm2D.signatures.ai exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/Chem/Pharm2D.signatures.jpg exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/Chem/Pharm2D.triangles.ai exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/Chem/Pharm2D.triangles.jpg exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/CodingStandards.md exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/EnhancedStereo.md exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/SGroups.md exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/gsocGeneralFileReader.md exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/images/enhanced_stereo_abs_and_base.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/images/enhanced_stereo_abs_and_expand.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/images/enhanced_stereo_abs_or_base.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/images/enhanced_stereo_and1_and2_base.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/images/enhanced_stereo_and1_and2_expand.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/images/enhanced_stereo_and1_cis_base.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/images/enhanced_stereo_and1_cis_expand.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/images/enhanced_stereo_and1_trans_base.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/images/enhanced_stereo_and1_trans_expand.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/images/enhanced_stereo_or1_cis_base.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/images/enhanced_stereo_or1_or2_base.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/images/enhanced_stereo_or1_trans_base.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Images/logo.ai exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Images/logo.inkscape.svg exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Images/logo.lrg.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Images/logo.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Images/logo_plain.inkscape.svg exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Images/logo_plain.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Images/wiki/morganfp_atomenv1.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Notebooks/FingerprintGenerators.ipynb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Notebooks/MolStandardize.ipynb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-DummyCores.ipynb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-GA.ipynb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-GenericCores.ipynb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-MutipleCores.ipynb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-RingSubstitution.ipynb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-StereoChemTest.ipynb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-Tests.ipynb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-example-lactam.ipynb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Notebooks/compounds.txt exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/RD.css exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/README exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Scripts/FeatFinderCLI.py exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Scripts/PythonFormat.py exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Scripts/README.md exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Scripts/create_deb_packages.sh exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Scripts/test.sh exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/license.txt exists in debian/tmp but is not installed to anywhere The following debhelper tools have reported what they installed (with files per package) * dh_install: librdkit-dev (60), librdkit1 (116), postgresql-16-rdkit (0), python3-rdkit (1), rdkit-data (3), rdkit-doc (0) * dh_installdocs: librdkit-dev (0), librdkit1 (0), postgresql-16-rdkit (0), python3-rdkit (0), rdkit-data (0), rdkit-doc (0) If the missing files are installed by another tool, please file a bug against it. When filing the report, if the tool is not part of debhelper itself, please reference the "Logging helpers and dh_missing" section from the "PROGRAMMING" guide for debhelper (10.6.3+). (in the debhelper package: /usr/share/doc/debhelper/PROGRAMMING.md.gz) Be sure to test with dpkg-buildpackage -A/-B as the results may vary when only a subset is built If the omission is intentional or no other helper can take care of this consider adding the paths to debian/not-installed. make[1]: Leaving directory '/<>' dh_dwz -a -O--buildsystem=cmake dh_strip -a -O--buildsystem=cmake debugedit: debian/librdkit1/usr/lib/libRDKitFMCS.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 5f4dac79261e75038acb28e11e233da31e00b960 debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/rdBase.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 64ca5b31506a3e2412b72f26de813765a97b49c4 2a7a6c109406d2e91cee7da37c2bba5d8254e0a5 debugedit: debian/librdkit1/usr/lib/libRDKitShapeHelpers.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 9063bf32f9d908c9189bce9d653c90da9a33efbe debugedit: debian/librdkit1/usr/lib/libRDKitDistGeometry.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 9f11687999f09e89e0e7602a2bdf5600a01bba72 debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/ForceField/rdForceField.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 221ea0ac07f1719ee9f2230266c0875ed6fb2586 debugedit: debian/librdkit1/usr/lib/libRDKitFileParsers.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f20 1eb0acabecc20762ca08fa9b46b7ca9a09ba8bb8 debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Numerics/rdAlignment.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 f4a1beeb0571f63cd05436f2acb374282c91593c debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/DataStructs/cDataStructs.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 029aaf1b447c4d6e48a9e1301b5458a4ac233bb6 debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Geometry/rdGeometry.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f20 1d8b033b2dcd7d187e1e2ab46d35147f18f3d350 debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/SimDivFilters/rdSimDivPickers.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f20 4ccfd50983e73958d367f07b339601c889ac3678 debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/DataManip/Metric/rdMetricMatrixCalc.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 9b392a8819b8ed4cc35968611a0a3490ea88d5cd debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/DistanceGeometry/DistGeom.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 29d627c5126bad338ceaa8b18fb15abb45fc452b debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdSLNParse.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 6fb2483f3b60d4f7c87b73c3b61131bb16d27914 debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdTautomerQuery.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 7c0aeaabaecefd7507baf1cd77ecaf3c2045100d debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdForceFieldHelpers.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 1517f134e29c79493cd36ab30758b115a36fdd7e debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdDeprotect.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f20 19b0458c4934e97752ba944f3ddc83aecbb5d4bc debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdfiltercatalog.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f20 4221343de43a30bbc79cdb04abdb3868528ae3c3 debugedit: debian/librdkit1/usr/lib/libRDKitMolDraw2D.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f20 dd3e9cae3c53af34f97d516e3da94a7e8336d0a8 debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdfragcatalog.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f20 9ce82470c12452abc9477d3fe23bdfab211eff25 debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdqueries.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f20 b0389ea91cb3eade53af6ea3a43a1068d1801700 debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdMolTransforms.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 213679d8b7d63f1b5e936452ba898b53b3bf6cb4 debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdMolChemicalFeatures.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 6b7581ce7320f9515beb5c64074e9f1a06905788 debugedit: debian/librdkit1/usr/lib/libRDKitDescriptors.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f20 debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdFingerprintGenerator.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 8e33468c7fef85f4762ed189aa439c89efb08cb2 fafa3b014eb165a8b80c934145ac4bdf1e30127d debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdMolInterchange.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 623136c75c33b182da7d97ccf806767be54b77a8 debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdGeneralizedSubstruct.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 818d29b72b64e1016f256fb3406490bc12b5daed debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdPartialCharges.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 2b555557a9e5dc7c73eccba1c925eeda27f02a8a debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdCoordGen.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 a8ac330437173f8ef160bb9e533fd4d01ee93444 debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdMolCatalog.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 194463f037124ee1bb5b554b48f61248301b248e debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdMMPA.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 4b864f92af6e81f8422fa192b691c8e8bc991f13 debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdSubstructLibrary.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f20 da4b443842aa10e6267c553980c490088258ebc7 debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdReducedGraphs.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 1b8db6429f902d9f2f9ba569179d77bf8eff3358 debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdCIPLabeler.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 b73250e46e612c25569b710e1fe4ce003131b162 debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdDepictor.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 a7a8e39741326760ff58ce7774be132fccd3c215 debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdtrajectory.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f20 d570e35428d0793331f8c6fbace454610395ecc3 debugedit: debian/librdkit1/usr/lib/libRDKitDepictor.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdChemicalFeatures.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f20 ceb6e740f0039517978e4e508f12799eaf0d9ed8 63d9e8e3e6231908429382f80094d014138292c4 debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdChemReactions.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f20 945af57446c11485160627d0080a82c3467ae8fc debugedit: debian/librdkit1/usr/lib/libRDKitChemTransforms.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f20 dabc08573f55f36033e81e61401d8b15b803d54f debugedit: debian/librdkit1/usr/lib/libRDKitGenericGroups.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 9f89d9f098832dcfdda6e475d914ed7d0bc62873 debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdmolfiles.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f20 debugedit: debian/librdkit1/usr/lib/libRDKitTrajectory.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 a152a3721a466002c8cc4b44091828bc5de984a3 b694d31ec3fc7c65e9c191c46699dbeee71acde2 debugedit: debian/librdkit1/usr/lib/libRDKitSLNParse.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 d5ad54e19f755c35dcdc7a42217fa2a88d8760c3 debugedit: debian/librdkit1/usr/lib/libRDKitRascalMCES.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 f3673259da228ab2fae13ee477a2e5ad37971692 debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdMolDescriptors.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 8bba78d3329ce16d59c8c1b9fa522adef3d5837b debugedit: debian/librdkit1/usr/lib/libRDKitReducedGraphs.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 5a636838217a32e2f0420e6cda2cfd5fe748586a debugedit: debian/librdkit1/usr/lib/libRDKitMolTransforms.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 3261a93ae9ce1b4996aace131f5e87b6fba4e12f debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdShapeHelpers.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 3b6e7c915fd3aa0f3def7214fe76603e895401e4 debugedit: debian/librdkit1/usr/lib/libRDKitRGroupDecomposition.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 70b020817fa1b52daf915bcd0c71e0c81b27c3f5 debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdMolEnumerator.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 97b5574965c69854ea834c8c11ab49f5cbe556bd debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdFMCS.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 6bea9bc4c5bb6bb372f7a1bd11138fc1454cd01f debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdRascalMCES.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 b33c4ac40c2249a5eae675c6b7f4020a5c05631c debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdDistGeom.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 856c3891d0bf18da3f2ff90f31cb1217c94c3b89 debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdMHFPFingerprint.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 53cf281acd6ee4e4e0835902d7433edc860f28c9 debugedit: debian/librdkit1/usr/lib/libRDKitRDGeneral.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 7100d796e03a974e263022fb8f5bb87186e2cca5 debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdchem.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 debugedit: debian/librdkit1/usr/lib/libRDKitSubstructMatch.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 a47bb87755420813009e2627fdd7ad21c02ad9af 79966dab5ee8a0a687d29788d455fcb805f31c84 debugedit: debian/librdkit1/usr/lib/libRDKitMolHash.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 e65874d17ceb5130035bf0dbe28990998ec9364b debugedit: debian/librdkit1/usr/lib/libRDKitMarvinParser.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 e58ed91c6313ba855c1200545a158f52da85fefc debugedit: debian/librdkit1/usr/lib/libRDKitSimDivPickers.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 6e52f5b528a8e37ef44c978bbffd6c8cb58cd36f debugedit: debian/librdkit1/usr/lib/libRDKitPartialCharges.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f20 50ef0403dea593d42e9f3af3aba9a1d2c31ce830 debugedit: debian/librdkit1/usr/lib/libRDKitEigenSolvers.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 1f04fd9c06943a0005e792f7470865413d6a77fc debugedit: debian/librdkit1/usr/lib/libRDKitDataStructs.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 37292cc66e4918f1bc2d81a466357b9cd78035df debugedit: debian/librdkit1/usr/lib/libRDKitFragCatalog.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f20 41b00cc00015d66150feb9448fd5f293b519ef72 debugedit: debian/librdkit1/usr/lib/libRDKitO3AAlign.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 b62da4fe881752064a983893cbcfcb85867e24fd debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdMolAlign.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 a324872fa1dfde4adc5d1ffe2cc6f4e76482cb6e debugedit: debian/librdkit1/usr/lib/libRDKitSmilesParse.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f20 debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdAbbreviations.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 c28ab8a6ba016cc99fce5595e60aa7fbb2df41b8 b88362ba46bc004802b56184efbc379ece1fdd9f debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdRGroupDecomposition.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 7d3b0d8cd5b0d1a8dbc3ae3f0fa238c68e9e7d8c debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdMolHash.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 182b53bc1fd8e699e786ac84dd2e0830420ef9cc debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/rdmolops.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 ac137b4bafc084b55f109ee8c3566e76c36af7e2 debugedit: debian/librdkit1/usr/lib/libRDKitDeprotect.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 c9eb0903e6bd31faf15a562b623813f84c420b83 debugedit: debian/librdkit1/usr/lib/libRDKitRDStreams.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 6ebe702033fbffee2b2a8931afcda6b892a46bb7 debugedit: debian/librdkit1/usr/lib/libRDKitga.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f20 2513f35f44832eafe67d5e7c1647314dc4b6e29a debugedit: debian/librdkit1/usr/lib/libRDKitChemicalFeatures.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 087a82c696e8ead8bf531be4fe1bd29954d88a55 debugedit: debian/librdkit1/usr/lib/libRDKitRDBoost.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 81d477f9820ba34fda065426c7d144e0ec8c548b debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/Draw/rdMolDraw2D.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 c603c7d702c6dcea0c92b36087e83cb2b2cbdec6 debugedit: debian/librdkit1/usr/lib/libRDKitTautomerQuery.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 7204a6ac6f9d112f824165fdfb0caf438ddb7c49 debugedit: debian/librdkit1/usr/lib/libRDKitMMPA.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 5fb085019556fe36c01c8ad4f726bdf94ee6893e debugedit: debian/librdkit1/usr/lib/libRDKitGeneralizedSubstruct.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f20 3996f913ae356f57bb02d51ba763f07f44b8d99a debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/Scaffolds/rdScaffoldNetwork.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 6ad39063e48a15b1d4129f3f0ff0f1cc280549eb debugedit: debian/librdkit1/usr/lib/libRDKitMolInterchange.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f20 18aa6f7257bb46adb74091656a98697fe4cfc8f3 debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/rdMolStandardize.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 58736f4bbfc2122dfd5102c33b6e7b9a1efde138 debugedit: debian/librdkit1/usr/lib/libRDKitDistGeomHelpers.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 8f6e44bbb2aa3f2bd0d41415a6124c96d40bed00 debugedit: debian/librdkit1/usr/lib/libRDKitMolCatalog.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f20 ee298af26651c3070f1cbc49ed8e1ece60eb015d debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/ML/InfoTheory/rdInfoTheory.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f20 65dd2ee9bb04650b288291fdb3b7499e9de7f0c1 debugedit: debian/librdkit1/usr/lib/libRDKitMolStandardize.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f20 89017fa28414a69abf370ca721579d23444ee582 debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/ML/Data/cQuantize.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 3ea9dd4f16d58c0a45ce495362dad68042c5f48c debugedit: debian/python3-rdkit/usr/lib/python3/dist-packages/rdkit/ML/Cluster/Clustering.cpython-312-arm-linux-gnueabihf.so: Unknown DWARF DW_FORM_0x1f21 762d2d233fde5d277d26229b288613440cdc822a debugedit: debian/librdkit1/usr/lib/libRDKitScaffoldNetwork.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 e4475155c20f26a0ae857214fc76cec55d6f7439 debugedit: debian/librdkit1/usr/lib/libRDKitCatalogs.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 38c0aa74fe9f16da604d41b8d422fd269504353b debugedit: debian/librdkit1/usr/lib/libRDKitForceFieldHelpers.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 b51f47d1ed04b0eae551e1001f73f8bb66c99b41 debugedit: debian/librdkit1/usr/lib/libRDKitAlignment.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 727e99182a2f03b1dfef04ac75690486bcedcbd0 debugedit: debian/librdkit1/usr/lib/libRDKitRDGeometryLib.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 17cc3d8dae3ef861054b73bd6d5c918c20801bf5 debugedit: debian/librdkit1/usr/lib/libRDKitSubgraphs.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 5e4d0172f62e5039e9dd024d7b5bf674059d1d05 debugedit: debian/librdkit1/usr/lib/libRDKitMolAlign.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 18b7c1ceaecd7f3a70c806e94ff21820932a580a debugedit: debian/librdkit1/usr/lib/libRDKitMolChemicalFeatures.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 5a45888e8b7114afb3fade30cde38e6849bf56bc debugedit: debian/librdkit1/usr/lib/libRDKitSubstructLibrary.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 bf9cf66e5ad11fe08e67d795cb9162a3cbded492 debugedit: debian/librdkit1/usr/lib/libRDKitFilterCatalog.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 a36316005afa9c28065c55903672b690932079f0 debugedit: debian/librdkit1/usr/lib/libRDKitOptimizer.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 c4dba00ae6c9eb6ee38a93569bb07dbbd6d29f00 debugedit: debian/librdkit1/usr/lib/libRDKitAbbreviations.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 0bab52bc48666faa78af541da7661753afb00845 debugedit: debian/librdkit1/usr/lib/libRDKithc.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 f638236acc151b2fcd114af38989957c51c977f5 debugedit: debian/librdkit1/usr/lib/libRDKitCIPLabeler.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 a82bd4904836be46c4fb6b68c152a861864c3c33 debugedit: debian/librdkit1/usr/lib/libRDKitMolEnumerator.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 c51c057836e7c7750b9ad42bc5f4bb3979161211 debugedit: debian/librdkit1/usr/lib/libRDKitChemReactions.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 5c6b2962da952340b601f2b80f6482db6391eb65 debugedit: debian/librdkit1/usr/lib/libRDKitForceField.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 50eb27755bca67280ce8b5a8164fdb6e05d9527b debugedit: debian/librdkit1/usr/lib/libRDKitFingerprints.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f20 35652fce63ac9998353c682090bc56710042dc3c debugedit: debian/librdkit1/usr/lib/libRDKitInfoTheory.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f21 7add70f7a05ea6f6918669d169a31405aade77fd debugedit: debian/librdkit1/usr/lib/libRDKitGraphMol.so.1.2023.09.3: Unknown DWARF DW_FORM_0x1f20 435e8f7aba3e30063d0bc0e867a32c7af66f1cdf dh_makeshlibs -a -O--buildsystem=cmake dh_shlibdeps -a -O--buildsystem=cmake dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-armhf.so.3 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-armhf.so.3.usr-is-merged dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-armhf.so.3 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-armhf.so.3.usr-is-merged dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-armhf.so.3 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-armhf.so.3.usr-is-merged dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitMolInterchange.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitGenericGroups.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitDistGeomHelpers.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitMolEnumerator.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitForceField.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitSLNParse.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitChemTransforms.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitFragCatalog.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitCIPLabeler.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitMolHash.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitChemReactions.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitga.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitAbbreviations.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitMolStandardize.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitRDGeometryLib.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitFingerprints.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitMolDraw2D.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitRDBoost.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitForceFieldHelpers.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitMolAlign.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitDescriptors.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitDataStructs.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitSmilesParse.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitScaffoldNetwork.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitRDGeneral.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitDepictor.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitRascalMCES.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitGraphMol.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitTautomerQuery.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitFMCS.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitRGroupDecomposition.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitMarvinParser.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitDeprotect.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitMolTransforms.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitPartialCharges.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitFilterCatalog.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitMolCatalog.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitSubstructLibrary.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitGeneralizedSubstruct.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitSubstructMatch.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitReducedGraphs.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitFileParsers.so.1.2023.09.3 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitSubgraphs.so.1.2023.09.3 found in none of the libraries dh_installdeb -a -O--buildsystem=cmake dh_gencontrol -a -O--buildsystem=cmake dpkg-gencontrol: warning: Provides field of package python3-rdkit: substitution variable ${python3:Provides} used, but is not defined dpkg-gencontrol: warning: Depends field of package librdkit-dev: substitution variable ${shlibs:Depends} used, but is not defined dpkg-gencontrol: warning: package librdkit1: substitution variable ${python3:Depends} unused, but is defined dpkg-gencontrol: warning: package postgresql-16-rdkit: substitution variable ${python3:Depends} unused, but is defined dpkg-gencontrol: warning: package librdkit-dev: substitution variable ${python3:Depends} unused, but is defined dpkg-gencontrol: warning: package librdkit1: substitution variable ${python3:Depends} unused, but is defined dpkg-gencontrol: warning: Provides field of package python3-rdkit: substitution variable ${python3:Provides} used, but is not defined dpkg-gencontrol: warning: package postgresql-16-rdkit: substitution variable ${python3:Depends} unused, but is defined dh_md5sums -a -O--buildsystem=cmake dh_builddeb -a -O--buildsystem=cmake INFO: pkgstriptranslations version 154 INFO: pkgstriptranslations version 154 INFO: pkgstriptranslations version 154 INFO: pkgstriptranslations version 154 pkgstriptranslations: processing librdkit-dev (in debian/librdkit-dev); do_strip: , oemstrip: pkgstriptranslations: processing python3-rdkit (in debian/python3-rdkit); do_strip: , oemstrip: pkgstriptranslations: processing librdkit1 (in debian/librdkit1); do_strip: , oemstrip: pkgstriptranslations: processing postgresql-16-rdkit-dbgsym (in debian/.debhelper/postgresql-16-rdkit/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/librdkit-dev/DEBIAN/control, package librdkit-dev, directory debian/librdkit-dev .. removing usr/share/doc/librdkit-dev/changelog.gz INFO: pkgstripfiles: waiting for lock (librdkit-dev) ... pkgstripfiles: processing control file: debian/.debhelper/postgresql-16-rdkit/dbgsym-root/DEBIAN/control, package postgresql-16-rdkit-dbgsym, directory debian/.debhelper/postgresql-16-rdkit/dbgsym-root dpkg-deb: building package 'postgresql-16-rdkit-dbgsym' in 'debian/.debhelper/scratch-space/build-postgresql-16-rdkit/postgresql-16-rdkit-dbgsym_202309.3-3build1_armhf.deb'. pkgstripfiles: processing control file: debian/librdkit1/DEBIAN/control, package librdkit1, directory debian/librdkit1 .. removing usr/share/doc/librdkit1/changelog.gz INFO: pkgstripfiles: waiting for lock (librdkit1) ... Renaming postgresql-16-rdkit-dbgsym_202309.3-3build1_armhf.deb to postgresql-16-rdkit-dbgsym_202309.3-3build1_armhf.ddeb INFO: pkgstripfiles: waiting for lock (librdkit-dev) ... INFO: pkgstripfiles: waiting for lock (librdkit1) ... INFO: pkgstripfiles: waiting for lock (librdkit-dev) ... INFO: pkgstripfiles: waiting for lock (librdkit1) ... INFO: pkgstripfiles: waiting for lock (librdkit-dev) ... INFO: pkgstripfiles: waiting for lock (librdkit1) ... INFO: pkgstripfiles: waiting for lock (librdkit-dev) ... INFO: pkgstripfiles: waiting for lock (librdkit1) ... pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/python3-rdkit/DEBIAN/control, package python3-rdkit, directory debian/python3-rdkit .. removing usr/share/doc/python3-rdkit/changelog.gz Searching for duplicated docs in dependency librdkit1... INFO: pkgstripfiles: waiting for lock (librdkit-dev) ... symlinking changelog.Debian.gz in python3-rdkit to file in librdkit1 pkgstripfiles: Running PNG optimization (using 4 cpus) for package python3-rdkit ... pkgstripfiles: No PNG files. dpkg-deb: building package 'python3-rdkit' in '../python3-rdkit_202309.3-3build1_armhf.deb'. pkgstripfiles: Running PNG optimization (using 4 cpus) for package librdkit1 ... pkgstripfiles: No PNG files. dpkg-deb: building package 'librdkit1' in '../librdkit1_202309.3-3build1_armhf.deb'. Searching for duplicated docs in dependency librdkit1... symlinking changelog.Debian.gz in librdkit-dev to file in librdkit1 pkgstripfiles: Running PNG optimization (using 4 cpus) for package librdkit-dev ... pkgstripfiles: No PNG files. dpkg-deb: building package 'librdkit-dev' in '../librdkit-dev_202309.3-3build1_armhf.deb'. INFO: pkgstriptranslations version 154 pkgstriptranslations: processing postgresql-16-rdkit (in debian/postgresql-16-rdkit); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/postgresql-16-rdkit/DEBIAN/control, package postgresql-16-rdkit, directory debian/postgresql-16-rdkit .. removing usr/share/doc/postgresql-16-rdkit/changelog.gz Searching for duplicated docs in dependency librdkit1... symlinking changelog.Debian.gz in postgresql-16-rdkit to file in librdkit1 pkgstripfiles: Running PNG optimization (using 4 cpus) for package postgresql-16-rdkit ... pkgstripfiles: No PNG files. dpkg-deb: building package 'postgresql-16-rdkit' in '../postgresql-16-rdkit_202309.3-3build1_armhf.deb'. INFO: pkgstriptranslations version 154 pkgstriptranslations: processing librdkit1-dbgsym (in debian/.debhelper/librdkit1/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/.debhelper/librdkit1/dbgsym-root/DEBIAN/control, package librdkit1-dbgsym, directory debian/.debhelper/librdkit1/dbgsym-root dpkg-deb: building package 'librdkit1-dbgsym' in 'debian/.debhelper/scratch-space/build-librdkit1/librdkit1-dbgsym_202309.3-3build1_armhf.deb'. INFO: pkgstriptranslations version 154 pkgstriptranslations: processing python3-rdkit-dbgsym (in debian/.debhelper/python3-rdkit/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/.debhelper/python3-rdkit/dbgsym-root/DEBIAN/control, package python3-rdkit-dbgsym, directory debian/.debhelper/python3-rdkit/dbgsym-root dpkg-deb: building package 'python3-rdkit-dbgsym' in 'debian/.debhelper/scratch-space/build-python3-rdkit/python3-rdkit-dbgsym_202309.3-3build1_armhf.deb'. Renaming librdkit1-dbgsym_202309.3-3build1_armhf.deb to librdkit1-dbgsym_202309.3-3build1_armhf.ddeb Renaming python3-rdkit-dbgsym_202309.3-3build1_armhf.deb to python3-rdkit-dbgsym_202309.3-3build1_armhf.ddeb dpkg-genbuildinfo --build=any -O../rdkit_202309.3-3build1_armhf.buildinfo dpkg-genchanges --build=any -mLaunchpad Build Daemon -O../rdkit_202309.3-3build1_armhf.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2024-03-16T01:32:59Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ rdkit_202309.3-3build1_armhf.changes: ------------------------------------- Format: 1.8 Date: Sat, 02 Mar 2024 21:15:05 +0100 Source: rdkit Binary: librdkit-dev librdkit1 postgresql-16-rdkit python3-rdkit Built-For-Profiles: noudeb Architecture: armhf Version: 202309.3-3build1 Distribution: noble-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Matthias Klose Description: librdkit-dev - Collection of cheminformatics and machine-learning software (deve librdkit1 - Collection of cheminformatics and machine-learning software (shar postgresql-16-rdkit - Cheminformatics and machine-learning software (PostgreSQL Cartrid python3-rdkit - Collection of cheminformatics and machine-learning software Changes: rdkit (202309.3-3build1) noble; urgency=medium . * No-change rebuild for python3.12 t64. Checksums-Sha1: e17ff2dd7ba86ad5baa777d017df997eac547550 304662 librdkit-dev_202309.3-3build1_armhf.deb fbd0866e3e95cdd64504d509285272880083b847 100505130 librdkit1-dbgsym_202309.3-3build1_armhf.ddeb 1c939998344137752f19bb71c80770461a01084a 4618278 librdkit1_202309.3-3build1_armhf.deb b6ef7afd19f20e4b48397ef40f4aa24cab8587b4 1104282 postgresql-16-rdkit-dbgsym_202309.3-3build1_armhf.ddeb bb02871b768e535780e67e4171b0f2365153cb21 368054 postgresql-16-rdkit_202309.3-3build1_armhf.deb ce91e14097a63c0bfb8fb88e365006e1c24e565c 53918634 python3-rdkit-dbgsym_202309.3-3build1_armhf.ddeb 3dd79bca72618f35ea72136be680201f4486e764 4131496 python3-rdkit_202309.3-3build1_armhf.deb 1359b4f0a95b53e340ea542f5879a5ccd5cb3788 18666 rdkit_202309.3-3build1_armhf.buildinfo Checksums-Sha256: 71691876704558ce9504f1ab5b129bc7d2574966bf9ba4a3b3a71a7ea2e17073 304662 librdkit-dev_202309.3-3build1_armhf.deb 64e880047001370e84f86cf104694bf1ff06a34cff094d7a746f721c99afb3e1 100505130 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libs optional librdkit1_202309.3-3build1_armhf.deb 268483fe09518a4694e13dc8efa31422 1104282 debug optional postgresql-16-rdkit-dbgsym_202309.3-3build1_armhf.ddeb 29d02d06882c787106acbd8d56ee718c 368054 database optional postgresql-16-rdkit_202309.3-3build1_armhf.deb 3926c51881e0695d2e9dc04ed810fbef 53918634 debug optional python3-rdkit-dbgsym_202309.3-3build1_armhf.ddeb 8857c0259579c0ce176ccecdaf09721c 4131496 python optional python3-rdkit_202309.3-3build1_armhf.deb 221bed183e1f1fbf55205723bb2b0716 18666 science optional rdkit_202309.3-3build1_armhf.buildinfo /<>/rdkit_202309.3-3build1_armhf.changes.new could not be renamed to /<>/rdkit_202309.3-3build1_armhf.changes: Illegal seek Distribution field may be wrong!!! +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: rdkit Binary: librdkit-dev librdkit1 librdkit1-dbgsym postgresql-16-rdkit postgresql-16-rdkit-dbgsym python3-rdkit python3-rdkit-dbgsym Architecture: armhf Version: 202309.3-3build1 Checksums-Md5: cf02d6b877ed18a1cfeb486d5cd546c6 304662 librdkit-dev_202309.3-3build1_armhf.deb 8a5bac56ad7ad08eeef3f28bfa08e834 100505130 librdkit1-dbgsym_202309.3-3build1_armhf.ddeb 69095b71694bcfd54c43c28a0f292c0c 4618278 librdkit1_202309.3-3build1_armhf.deb 268483fe09518a4694e13dc8efa31422 1104282 postgresql-16-rdkit-dbgsym_202309.3-3build1_armhf.ddeb 29d02d06882c787106acbd8d56ee718c 368054 postgresql-16-rdkit_202309.3-3build1_armhf.deb 3926c51881e0695d2e9dc04ed810fbef 53918634 python3-rdkit-dbgsym_202309.3-3build1_armhf.ddeb 8857c0259579c0ce176ccecdaf09721c 4131496 python3-rdkit_202309.3-3build1_armhf.deb Checksums-Sha1: e17ff2dd7ba86ad5baa777d017df997eac547550 304662 librdkit-dev_202309.3-3build1_armhf.deb fbd0866e3e95cdd64504d509285272880083b847 100505130 librdkit1-dbgsym_202309.3-3build1_armhf.ddeb 1c939998344137752f19bb71c80770461a01084a 4618278 librdkit1_202309.3-3build1_armhf.deb b6ef7afd19f20e4b48397ef40f4aa24cab8587b4 1104282 postgresql-16-rdkit-dbgsym_202309.3-3build1_armhf.ddeb bb02871b768e535780e67e4171b0f2365153cb21 368054 postgresql-16-rdkit_202309.3-3build1_armhf.deb ce91e14097a63c0bfb8fb88e365006e1c24e565c 53918634 python3-rdkit-dbgsym_202309.3-3build1_armhf.ddeb 3dd79bca72618f35ea72136be680201f4486e764 4131496 python3-rdkit_202309.3-3build1_armhf.deb Checksums-Sha256: 71691876704558ce9504f1ab5b129bc7d2574966bf9ba4a3b3a71a7ea2e17073 304662 librdkit-dev_202309.3-3build1_armhf.deb 64e880047001370e84f86cf104694bf1ff06a34cff094d7a746f721c99afb3e1 100505130 librdkit1-dbgsym_202309.3-3build1_armhf.ddeb cb39890a0eeabd66343531f4023f944d32243e462b75bd4f241d55cd28087a28 4618278 librdkit1_202309.3-3build1_armhf.deb b91e3deccba568d71a69ae6156a107cb1ffc6b160b4cc0034f64b8a438f400b4 1104282 postgresql-16-rdkit-dbgsym_202309.3-3build1_armhf.ddeb 3a7df393efcd308f8b89714815ae7da67357ef5289053c9e0cc64b2eb352fc23 368054 postgresql-16-rdkit_202309.3-3build1_armhf.deb 22bd017170636231d5585687554cb7888c7c3a4a96eaee495a5a8082454fd60a 53918634 python3-rdkit-dbgsym_202309.3-3build1_armhf.ddeb d97f9feb81afee61a5ec2545f1bb287271f99542576bab5b31575afea0b57758 4131496 python3-rdkit_202309.3-3build1_armhf.deb Build-Origin: Ubuntu Build-Architecture: armhf Build-Date: Sat, 16 Mar 2024 01:32:54 +0000 Build-Path: /<> Build-Tainted-By: merged-usr-via-aliased-dirs usr-local-has-programs Installed-Build-Depends: adduser (= 3.137ubuntu1), autoconf (= 2.71-3), automake (= 1:1.16.5-1.3ubuntu1), autopoint (= 0.21-14ubuntu1), autotools-dev (= 20220109.1), base-files (= 13ubuntu7), base-passwd (= 3.6.3), bash (= 5.2.21-2ubuntu2), binutils (= 2.42-3ubuntu1), binutils-arm-linux-gnueabihf (= 2.42-3ubuntu1), binutils-common (= 2.42-3ubuntu1), bison (= 2:3.8.2+dfsg-1build1), bsdextrautils (= 2.39.3-9ubuntu2), bsdutils (= 1:2.39.3-9ubuntu2), build-essential (= 12.10ubuntu1), bzip2 (= 1.0.8-5ubuntu1), ca-certificates (= 20240203), catch2 (= 3.4.0-1), clang-17 (= 1:17.0.6-9), cmake (= 3.28.3-1build4), cmake-data (= 3.28.3-1build4), coreutils (= 9.4-3ubuntu3), cpp (= 4:13.2.0-7ubuntu1), cpp-13 (= 13.2.0-17ubuntu2), cpp-13-arm-linux-gnueabihf (= 13.2.0-17ubuntu2), cpp-arm-linux-gnueabihf (= 4:13.2.0-7ubuntu1), dash (= 0.5.12-6ubuntu4), debconf (= 1.5.86), debhelper (= 13.14.1ubuntu5), debianutils (= 5.17), debugedit (= 1:5.0-5build1), dh-autoreconf (= 20), dh-python (= 6.20231223ubuntu2), dh-strip-nondeterminism (= 1.13.1-1), diffutils (= 1:3.10-1), docutils-common (= 0.20.1+dfsg-3), doxygen (= 1.9.8+ds-2build3), dpkg (= 1.22.5ubuntu4), dpkg-dev (= 1.22.5ubuntu4), dwz (= 0.15-1build5), file (= 1:5.45-3), findutils (= 4.9.0-5), flex (= 2.6.4-8.2), fontconfig (= 2.15.0-1.1ubuntu1), fontconfig-config (= 2.15.0-1.1ubuntu1), fonts-dejavu-core (= 2.37-8), fonts-dejavu-mono (= 2.37-8), fonts-lmodern (= 2.005-1), g++ (= 4:13.2.0-7ubuntu1), g++-13 (= 13.2.0-17ubuntu2), g++-13-arm-linux-gnueabihf (= 13.2.0-17ubuntu2), g++-arm-linux-gnueabihf (= 4:13.2.0-7ubuntu1), gcc (= 4:13.2.0-7ubuntu1), gcc-13 (= 13.2.0-17ubuntu2), gcc-13-arm-linux-gnueabihf (= 13.2.0-17ubuntu2), gcc-13-base (= 13.2.0-17ubuntu2), gcc-14-base (= 14-20240303-1ubuntu1), gcc-arm-linux-gnueabihf (= 4:13.2.0-7ubuntu1), gettext (= 0.21-14ubuntu1), gettext-base (= 0.21-14ubuntu1), grep (= 3.11-4), groff-base (= 1.23.0-3build1), gzip (= 1.12-1ubuntu2), hicolor-icon-theme (= 0.17-2), hostname (= 3.23+nmu2ubuntu1), icu-devtools (= 74.2-1ubuntu1), imagemagick (= 8:6.9.12.98+dfsg1-5.1ubuntu1), imagemagick-6-common (= 8:6.9.12.98+dfsg1-5.1ubuntu1), imagemagick-6.q16 (= 8:6.9.12.98+dfsg1-5.1ubuntu1), init-system-helpers (= 1.66ubuntu1), intltool-debian (= 0.35.0+20060710.6), latexmk (= 1:4.83-1), libacl1 (= 2.3.2-1), libapache-pom-java (= 29-2), libarchive-zip-perl (= 1.68-1), libarchive13t64 (= 3.7.2-1.1ubuntu1), libasan8 (= 14-20240303-1ubuntu1), libatomic1 (= 14-20240303-1ubuntu1), libattr1 (= 1:2.5.2-1), libaudit-common (= 1:3.1.2-2.1), libaudit1 (= 1:3.1.2-2.1), libbinutils (= 2.42-3ubuntu1), libblas3 (= 3.12.0-3), libblkid-dev (= 2.39.3-9ubuntu2), libblkid1 (= 2.39.3-9ubuntu2), libboost-atomic1.83-dev (= 1.83.0-2.1ubuntu2), libboost-atomic1.83.0 (= 1.83.0-2.1ubuntu2), libboost-chrono1.83-dev (= 1.83.0-2.1ubuntu2), libboost-chrono1.83.0t64 (= 1.83.0-2.1ubuntu2), libboost-date-time1.83-dev (= 1.83.0-2.1ubuntu2), libboost-date-time1.83.0 (= 1.83.0-2.1ubuntu2), libboost-dev (= 1.83.0.1ubuntu2), libboost-iostreams-dev (= 1.83.0.1ubuntu2), libboost-iostreams1.83-dev (= 1.83.0-2.1ubuntu2), libboost-iostreams1.83.0 (= 1.83.0-2.1ubuntu2), libboost-python-dev (= 1.83.0.1ubuntu2), libboost-python1.83-dev (= 1.83.0-2.1ubuntu2), libboost-python1.83.0 (= 1.83.0-2.1ubuntu2), libboost-regex-dev (= 1.83.0.1ubuntu2), libboost-regex1.83-dev (= 1.83.0-2.1ubuntu2), libboost-regex1.83.0 (= 1.83.0-2.1ubuntu2), libboost-serialization1.83-dev (= 1.83.0-2.1ubuntu2), libboost-serialization1.83.0 (= 1.83.0-2.1ubuntu2), libboost-system-dev (= 1.83.0.1ubuntu2), libboost-system1.83-dev (= 1.83.0-2.1ubuntu2), libboost-system1.83.0 (= 1.83.0-2.1ubuntu2), libboost-thread-dev (= 1.83.0.1ubuntu2), libboost-thread1.83-dev (= 1.83.0-2.1ubuntu2), libboost-thread1.83.0 (= 1.83.0-2.1ubuntu2), libboost1.83-dev (= 1.83.0-2.1ubuntu2), libbrotli-dev (= 1.1.0-2), libbrotli1 (= 1.1.0-2), libbsd0 (= 0.12.1-1), libbz2-1.0 (= 1.0.8-5ubuntu1), libbz2-dev (= 1.0.8-5ubuntu1), libc-bin (= 2.39-0ubuntu6), libc-dev-bin (= 2.39-0ubuntu6), libc6 (= 2.39-0ubuntu6), libc6-dev (= 2.39-0ubuntu6), libcairo-gobject2 (= 1.18.0-1ubuntu1), libcairo-script-interpreter2 (= 1.18.0-1ubuntu1), libcairo2 (= 1.18.0-1ubuntu1), libcairo2-dev (= 1.18.0-1ubuntu1), libcap-ng0 (= 0.8.4-2), libcap2 (= 1:2.66-5ubuntu1), libcc1-0 (= 14-20240303-1ubuntu1), libclang-common-17-dev (= 1:17.0.6-9), libclang-cpp17t64 (= 1:17.0.6-9), libclang-cpp18 (= 1:18.1.0-1ubuntu3), libclang1-17t64 (= 1:17.0.6-9), libclang1-18 (= 1:18.1.0-1ubuntu3), libcom-err2 (= 1.47.0-2.4~exp1ubuntu2), libcommons-logging-java (= 1.3.0-1ubuntu1), libcommons-parent-java (= 56-1), libcoordgen-dev (= 3.0.2-1), libcoordgen3 (= 3.0.2-1), libcrypt-dev (= 1:4.4.36-4), libcrypt1 (= 1:4.4.36-4), libctf-nobfd0 (= 2.42-3ubuntu1), libctf0 (= 2.42-3ubuntu1), libcurl4 (= 8.5.0-2ubuntu6), libdatrie1 (= 0.2.13-3), libdav1d7 (= 1.4.0-1), libdb5.3t64 (= 5.3.28+dfsg2-5build1), libde265-0 (= 1.0.15-1build1), libdebconfclient0 (= 0.271ubuntu2), libdebhelper-perl (= 13.14.1ubuntu5), libdeflate0 (= 1.19-1), libdpkg-perl (= 1.22.5ubuntu4), libdw1t64 (= 0.190-1.1build1), libedit2 (= 3.1-20230828-1), libeigen3-dev (= 3.4.0-4), libelf1t64 (= 0.190-1.1build1), libexpat1 (= 2.6.1-2), libexpat1-dev (= 2.6.1-2), libffi-dev (= 3.4.6-1), libffi8 (= 3.4.6-1), libfftw3-double3 (= 3.3.10-1ubuntu2), libfile-stripnondeterminism-perl (= 1.13.1-1), libfmt9 (= 9.1.0+ds1-2), libfontbox-java (= 1:1.8.16-5), libfontconfig-dev (= 2.15.0-1.1ubuntu1), libfontconfig1 (= 2.15.0-1.1ubuntu1), libfontenc1 (= 1:1.1.8-1), libfreetype-dev (= 2.13.2+dfsg-1build1), libfreetype6 (= 2.13.2+dfsg-1build1), libfribidi0 (= 1.0.13-3), libgc1 (= 1:8.2.6-1), libgcc-13-dev (= 13.2.0-17ubuntu2), libgcc-s1 (= 14-20240303-1ubuntu1), libgcrypt20 (= 1.10.3-2), libgdbm-compat4t64 (= 1.23-5.1), libgdbm6t64 (= 1.23-5.1), libgdk-pixbuf-2.0-0 (= 2.42.10+dfsg-3ubuntu1), libgdk-pixbuf2.0-common (= 2.42.10+dfsg-3ubuntu1), libgfortran5 (= 14-20240303-1ubuntu1), libgirepository-2.0-0 (= 2.79.3-3ubuntu5), libglib2.0-0t64 (= 2.79.3-3ubuntu5), libglib2.0-bin (= 2.79.3-3ubuntu5), libglib2.0-data (= 2.79.3-3ubuntu5), libglib2.0-dev (= 2.79.3-3ubuntu5), libglib2.0-dev-bin (= 2.79.3-3ubuntu5), libgmp10 (= 2:6.3.0+dfsg-2ubuntu4), libgnutls30t64 (= 3.8.3-1.1ubuntu2), libgomp1 (= 14-20240303-1ubuntu1), libgpg-error0 (= 1.47-3build1), libgraphite2-3 (= 1.3.14-2), libgssapi-krb5-2 (= 1.20.1-5.1build3), libharfbuzz0b (= 8.3.0-2build1), libheif-plugin-dav1d (= 1.17.6-1ubuntu1), libheif-plugin-libde265 (= 1.17.6-1ubuntu1), libheif1 (= 1.17.6-1ubuntu1), libhogweed6t64 (= 3.9.1-2.2), libice-dev (= 2:1.0.10-1build2), libice6 (= 2:1.0.10-1build2), libicu-dev (= 74.2-1ubuntu1), libicu74 (= 74.2-1ubuntu1), libidn2-0 (= 2.3.7-2), libimagequant0 (= 2.18.0-1), libisl23 (= 0.26-3), libjansson4 (= 2.14-2), libjbig0 (= 2.1-6.1ubuntu1), libjpeg-turbo8 (= 2.1.5-2ubuntu1), libjpeg8 (= 8c-2ubuntu11), libjs-jquery (= 3.6.1+dfsg+~3.5.14-1), libjs-sphinxdoc (= 7.2.6-5), libjs-underscore (= 1.13.4~dfsg+~1.11.4-3), libjson-perl (= 4.10000-1), libjsoncpp25 (= 1.9.5-6), libk5crypto3 (= 1.20.1-5.1build3), libkeyutils1 (= 1.6.3-3), libkpathsea6 (= 2023.20230311.66589-9build1), libkrb5-3 (= 1.20.1-5.1build3), libkrb5support0 (= 1.20.1-5.1build3), liblapack3 (= 3.12.0-3), liblcms2-2 (= 2.14-2), libldap2 (= 2.6.7+dfsg-1~exp1ubuntu6), liblerc4 (= 4.0.0+ds-4ubuntu1), libllvm17t64 (= 1:17.0.6-9), libllvm18 (= 1:18.1.0-1ubuntu3), liblqr-1-0 (= 0.4.2-2.1build1), libltdl7 (= 2.4.7-7), liblua5.4-0 (= 5.4.6-3build1), liblz4-1 (= 1.9.4-1), liblzma5 (= 5.6.0-0.2), liblzo2-2 (= 2.10-2build3), libmaeparser-dev (= 1.3.1-1build1), libmaeparser1 (= 1.3.1-1build1), libmagic-mgc (= 1:5.45-3), libmagic1t64 (= 1:5.45-3), libmagickcore-6.q16-7t64 (= 8:6.9.12.98+dfsg1-5.1ubuntu1), libmagickwand-6.q16-7t64 (= 8:6.9.12.98+dfsg1-5.1ubuntu1), libmd0 (= 1.1.0-2), libmount-dev (= 2.39.3-9ubuntu2), libmount1 (= 2.39.3-9ubuntu2), libmpc3 (= 1.3.1-1), libmpfr6 (= 4.2.1-1), libncurses-dev (= 6.4+20240113-1ubuntu1), libncurses6 (= 6.4+20240113-1ubuntu1), libncursesw6 (= 6.4+20240113-1ubuntu1), libnettle8t64 (= 3.9.1-2.2), libnghttp2-14 (= 1.59.0-1build1), libobjc-13-dev (= 13.2.0-17ubuntu2), libobjc4 (= 14-20240303-1ubuntu1), libopenjp2-7 (= 2.5.0-2build1), libp11-kit0 (= 0.25.3-4ubuntu1), libpam-modules (= 1.5.3-5ubuntu3), libpam-modules-bin (= 1.5.3-5ubuntu3), libpam-runtime (= 1.5.3-5ubuntu3), libpam0g (= 1.5.3-5ubuntu3), libpango-1.0-0 (= 1.52.1+ds-1), libpangocairo-1.0-0 (= 1.52.1+ds-1), libpangoft2-1.0-0 (= 1.52.1+ds-1), libpaper-utils (= 1.1.29), libpaper1 (= 1.1.29), libpcre2-16-0 (= 10.42-4ubuntu1), libpcre2-32-0 (= 10.42-4ubuntu1), libpcre2-8-0 (= 10.42-4ubuntu1), libpcre2-dev (= 10.42-4ubuntu1), libpcre2-posix3 (= 10.42-4ubuntu1), libpdfbox-java (= 1:1.8.16-5), libperl5.38t64 (= 5.38.2-3.2), libpfm4 (= 4.13.0+git32-g0d4ed0e-1), libpipeline1 (= 1.5.7-1), libpixman-1-0 (= 0.42.2-1), libpixman-1-dev (= 0.42.2-1), libpkgconf3 (= 1.8.1-2), libpng-dev (= 1.6.43-3), libpng16-16t64 (= 1.6.43-3), libpotrace0 (= 1.16-2), libpq-dev (= 16.2-1ubuntu2), libpq5 (= 16.2-1ubuntu2), libproc2-0 (= 2:4.0.4-4ubuntu1), libpsl5t64 (= 0.21.2-1.1), libptexenc1 (= 2023.20230311.66589-9build1), libpthread-stubs0-dev (= 0.4-1build2), libpython3-dev (= 3.12.2-0ubuntu1), libpython3-stdlib (= 3.12.2-0ubuntu1), libpython3.11-minimal (= 3.11.8-1build3), libpython3.11-stdlib (= 3.11.8-1build3), libpython3.12-dev (= 3.12.2-4build2), libpython3.12-minimal (= 3.12.2-4build2), libpython3.12-stdlib (= 3.12.2-4build2), libpython3.12t64 (= 3.12.2-4build2), libraqm0 (= 0.10.1-1), libraw23t64 (= 0.21.2-2.1), libreadline8t64 (= 8.2-3.1), librhash0 (= 1.4.3-3), librsvg2-2 (= 2.57.91+dfsg-2ubuntu1), librsvg2-bin (= 2.57.91+dfsg-2ubuntu1), librtmp1 (= 2.4+20151223.gitfa8646d.1-2build6), libsasl2-2 (= 2.1.28+dfsg1-4ubuntu4), libsasl2-modules-db (= 2.1.28+dfsg1-4ubuntu4), libseccomp2 (= 2.5.5-1ubuntu1), libselinux1 (= 3.5-2build2), libselinux1-dev (= 3.5-2build2), libsemanage-common (= 3.5-1build3), libsemanage2 (= 3.5-1build3), libsepol-dev (= 3.5-2), libsepol2 (= 3.5-2), libsframe1 (= 2.42-3ubuntu1), libsharpyuv0 (= 1.3.2-0.4build1), libsm-dev (= 2:1.2.3-1build2), libsm6 (= 2:1.2.3-1build2), libsmartcols1 (= 2.39.3-9ubuntu2), libsqlite3-0 (= 3.45.1-1ubuntu1), libsqlite3-dev (= 3.45.1-1ubuntu1), libssh-4 (= 0.10.6-2build1), libssl-dev (= 3.0.13-0ubuntu1), libssl3t64 (= 3.0.13-0ubuntu1), libstdc++-13-dev (= 13.2.0-17ubuntu2), libstdc++6 (= 14-20240303-1ubuntu1), libsub-override-perl (= 0.10-1), libsynctex2 (= 2023.20230311.66589-9build1), libsystemd0 (= 255.4-1ubuntu4), libtasn1-6 (= 4.19.0-3), libteckit0 (= 2.5.12+ds1-1), libtexlua53-5 (= 2023.20230311.66589-9build1), libthai-data (= 0.1.29-2), libthai0 (= 0.1.29-2), libtiff6 (= 4.5.1+git230720-4ubuntu1), libtinfo6 (= 6.4+20240113-1ubuntu1), libtool (= 2.4.7-7), libubsan1 (= 14-20240303-1ubuntu1), libuchardet0 (= 0.0.8-1), libudev1 (= 255.4-1ubuntu4), libunistring5 (= 1.1-2), libuuid1 (= 2.39.3-9ubuntu2), libuv1t64 (= 1.48.0-1.1), libwebp7 (= 1.3.2-0.4build1), libwebpdemux2 (= 1.3.2-0.4build1), libwebpmux3 (= 1.3.2-0.4build1), libx11-6 (= 2:1.8.7-1), libx11-data (= 2:1.8.7-1), libx11-dev (= 2:1.8.7-1), libxapian30 (= 1.4.22-1), libxau-dev (= 1:1.0.9-1build5), libxau6 (= 1:1.0.9-1build5), libxaw7 (= 2:1.0.14-1build1), libxcb-render0 (= 1.15-1), libxcb-render0-dev (= 1.15-1), libxcb-shm0 (= 1.15-1), libxcb-shm0-dev (= 1.15-1), libxcb1 (= 1.15-1), libxcb1-dev (= 1.15-1), libxdmcp-dev (= 1:1.1.3-0ubuntu5), libxdmcp6 (= 1:1.1.3-0ubuntu5), libxext-dev (= 2:1.3.4-1build1), libxext6 (= 2:1.3.4-1build1), libxi6 (= 2:1.8.1-1), libxml2 (= 2.9.14+dfsg-1.3ubuntu1), libxml2-dev (= 2.9.14+dfsg-1.3ubuntu1), libxmu6 (= 2:1.1.3-3build1), libxpm4 (= 1:3.5.17-1build1), libxrender-dev (= 1:0.9.10-1.1), libxrender1 (= 1:0.9.10-1.1), libxt6t64 (= 1:1.2.1-1.2), libyaml-0-2 (= 0.2.5-1), libz3-4 (= 4.8.12-3.1), libz3-dev (= 4.8.12-3.1), libzstd1 (= 1.5.5+dfsg2-2), libzzip-0-13t64 (= 0.13.72+dfsg.1-1.2), linux-libc-dev (= 6.8.0-19.19), llvm-17 (= 1:17.0.6-9), llvm-17-dev (= 1:17.0.6-9), llvm-17-linker-tools (= 1:17.0.6-9), llvm-17-runtime (= 1:17.0.6-9), llvm-17-tools (= 1:17.0.6-9), login (= 1:4.13+dfsg1-4ubuntu1), lto-disabled-list (= 47), m4 (= 1.4.19-4), make (= 4.3-4.1build1), man-db (= 2.12.0-3build4), mawk (= 1.3.4.20240123-1), media-types (= 10.1.0), ncurses-base (= 6.4+20240113-1ubuntu1), ncurses-bin (= 6.4+20240113-1ubuntu1), netbase (= 6.4), openssl (= 3.0.13-0ubuntu1), pandoc (= 3.1.3+ds-2), pandoc-data (= 3.1.3-1), passwd (= 1:4.13+dfsg1-4ubuntu1), patch (= 2.7.6-7build2), perl (= 5.38.2-3.2), perl-base (= 5.38.2-3.2), perl-modules-5.38 (= 5.38.2-3.2), pkgconf (= 1.8.1-2), pkgconf-bin (= 1.8.1-2), po-debconf (= 1.0.21+nmu1), postgresql-client-16 (= 16.2-1ubuntu2), postgresql-client-common (= 257), postgresql-common (= 257), postgresql-server-dev-16 (= 16.2-1ubuntu2), postgresql-server-dev-all (= 257), preview-latex-style (= 13.2-1), procps (= 2:4.0.4-4ubuntu1), python-babel-localedata (= 2.10.3-3build1), python3 (= 3.12.2-0ubuntu1), python3-alabaster (= 0.7.12-1), python3-babel (= 2.10.3-3build1), python3-certifi (= 2023.11.17-1), python3-chardet (= 5.2.0+dfsg-1), python3-commonmark (= 0.9.1-5), python3-dateutil (= 2.8.2-3), python3-dev (= 3.12.2-0ubuntu1), python3-docutils (= 0.20.1+dfsg-3), python3-greenlet (= 3.0.3-0ubuntu2), python3-idna (= 3.6-2), python3-imagesize (= 1.4.1-1), python3-jinja2 (= 3.1.2-1ubuntu1), python3-markdown-it (= 3.0.0-2), python3-markupsafe (= 2.1.5-1), python3-mdit-py-plugins (= 0.4.0-1), python3-mdurl (= 0.1.2-1), python3-minimal (= 3.12.2-0ubuntu1), python3-myst-parser (= 2.0.0-1), python3-numpy (= 1:1.24.2-2), python3-packaging (= 23.2-1), python3-pandas (= 2.1.4+dfsg-4ubuntu2), python3-pandas-lib (= 2.1.4+dfsg-4ubuntu2), python3-pil (= 10.2.0-1), python3-pkg-resources (= 68.1.2-2ubuntu1), python3-pygments (= 2.17.2+dfsg-1), python3-recommonmark (= 0.7.1+ds-5), python3-requests (= 2.31.0+dfsg-1ubuntu1), python3-roman (= 3.3-3), python3-setuptools (= 68.1.2-2ubuntu1), python3-six (= 1.16.0-4), python3-snowballstemmer (= 2.2.0-4), python3-sphinx (= 7.2.6-5), python3-sqlalchemy (= 1.4.50+ds1-1), python3-tz (= 2024.1-2), python3-urllib3 (= 2.0.7-1), python3-yaml (= 6.0.1-2), python3.11 (= 3.11.8-1build3), python3.11-minimal (= 3.11.8-1build3), python3.12 (= 3.12.2-4build2), python3.12-dev (= 3.12.2-4build2), python3.12-minimal (= 3.12.2-4build2), rapidjson-dev (= 1.1.0+dfsg2-7.1), readline-common (= 8.2-3.1), rpcsvc-proto (= 1.4.2-0ubuntu6), sed (= 4.9-2), sensible-utils (= 0.0.22), sgml-base (= 1.31), shared-mime-info (= 2.4-1build1), sphinx-common (= 7.2.6-5), ssl-cert (= 1.1.2ubuntu1), sysvinit-utils (= 3.08-6ubuntu2), t1utils (= 1.41-4build2), tar (= 1.35+dfsg-3), tex-common (= 6.18), tex-gyre (= 20180621-6), texlive-base (= 2023.20240207-1), texlive-binaries (= 2023.20230311.66589-9build1), texlive-fonts-recommended (= 2023.20240207-1), texlive-latex-base (= 2023.20240207-1), texlive-latex-extra (= 2023.20240207-1), texlive-latex-recommended (= 2023.20240207-1), texlive-pictures (= 2023.20240207-1), tzdata (= 2024a-1ubuntu1), ucf (= 3.0043+nmu1), util-linux (= 2.39.3-9ubuntu2), uuid-dev (= 2.39.3-9ubuntu2), x11-common (= 1:7.7+23ubuntu2), x11proto-core-dev (= 2023.2-1), x11proto-dev (= 2023.2-1), xdg-utils (= 1.1.3-4.1ubuntu3), xfonts-encodings (= 1:1.0.5-0ubuntu2), xfonts-utils (= 1:7.7+6build2), xml-core (= 0.19), xorg-sgml-doctools (= 1:1.11-1.1), xtrans-dev (= 1.4.0-1), xz-utils (= 5.6.0-0.2), zlib1g (= 1:1.3.dfsg-3.1ubuntu1), zlib1g-dev (= 1:1.3.dfsg-3.1ubuntu1) Environment: DEB_BUILD_OPTIONS="parallel=4" DEB_BUILD_PROFILES="noudeb" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1709410505" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ librdkit-dev_202309.3-3build1_armhf.deb --------------------------------------- new Debian package, version 2.0. size 304662 bytes: control archive=10032 bytes. 1593 bytes, 38 lines control 28222 bytes, 333 lines md5sums Package: librdkit-dev Source: rdkit Version: 202309.3-3build1 Architecture: armhf Maintainer: Ubuntu Developers Original-Maintainer: Debichem Team Installed-Size: 2358 Depends: librdkit1 (= 202309.3-3build1) Section: libdevel Priority: optional Homepage: http://www.rdkit.org Description: Collection of cheminformatics and machine-learning software (development files) RDKit is a Python/C++ based cheminformatics and machine-learning software environment. Features Include: . * Chemical reaction handling and transforms * Substructure searching with SMARTS * Canonical SMILES * Molecule-molecule alignment * Large number of molecular descriptors, including topological, compositional, EState, SlogP/SMR, VSA and Feature-map vectors * Fragmentation using RECAP rules * 2D coordinate generation and depiction, including constrained depiction * 3D coordinate generation using geometry embedding * UFF and MMFF94 forcefields * Chirality support, including calculation of (R/S) stereochemistry codes * 2D pharmacophore searching * Fingerprinting, including Daylight-like, atom pairs, topological torsions, Morgan algorithm and MACCS keys * Calculation of shape similarity * Multi-molecule maximum common substructure * Machine-learning via clustering and information theory algorithms * Gasteiger-Marsili partial charge calculation . File formats RDKit supports include MDL Mol, PDB, SDF, TDT, SMILES and RDKit binary format. . This package contains the header files. drwxr-xr-x root/root 0 2024-03-02 20:15 ./ drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/ drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/include/ drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/include/rdkit/ drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/include/rdkit/CIPLabeler/ -rw-r--r-- root/root 2759 2023-12-05 19:34 ./usr/include/rdkit/CIPLabeler/CIPLabeler.h -rw-r--r-- root/root 628 2023-12-05 19:34 ./usr/include/rdkit/CIPLabeler/TooManyNodesException.h drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/include/rdkit/Catalogs/ -rw-r--r-- root/root 15920 2023-12-05 19:34 ./usr/include/rdkit/Catalogs/Catalog.h -rw-r--r-- root/root 1384 2023-12-05 19:34 ./usr/include/rdkit/Catalogs/CatalogEntry.h -rw-r--r-- root/root 1243 2023-12-05 19:34 ./usr/include/rdkit/Catalogs/CatalogParams.h drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/include/rdkit/ChemicalFeatures/ -rw-r--r-- root/root 1052 2023-12-05 19:34 ./usr/include/rdkit/ChemicalFeatures/ChemicalFeature.h -rw-r--r-- root/root 2936 2023-12-05 19:34 ./usr/include/rdkit/ChemicalFeatures/FreeChemicalFeature.h drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/include/rdkit/DataManip/ drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/include/rdkit/DataManip/MetricMatrixCalc/ -rw-r--r-- root/root 1867 2023-12-05 19:34 ./usr/include/rdkit/DataManip/MetricMatrixCalc/MetricFuncs.h -rw-r--r-- root/root 3532 2023-12-05 19:34 ./usr/include/rdkit/DataManip/MetricMatrixCalc/MetricMatrixCalc.h drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/include/rdkit/DataStructs/ -rw-r--r-- root/root 11727 2023-12-05 19:34 ./usr/include/rdkit/DataStructs/BitOps.h -rw-r--r-- root/root 2509 2023-12-05 19:34 ./usr/include/rdkit/DataStructs/BitVect.h -rw-r--r-- root/root 1120 2023-12-05 19:34 ./usr/include/rdkit/DataStructs/BitVectUtils.h -rw-r--r-- root/root 584 2023-12-05 19:34 ./usr/include/rdkit/DataStructs/BitVects.h -rw-r--r-- root/root 897 2023-12-05 19:34 ./usr/include/rdkit/DataStructs/DatastructsException.h -rw-r--r-- root/root 2775 2023-12-05 19:34 ./usr/include/rdkit/DataStructs/DatastructsStreamOps.h -rw-r--r-- root/root 872 2023-12-05 19:34 ./usr/include/rdkit/DataStructs/DiscreteDistMat.h -rw-r--r-- root/root 4404 2023-12-05 19:34 ./usr/include/rdkit/DataStructs/DiscreteValueVect.h -rw-r--r-- root/root 3337 2023-12-05 19:34 ./usr/include/rdkit/DataStructs/ExplicitBitVect.h -rw-r--r-- root/root 9536 2023-12-05 19:34 ./usr/include/rdkit/DataStructs/FPBReader.h -rw-r--r-- root/root 7562 2023-12-05 19:34 ./usr/include/rdkit/DataStructs/MultiFPBReader.h -rw-r--r-- root/root 3134 2023-12-05 19:34 ./usr/include/rdkit/DataStructs/SparseBitVect.h -rw-r--r-- root/root 16722 2023-12-05 19:34 ./usr/include/rdkit/DataStructs/SparseIntVect.h -rw-r--r-- root/root 1296 2023-12-05 19:34 ./usr/include/rdkit/DataStructs/base64.h drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/include/rdkit/DistGeom/ -rw-r--r-- root/root 3456 2023-12-05 19:34 ./usr/include/rdkit/DistGeom/BoundsMatrix.h -rw-r--r-- root/root 1653 2023-12-05 19:34 ./usr/include/rdkit/DistGeom/ChiralSet.h -rw-r--r-- root/root 3475 2023-12-05 19:34 ./usr/include/rdkit/DistGeom/ChiralViolationContrib.h -rw-r--r-- root/root 7391 2023-12-05 19:34 ./usr/include/rdkit/DistGeom/DistGeomUtils.h -rw-r--r-- root/root 1827 2023-12-05 19:34 ./usr/include/rdkit/DistGeom/DistViolationContrib.h -rw-r--r-- root/root 2007 2023-12-05 19:34 ./usr/include/rdkit/DistGeom/FourthDimContrib.h -rw-r--r-- root/root 1310 2023-12-05 19:34 ./usr/include/rdkit/DistGeom/TriangleSmooth.h drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/include/rdkit/Features/ -rw-r--r-- root/root 2898 2023-12-05 19:34 ./usr/include/rdkit/Features/Feature.h drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/include/rdkit/ForceField/ -rw-r--r-- root/root 1116 2023-12-05 19:34 ./usr/include/rdkit/ForceField/Contrib.h -rw-r--r-- root/root 8822 2023-12-05 19:34 ./usr/include/rdkit/ForceField/ForceField.h drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/include/rdkit/ForceField/MMFF/ -rw-r--r-- root/root 2975 2023-12-05 19:34 ./usr/include/rdkit/ForceField/MMFF/AngleBend.h -rw-r--r-- root/root 2217 2023-12-05 19:34 ./usr/include/rdkit/ForceField/MMFF/AngleConstraint.h -rw-r--r-- root/root 2291 2023-12-05 19:34 ./usr/include/rdkit/ForceField/MMFF/BondStretch.h -rw-r--r-- root/root 663 2023-12-05 19:34 ./usr/include/rdkit/ForceField/MMFF/Contribs.h -rw-r--r-- root/root 2091 2023-12-05 19:34 ./usr/include/rdkit/ForceField/MMFF/DistanceConstraint.h -rw-r--r-- root/root 4055 2023-12-05 19:34 ./usr/include/rdkit/ForceField/MMFF/Nonbonded.h -rw-r--r-- root/root 2367 2023-12-05 19:34 ./usr/include/rdkit/ForceField/MMFF/OopBend.h -rw-r--r-- root/root 40821 2023-12-05 19:34 ./usr/include/rdkit/ForceField/MMFF/Params.h -rw-r--r-- root/root 1719 2023-12-05 19:34 ./usr/include/rdkit/ForceField/MMFF/PositionConstraint.h -rw-r--r-- root/root 2373 2023-12-05 19:34 ./usr/include/rdkit/ForceField/MMFF/StretchBend.h -rw-r--r-- root/root 3022 2023-12-05 19:34 ./usr/include/rdkit/ForceField/MMFF/TorsionAngle.h -rw-r--r-- root/root 2715 2023-12-05 19:34 ./usr/include/rdkit/ForceField/MMFF/TorsionConstraint.h drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/include/rdkit/ForceField/UFF/ -rw-r--r-- root/root 3528 2023-12-05 19:34 ./usr/include/rdkit/ForceField/UFF/AngleBend.h -rw-r--r-- root/root 2213 2023-12-05 19:34 ./usr/include/rdkit/ForceField/UFF/AngleConstraint.h -rw-r--r-- root/root 2573 2023-12-05 19:34 ./usr/include/rdkit/ForceField/UFF/BondStretch.h -rw-r--r-- root/root 599 2023-12-05 19:34 ./usr/include/rdkit/ForceField/UFF/Contribs.h -rw-r--r-- root/root 2123 2023-12-05 19:34 ./usr/include/rdkit/ForceField/UFF/DistanceConstraint.h -rw-r--r-- root/root 2663 2023-12-05 19:34 ./usr/include/rdkit/ForceField/UFF/Inversion.h -rw-r--r-- root/root 2875 2023-12-05 19:34 ./usr/include/rdkit/ForceField/UFF/Nonbonded.h -rw-r--r-- root/root 4442 2023-12-05 19:34 ./usr/include/rdkit/ForceField/UFF/Params.h -rw-r--r-- root/root 1715 2023-12-05 19:34 ./usr/include/rdkit/ForceField/UFF/PositionConstraint.h -rw-r--r-- root/root 4577 2023-12-05 19:34 ./usr/include/rdkit/ForceField/UFF/TorsionAngle.h -rw-r--r-- root/root 2711 2023-12-05 19:34 ./usr/include/rdkit/ForceField/UFF/TorsionConstraint.h drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/include/rdkit/Geometry/ -rw-r--r-- root/root 1614 2023-12-05 19:34 ./usr/include/rdkit/Geometry/Grid3D.h -rw-r--r-- root/root 2027 2023-12-05 19:34 ./usr/include/rdkit/Geometry/GridUtils.h -rw-r--r-- root/root 449 2023-12-05 19:34 ./usr/include/rdkit/Geometry/Transform.h -rw-r--r-- root/root 2597 2023-12-05 19:34 ./usr/include/rdkit/Geometry/Transform2D.h -rw-r--r-- root/root 2913 2023-12-05 19:34 ./usr/include/rdkit/Geometry/Transform3D.h -rw-r--r-- root/root 8599 2023-12-05 19:34 ./usr/include/rdkit/Geometry/UniformGrid3D.h -rw-r--r-- root/root 3338 2023-12-05 19:34 ./usr/include/rdkit/Geometry/Utils.h -rw-r--r-- root/root 15562 2023-12-05 19:34 ./usr/include/rdkit/Geometry/point.h drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/include/rdkit/GraphMol/ drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/include/rdkit/GraphMol/Abbreviations/ -rw-r--r-- root/root 5462 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Abbreviations/Abbreviations.h -rw-r--r-- root/root 15270 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Atom.h -rw-r--r-- root/root 5673 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/AtomIterators.h -rw-r--r-- root/root 12017 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Bond.h -rw-r--r-- root/root 2354 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/BondIterators.h -rw-r--r-- root/root 4559 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Canon.h drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/include/rdkit/GraphMol/ChemReactions/ drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/include/rdkit/GraphMol/ChemReactions/Enumerate/ -rw-r--r-- root/root 4683 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/ChemReactions/Enumerate/CartesianProduct.h -rw-r--r-- root/root 6455 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/ChemReactions/Enumerate/Enumerate.h -rw-r--r-- root/root 7009 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/ChemReactions/Enumerate/EnumerateBase.h -rw-r--r-- root/root 2599 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/ChemReactions/Enumerate/EnumerateTypes.h -rw-r--r-- root/root 2728 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/ChemReactions/Enumerate/EnumerationPickler.h -rw-r--r-- root/root 8569 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/ChemReactions/Enumerate/EnumerationStrategyBase.h -rw-r--r-- root/root 5284 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/ChemReactions/Enumerate/RandomSample.h -rw-r--r-- root/root 5940 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/ChemReactions/Enumerate/RandomSampleAllBBs.h -rw-r--r-- root/root 2874 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/ChemReactions/PreprocessRxn.h -rw-r--r-- root/root 19670 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/ChemReactions/Reaction.h -rw-r--r-- root/root 5844 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/ChemReactions/ReactionFingerprints.h -rw-r--r-- root/root 12271 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/ChemReactions/ReactionParser.h -rw-r--r-- root/root 4353 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/ChemReactions/ReactionPickler.h -rw-r--r-- root/root 4944 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/ChemReactions/ReactionRunner.h -rw-r--r-- root/root 3151 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/ChemReactions/ReactionUtils.h -rw-r--r-- root/root 6591 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/ChemReactions/SanitizeRxn.h drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/include/rdkit/GraphMol/ChemTransforms/ -rw-r--r-- root/root 12019 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/ChemTransforms/ChemTransforms.h -rw-r--r-- root/root 5607 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/ChemTransforms/MolFragmenter.h -rw-r--r-- root/root 11393 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Chirality.h -rw-r--r-- root/root 5494 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Conformer.h -rw-r--r-- root/root 6948 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/CoordGen.h drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/include/rdkit/GraphMol/Depictor/ -rw-r--r-- root/root 12743 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Depictor/DepictUtils.h -rw-r--r-- root/root 19471 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Depictor/EmbeddedFrag.h -rw-r--r-- root/root 20900 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Depictor/RDDepictor.h drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/include/rdkit/GraphMol/Deprotect/ -rw-r--r-- root/root 3471 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Deprotect/Deprotect.h drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/include/rdkit/GraphMol/Descriptors/ -rw-r--r-- root/root 2073 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Descriptors/AUTOCORR2D.h -rw-r--r-- root/root 2128 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Descriptors/AUTOCORR3D.h -rw-r--r-- root/root 1607 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Descriptors/AtomFeat.h -rw-r--r-- root/root 2369 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Descriptors/BCUT.h -rw-r--r-- root/root 8540 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Descriptors/ConnectivityDescriptors.h -rw-r--r-- root/root 1864 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Descriptors/CoulombMat.h -rw-r--r-- root/root 4679 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Descriptors/Crippen.h -rw-r--r-- root/root 2116 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Descriptors/Data3Ddescriptors.h -rw-r--r-- root/root 2138 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Descriptors/EEM.h -rw-r--r-- root/root 2194 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Descriptors/GETAWAY.h -rw-r--r-- root/root 6919 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Descriptors/Lipinski.h -rw-r--r-- root/root 2170 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Descriptors/MORSE.h -rw-r--r-- root/root 1141 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Descriptors/MQN.h -rw-r--r-- root/root 2852 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Descriptors/MolData3Ddescriptors.h -rw-r--r-- root/root 2814 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Descriptors/MolDescriptors.h -rw-r--r-- root/root 749 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Descriptors/MolDescriptors3D.h -rw-r--r-- root/root 4788 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Descriptors/MolSurf.h -rw-r--r-- root/root 1297 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Descriptors/OxidationNumbers.h -rw-r--r-- root/root 2571 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Descriptors/PBF.h -rw-r--r-- root/root 5256 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Descriptors/PMI.h -rw-r--r-- root/root 4767 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Descriptors/Property.h -rw-r--r-- root/root 2159 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Descriptors/RDF.h -rw-r--r-- root/root 3938 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Descriptors/RegisterDescriptor.h -rw-r--r-- root/root 4874 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Descriptors/USRDescriptor.h -rw-r--r-- root/root 2178 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Descriptors/WHIM.h drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/include/rdkit/GraphMol/DistGeomHelpers/ -rw-r--r-- root/root 3267 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.h -rw-r--r-- root/root 23984 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/DistGeomHelpers/Embedder.h drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/include/rdkit/GraphMol/FMCS/ -rw-r--r-- root/root 9769 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/FMCS/FMCS.h -rw-r--r-- root/root 1343 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/FMCS/Graph.h drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/include/rdkit/GraphMol/FileParsers/ -rw-r--r-- root/root 2701 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/FileParsers/CDXMLParser.h -rw-r--r-- root/root 10253 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/FileParsers/FileParserUtils.h -rw-r--r-- root/root 18646 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/FileParsers/FileParsers.h -rw-r--r-- root/root 5577 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/FileParsers/GeneralFileReader.h -rw-r--r-- root/root 4645 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/FileParsers/MolFileStereochem.h -rw-r--r-- root/root 17001 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/FileParsers/MolSupplier.h -rw-r--r-- root/root 14218 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/FileParsers/MolWriters.h -rw-r--r-- root/root 3875 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/FileParsers/MultithreadedMolSupplier.h -rw-r--r-- root/root 2573 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/FileParsers/MultithreadedSDMolSupplier.h -rw-r--r-- root/root 2811 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/FileParsers/MultithreadedSmilesMolSupplier.h -rw-r--r-- root/root 7434 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/FileParsers/PNGParser.h -rw-r--r-- root/root 4093 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/FileParsers/SequenceParsers.h -rw-r--r-- root/root 1360 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/FileParsers/SequenceWriters.h drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/include/rdkit/GraphMol/FilterCatalog/ -rw-r--r-- root/root 9485 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/FilterCatalog/FilterCatalog.h -rw-r--r-- root/root 9019 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/FilterCatalog/FilterCatalogEntry.h -rw-r--r-- root/root 5438 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/FilterCatalog/FilterMatcherBase.h -rw-r--r-- root/root 20265 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/FilterCatalog/FilterMatchers.h -rw-r--r-- root/root 2477 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/FilterCatalog/FunctionalGroupHierarchy.h drwxr-xr-x 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root/root 6283 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Fingerprints/RDKitFPGenerator.h -rw-r--r-- root/root 5122 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/Fingerprints/TopologicalTorsionGenerator.h drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/ drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/CrystalFF/ -rw-r--r-- root/root 2258 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/CrystalFF/TorsionAngleM6.h -rw-r--r-- root/root 2097 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/CrystalFF/TorsionPreferences.h -rw-r--r-- root/root 4650 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/FFConvenience.h drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/MMFF/ -rw-r--r-- root/root 10259 2023-12-05 19:34 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/MMFF/AtomTyper.h -rw-r--r-- root/root 5376 2023-12-05 19:34 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------------------------------------ new Debian package, version 2.0. size 4618278 bytes: control archive=3334 bytes. 1890 bytes, 38 lines control 4695 bytes, 61 lines md5sums 2679 bytes, 58 lines shlibs 75 bytes, 2 lines triggers Package: librdkit1 Source: rdkit Version: 202309.3-3build1 Architecture: armhf Maintainer: Ubuntu Developers Original-Maintainer: Debichem Team Installed-Size: 14307 Depends: libboost-iostreams1.83.0 (>= 1.83.0), libboost-python1.83.0 (>= 1.83.0), libboost-python1.83.0-py312, libboost-serialization1.83.0 (>= 1.83.0), libc6 (>= 2.38), libcairo2 (>= 1.4.10), libcoordgen3 (>= 3.0.2), libfreetype6 (>= 2.2.1), libgcc-s1 (>= 3.5), libmaeparser1 (>= 1.3.1), libpython3.12t64 (>= 3.12.1), libstdc++6 (>= 13.1) Section: libs Priority: optional Homepage: http://www.rdkit.org Description: Collection of cheminformatics and machine-learning software (shared libraries) RDKit is a Python/C++ based cheminformatics and machine-learning software environment. Features Include: . * Chemical reaction handling and transforms * Substructure searching with SMARTS * Canonical SMILES * Molecule-molecule alignment * Large number of molecular descriptors, including topological, compositional, EState, SlogP/SMR, VSA and Feature-map vectors * Fragmentation using RECAP rules * 2D coordinate generation and depiction, including constrained depiction * 3D coordinate generation using geometry embedding * UFF and MMFF94 forcefields * Chirality support, including calculation of (R/S) stereochemistry codes * 2D pharmacophore searching * Fingerprinting, including Daylight-like, atom pairs, topological torsions, Morgan algorithm and MACCS keys * Calculation of shape similarity * Multi-molecule maximum common substructure * Machine-learning via clustering and information theory algorithms * Gasteiger-Marsili partial charge calculation . File formats RDKit supports include MDL Mol, PDB, SDF, TDT, SMILES and RDKit binary format. . This package contains the shared libraries. drwxr-xr-x root/root 0 2024-03-02 20:15 ./ drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/ drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/lib/ lrwxrwxrwx root/root 0 2024-03-02 20:15 ./usr/lib/libRDKitAbbreviations.so.1 -> libRDKitAbbreviations.so.1.2023.09.3 -rw-r--r-- root/root 95816 2024-03-02 20:15 ./usr/lib/libRDKitAbbreviations.so.1.2023.09.3 lrwxrwxrwx root/root 0 2024-03-02 20:15 ./usr/lib/libRDKitAlignment.so.1 -> libRDKitAlignment.so.1.2023.09.3 -rw-r--r-- root/root 22056 2024-03-02 20:15 ./usr/lib/libRDKitAlignment.so.1.2023.09.3 lrwxrwxrwx root/root 0 2024-03-02 20:15 ./usr/lib/libRDKitCIPLabeler.so.1 -> libRDKitCIPLabeler.so.1.2023.09.3 -rw-r--r-- root/root 124744 2024-03-02 20:15 ./usr/lib/libRDKitCIPLabeler.so.1.2023.09.3 lrwxrwxrwx root/root 0 2024-03-02 20:15 ./usr/lib/libRDKitCatalogs.so.1 -> libRDKitCatalogs.so.1.2023.09.3 -rw-r--r-- root/root 5620 2024-03-02 20:15 ./usr/lib/libRDKitCatalogs.so.1.2023.09.3 lrwxrwxrwx 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libRDKithc.so.1.2023.09.3 -rw-r--r-- root/root 5516 2024-03-02 20:15 ./usr/lib/libRDKithc.so.1.2023.09.3 drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/share/ drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/share/doc/ drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/share/doc/librdkit1/ -rw-r--r-- root/root 3384 2024-03-02 20:15 ./usr/share/doc/librdkit1/changelog.Debian.gz -rw-r--r-- root/root 6705 2024-02-28 09:43 ./usr/share/doc/librdkit1/copyright drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/share/lintian/ drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 424 2024-02-28 09:43 ./usr/share/lintian/overrides/librdkit1 postgresql-16-rdkit_202309.3-3build1_armhf.deb ---------------------------------------------- new Debian package, version 2.0. size 368054 bytes: control archive=1615 bytes. 1664 bytes, 38 lines control 1500 bytes, 18 lines md5sums Package: postgresql-16-rdkit Source: rdkit Version: 202309.3-3build1 Architecture: armhf Maintainer: Ubuntu Developers Original-Maintainer: Debichem Team Installed-Size: 1008 Depends: libc6 (>= 2.38), libgcc-s1 (>= 3.5), librdkit1 (>= 202309.3), libstdc++6 (>= 13.1), postgresql-16 Section: database Priority: optional Homepage: http://www.rdkit.org Description: Cheminformatics and machine-learning software (PostgreSQL Cartridge) RDKit is a Python/C++ based cheminformatics and machine-learning software environment. Features Include: . * Chemical reaction handling and transforms * Substructure searching with SMARTS * Canonical SMILES * Molecule-molecule alignment * Large number of molecular descriptors, including topological, compositional, EState, SlogP/SMR, VSA and Feature-map vectors * Fragmentation using RECAP rules * 2D coordinate generation and depiction, including constrained depiction * 3D coordinate generation using geometry embedding * UFF and MMFF94 forcefields * Chirality support, including calculation of (R/S) stereochemistry codes * 2D pharmacophore searching * Fingerprinting, including Daylight-like, atom pairs, topological torsions, Morgan algorithm and MACCS keys * Calculation of shape similarity * Multi-molecule maximum common substructure * Machine-learning via clustering and information theory algorithms * Gasteiger-Marsili partial charge calculation . File formats RDKit supports include MDL Mol, PDB, SDF, TDT, SMILES and RDKit binary format. . This package contains the PostgreSQL extension. drwxr-xr-x root/root 0 2024-03-02 20:15 ./ drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/ drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/lib/ drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/lib/postgresql/ drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/lib/postgresql/16/ drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/lib/postgresql/16/lib/ drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/lib/postgresql/16/lib/bitcode/ -rw-r--r-- root/root 45844 2024-03-02 20:15 ./usr/lib/postgresql/16/lib/bitcode/rdkit.index.bc drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/lib/postgresql/16/lib/bitcode/rdkit/ -rw-r--r-- root/root 376996 2024-03-02 20:15 ./usr/lib/postgresql/16/lib/bitcode/rdkit/adapter.bc -rw-r--r-- root/root 7644 2024-03-02 20:15 ./usr/lib/postgresql/16/lib/bitcode/rdkit/bfp_gin.bc -rw-r--r-- root/root 17464 2024-03-02 20:15 ./usr/lib/postgresql/16/lib/bitcode/rdkit/bfp_gist.bc -rw-r--r-- root/root 16604 2024-03-02 20:15 ./usr/lib/postgresql/16/lib/bitcode/rdkit/bfp_op.bc -rw-r--r-- root/root 8260 2024-03-02 20:15 ./usr/lib/postgresql/16/lib/bitcode/rdkit/bitstring.bc -rw-r--r-- root/root 14932 2024-03-02 20:15 ./usr/lib/postgresql/16/lib/bitcode/rdkit/cache.bc -rw-r--r-- root/root 14988 2024-03-02 20:15 ./usr/lib/postgresql/16/lib/bitcode/rdkit/guc.bc -rw-r--r-- root/root 13288 2024-03-02 20:15 ./usr/lib/postgresql/16/lib/bitcode/rdkit/low_gist.bc -rw-r--r-- root/root 43792 2024-03-02 20:15 ./usr/lib/postgresql/16/lib/bitcode/rdkit/mol_op.bc -rw-r--r-- root/root 19824 2024-03-02 20:15 ./usr/lib/postgresql/16/lib/bitcode/rdkit/rdkit_gist.bc -rw-r--r-- root/root 27332 2024-03-02 20:15 ./usr/lib/postgresql/16/lib/bitcode/rdkit/rdkit_io.bc -rw-r--r-- root/root 9804 2024-03-02 20:15 ./usr/lib/postgresql/16/lib/bitcode/rdkit/rxn_op.bc -rw-r--r-- root/root 14632 2024-03-02 20:15 ./usr/lib/postgresql/16/lib/bitcode/rdkit/sfp_op.bc -rw-r--r-- root/root 202288 2024-03-02 20:15 ./usr/lib/postgresql/16/lib/rdkit.so drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/share/ drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/share/doc/ drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/share/doc/postgresql-16-rdkit/ lrwxrwxrwx root/root 0 2024-03-02 20:15 ./usr/share/doc/postgresql-16-rdkit/changelog.Debian.gz -> ../librdkit1/changelog.Debian.gz -rw-r--r-- root/root 6705 2024-02-28 09:43 ./usr/share/doc/postgresql-16-rdkit/copyright drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/share/postgresql/ drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/share/postgresql/16/ drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/share/postgresql/16/extension/ -rw-r--r-- root/root 50742 2024-03-02 20:15 ./usr/share/postgresql/16/extension/rdkit--4.4.0.sql -rw-r--r-- root/root 137 2024-03-02 20:15 ./usr/share/postgresql/16/extension/rdkit.control python3-rdkit_202309.3-3build1_armhf.deb ---------------------------------------- new Debian package, version 2.0. size 4131496 bytes: control archive=13063 bytes. 1918 bytes, 37 lines control 45937 bytes, 460 lines md5sums 273 bytes, 12 lines * postinst #!/bin/sh 386 bytes, 12 lines * prerm #!/bin/sh Package: python3-rdkit Source: rdkit Version: 202309.3-3build1 Architecture: armhf Maintainer: Ubuntu Developers Original-Maintainer: Debichem Team Installed-Size: 19975 Depends: fonts-freefont-ttf, rdkit-data, python3 (<< 3.13), python3 (>= 3.12~), python3-numpy (>= 1:1.22.0), python3-numpy-abi9, python3:any, libboost-python1.83.0 (>= 1.83.0), libboost-python1.83.0-py312, libboost-serialization1.83.0 (>= 1.83.0), libc6 (>= 2.34), libcairo2 (>= 1.4.10), libcoordgen3 (>= 3.0.2), libgcc-s1 (>= 3.5), libpython3.12t64 (>= 3.12.1), librdkit1 (>= 202309.3), libstdc++6 (>= 13.1) Suggests: rdkit-doc Section: python Priority: optional Homepage: http://www.rdkit.org Description: Collection of cheminformatics and machine-learning software RDKit is a Python/C++ based cheminformatics and machine-learning software environment. Features Include: . * Chemical reaction handling and transforms * Substructure searching with SMARTS * Canonical SMILES * Molecule-molecule alignment * Large number of molecular descriptors, including topological, compositional, EState, SlogP/SMR, VSA and Feature-map vectors * Fragmentation using RECAP rules * 2D coordinate generation and depiction, including constrained depiction * 3D coordinate generation using geometry embedding * UFF and MMFF94 forcefields * Chirality support, including calculation of (R/S) stereochemistry codes * 2D pharmacophore searching * Fingerprinting, including Daylight-like, atom pairs, topological torsions, Morgan algorithm and MACCS keys * Calculation of shape similarity * Multi-molecule maximum common substructure * Machine-learning via clustering and information theory algorithms * Gasteiger-Marsili partial charge calculation . File formats RDKit supports include MDL Mol, PDB, SDF, TDT, SMILES and RDKit binary format. drwxr-xr-x root/root 0 2024-03-02 20:15 ./ drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/ drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/lib/ drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/lib/python3/ drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/lib/python3/dist-packages/ drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/lib/python3/dist-packages/rdkit/ drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/lib/python3/dist-packages/rdkit/Avalon/ -rw-r--r-- root/root 0 2023-12-05 19:34 ./usr/lib/python3/dist-packages/rdkit/Avalon/__init__.py drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/lib/python3/dist-packages/rdkit/Chem/ -rw-r--r-- root/root 15910 2023-12-05 19:34 ./usr/lib/python3/dist-packages/rdkit/Chem/AllChem.py drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs/ -rw-r--r-- root/root 5702 2023-12-05 19:34 ./usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs/Pairs.py -rw-r--r-- root/root 3309 2023-12-05 19:34 ./usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs/Sheridan.py -rw-r--r-- root/root 5446 2023-12-05 19:34 ./usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs/Torsions.py -rw-r--r-- root/root 8929 2023-12-05 19:34 ./usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs/Utils.py -rw-r--r-- root/root 0 2023-12-05 19:34 ./usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs/__init__.py -rw-r--r-- root/root 32267 2023-12-05 19:34 ./usr/lib/python3/dist-packages/rdkit/Chem/BRICS.py -rw-r--r-- root/root 19000 2023-12-05 19:34 ./usr/lib/python3/dist-packages/rdkit/Chem/BuildFragmentCatalog.py drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/lib/python3/dist-packages/rdkit/Chem/ChemUtils/ -rw-r--r-- root/root 2923 2023-12-05 19:34 ./usr/lib/python3/dist-packages/rdkit/Chem/ChemUtils/AlignDepict.py -rw-r--r-- root/root 1974 2023-12-05 19:34 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2023-12-05 19:34 ./usr/lib/python3/dist-packages/rdkit/utils/chemutils.py -rw-r--r-- root/root 2200 2023-12-05 19:34 ./usr/lib/python3/dist-packages/rdkit/utils/comhack.py -rw-r--r-- root/root 1003 2023-12-05 19:34 ./usr/lib/python3/dist-packages/rdkit/utils/fileutils.py -rw-r--r-- root/root 1189 2023-12-05 19:34 ./usr/lib/python3/dist-packages/rdkit/utils/listutils.py -rw-r--r-- root/root 113 2023-12-05 19:34 ./usr/lib/python3/dist-packages/rdkit/utils/retest.txt -rw-r--r-- root/root 1837 2023-12-05 19:34 ./usr/lib/python3/dist-packages/rdkit/utils/spiral.py drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/share/ drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/share/doc/ drwxr-xr-x root/root 0 2024-03-02 20:15 ./usr/share/doc/python3-rdkit/ -rw-r--r-- root/root 225 2024-02-28 09:43 ./usr/share/doc/python3-rdkit/TODO.Debian lrwxrwxrwx root/root 0 2024-03-02 20:15 ./usr/share/doc/python3-rdkit/changelog.Debian.gz -> ../librdkit1/changelog.Debian.gz -rw-r--r-- root/root 6705 2024-02-28 09:43 ./usr/share/doc/python3-rdkit/copyright +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: armhf Build Type: any Build-Space: 4354832 Build-Time: 6767 Distribution: noble-proposed Host Architecture: armhf Install-Time: 917 Job: rdkit_202309.3-3build1.dsc Machine Architecture: arm64 Package: rdkit Package-Time: 7697 Source-Version: 202309.3-3build1 Space: 4354832 Status: successful Version: 202309.3-3build1 -------------------------------------------------------------------------------- Finished at 2024-03-16T01:32:59Z Build needed 02:08:17, 4354832k disk space RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=noble --arch=armhf PACKAGEBUILD-27864092 Scanning for processes to kill in build PACKAGEBUILD-27864092