https://launchpad.net/ubuntu/+source/mira/4.9.6-3build3/+build/15138244 RUN: /usr/share/launchpad-buildd/slavebin/slave-prep Forking launchpad-buildd slave process... Kernel version: Linux lcy01-amd64-002 4.4.0-128-generic #154-Ubuntu SMP Fri May 25 14:15:18 UTC 2018 x86_64 Buildd toolchain package versions: launchpad-buildd_163 python-lpbuildd_163 sbuild_0.67.0-2ubuntu7.1 bzr-builder_0.7.3+bzr174~ppa13~ubuntu14.10.1 bzr_2.7.0-2ubuntu3.1 git-build-recipe_0.3.4~git201611291343.dcee459~ubuntu16.04.1 git_1:2.7.4-0ubuntu1.4 dpkg-dev_1.18.4ubuntu1.4 python-debian_0.1.27ubuntu2. Syncing the system clock with the buildd NTP service... 17 Jul 16:49:43 ntpdate[1867]: adjust time server 10.211.37.1 offset 0.001117 sec RUN: /usr/share/launchpad-buildd/slavebin/in-target unpack-chroot --backend=chroot --series=cosmic --arch=amd64 PACKAGEBUILD-15138244 /home/buildd/filecache-default/b7d07d6b68ae68badf26a018a3a0291d50e41e42 Creating target for build PACKAGEBUILD-15138244 RUN: /usr/share/launchpad-buildd/slavebin/in-target mount-chroot --backend=chroot --series=cosmic --arch=amd64 PACKAGEBUILD-15138244 Starting target for build PACKAGEBUILD-15138244 RUN: /usr/share/launchpad-buildd/slavebin/in-target override-sources-list --backend=chroot --series=cosmic --arch=amd64 PACKAGEBUILD-15138244 'deb http://ftpmaster.internal/ubuntu cosmic main universe' 'deb http://ftpmaster.internal/ubuntu cosmic-security main universe' 'deb http://ftpmaster.internal/ubuntu cosmic-updates main universe' 'deb http://ftpmaster.internal/ubuntu cosmic-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-15138244 RUN: /usr/share/launchpad-buildd/slavebin/in-target update-debian-chroot --backend=chroot --series=cosmic --arch=amd64 PACKAGEBUILD-15138244 Updating target for build PACKAGEBUILD-15138244 Get:1 http://ftpmaster.internal/ubuntu cosmic InRelease [242 kB] Get:2 http://ftpmaster.internal/ubuntu cosmic-security InRelease [65.4 kB] Get:3 http://ftpmaster.internal/ubuntu cosmic-updates InRelease [65.4 kB] Get:4 http://ftpmaster.internal/ubuntu cosmic-proposed InRelease [92.5 kB] Get:5 http://ftpmaster.internal/ubuntu cosmic/main amd64 Packages [1094 kB] Get:6 http://ftpmaster.internal/ubuntu cosmic/main Translation-en [524 kB] Get:7 http://ftpmaster.internal/ubuntu cosmic/universe amd64 Packages [8652 kB] Get:8 http://ftpmaster.internal/ubuntu cosmic/universe Translation-en [5019 kB] Get:9 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 Packages [95.7 kB] Get:10 http://ftpmaster.internal/ubuntu cosmic-proposed/main Translation-en [45.3 kB] Get:11 http://ftpmaster.internal/ubuntu cosmic-proposed/universe amd64 Packages [282 kB] Get:12 http://ftpmaster.internal/ubuntu cosmic-proposed/universe Translation-en [157 kB] Fetched 16.3 MB in 5s (3290 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: g++-7 libargon2-0 libncursesw5 libprocps6 libstdc++-7-dev Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: cpp-8 g++-8 gcc-8 libargon2-1 libasan5 libgcc-8-dev libncurses6 libncursesw6 libprocps7 libstdc++-8-dev libtinfo6 libubsan1 The following packages will be upgraded: adduser apt base-files base-passwd bash binutils binutils-common binutils-x86-64-linux-gnu bsdutils build-essential cpp cpp-7 debconf debianutils dpkg dpkg-dev e2fslibs e2fsprogs fdisk g++ g++-7 gcc gcc-7 gcc-7-base gcc-8-base gpg gpg-agent gpgconf gpgv libapparmor1 libapt-pkg5.0 libargon2-0 libasan4 libatomic1 libaudit-common libaudit1 libbinutils libblkid1 libcap-ng0 libcc1-0 libcilkrts5 libcom-err2 libcomerr2 libcryptsetup12 libdpkg-perl libext2fs2 libfdisk1 libgcc-7-dev libgcc1 libgcrypt20 libgmp10 libgomp1 libgpg-error0 libitm1 libkmod2 liblsan0 liblz4-1 libmount1 libmpx2 libncurses5 libncursesw5 libnpth0 libp11-kit0 libperl5.26 libpng16-16 libquadmath0 libreadline7 libseccomp2 libselinux1 libsemanage-common libsemanage1 libsepol1 libslang2 libsmartcols1 libsqlite3-0 libss2 libssl1.1 libstdc++-7-dev libstdc++6 libsystemd0 libtasn1-6 libtinfo5 libtsan0 libubsan0 libudev1 libusb-0.1-4 libuuid1 linux-libc-dev make mount ncurses-base ncurses-bin openssl perl perl-base perl-modules-5.26 pinentry-curses pkgbinarymangler procps readline-common sed systemd systemd-sysv tar tzdata util-linux 106 upgraded, 12 newly installed, 0 to remove and 0 not upgraded. Need to get 84.6 MB of archives. After this operation, 115 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu cosmic/main amd64 base-files amd64 10.1ubuntu4 [58.0 kB] Get:2 http://ftpmaster.internal/ubuntu cosmic/main amd64 libtinfo6 amd64 6.1+20180210-4ubuntu1 [84.0 kB] Get:3 http://ftpmaster.internal/ubuntu cosmic/main amd64 debianutils amd64 4.8.6 [85.6 kB] Get:4 http://ftpmaster.internal/ubuntu cosmic/main amd64 bash amd64 4.4.18-2ubuntu2 [614 kB] Get:5 http://ftpmaster.internal/ubuntu cosmic/main amd64 bsdutils amd64 1:2.32-0.1ubuntu1 [60.4 kB] Get:6 http://ftpmaster.internal/ubuntu cosmic/main amd64 tar amd64 1.30+dfsg-2 [240 kB] Get:7 http://ftpmaster.internal/ubuntu cosmic/main amd64 dpkg amd64 1.19.0.5ubuntu3 [1140 kB] Get:8 http://ftpmaster.internal/ubuntu cosmic/main amd64 libext2fs2 amd64 1.44.3-1 [158 kB] Get:9 http://ftpmaster.internal/ubuntu cosmic/main amd64 e2fsprogs amd64 1.44.3-1 [396 kB] Get:10 http://ftpmaster.internal/ubuntu cosmic/main amd64 ncurses-bin amd64 6.1+20180210-4ubuntu1 [163 kB] Get:11 http://ftpmaster.internal/ubuntu cosmic/main amd64 perl-modules-5.26 all 5.26.2-6 [2762 kB] Get:12 http://ftpmaster.internal/ubuntu cosmic/main amd64 libperl5.26 amd64 5.26.2-6 [3545 kB] Get:13 http://ftpmaster.internal/ubuntu cosmic/main amd64 perl amd64 5.26.2-6 [202 kB] Get:14 http://ftpmaster.internal/ubuntu cosmic/main amd64 perl-base amd64 5.26.2-6 [1391 kB] Get:15 http://ftpmaster.internal/ubuntu cosmic/main amd64 sed amd64 4.5-1 [184 kB] Get:16 http://ftpmaster.internal/ubuntu cosmic/main amd64 libuuid1 amd64 2.32-0.1ubuntu1 [19.9 kB] Get:17 http://ftpmaster.internal/ubuntu cosmic/main amd64 libblkid1 amd64 2.32-0.1ubuntu1 [128 kB] Get:18 http://ftpmaster.internal/ubuntu cosmic/main amd64 libfdisk1 amd64 2.32-0.1ubuntu1 [167 kB] Get:19 http://ftpmaster.internal/ubuntu cosmic/main amd64 libncursesw6 amd64 6.1+20180210-4ubuntu1 [130 kB] Get:20 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libselinux1 amd64 2.8-1build1 [68.5 kB] Get:21 http://ftpmaster.internal/ubuntu cosmic/main amd64 libmount1 amd64 2.32-0.1ubuntu1 [139 kB] Get:22 http://ftpmaster.internal/ubuntu cosmic/main amd64 libsmartcols1 amd64 2.32-0.1ubuntu1 [86.0 kB] Get:23 http://ftpmaster.internal/ubuntu cosmic/main amd64 fdisk amd64 2.32-0.1ubuntu1 [109 kB] Get:24 http://ftpmaster.internal/ubuntu cosmic/main amd64 util-linux amd64 2.32-0.1ubuntu1 [916 kB] Get:25 http://ftpmaster.internal/ubuntu cosmic/main amd64 base-passwd amd64 3.5.45 [47.4 kB] Get:26 http://ftpmaster.internal/ubuntu cosmic/main amd64 ncurses-base all 6.1+20180210-4ubuntu1 [18.4 kB] Get:27 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libquadmath0 amd64 8.1.0-10ubuntu1 [133 kB] Get:28 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libitm1 amd64 8.1.0-10ubuntu1 [28.1 kB] Get:29 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 gcc-8-base amd64 8.1.0-10ubuntu1 [19.0 kB] Get:30 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libgcc1 amd64 1:8.1.0-10ubuntu1 [40.7 kB] Get:31 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libmpx2 amd64 8.1.0-10ubuntu1 [11.7 kB] Get:32 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 liblsan0 amd64 8.1.0-10ubuntu1 [132 kB] Get:33 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libtsan0 amd64 8.1.0-10ubuntu1 [288 kB] Get:34 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libcc1-0 amd64 8.1.0-10ubuntu1 [39.6 kB] Get:35 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libatomic1 amd64 8.1.0-10ubuntu1 [9056 B] Get:36 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libgomp1 amd64 8.1.0-10ubuntu1 [76.4 kB] Get:37 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libstdc++6 amd64 8.1.0-10ubuntu1 [398 kB] Get:38 http://ftpmaster.internal/ubuntu cosmic/main amd64 liblz4-1 amd64 1.8.2-1ubuntu1 [86.1 kB] Get:39 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libudev1 amd64 238-5ubuntu2 [56.1 kB] Get:40 http://ftpmaster.internal/ubuntu cosmic/main amd64 libapt-pkg5.0 amd64 1.7.0~alpha2 [803 kB] Get:41 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 debconf all 1.5.67 [124 kB] Get:42 http://ftpmaster.internal/ubuntu cosmic/main amd64 adduser all 3.117ubuntu1 [163 kB] Get:43 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libgpg-error0 amd64 1.32-1 [56.1 kB] Get:44 http://ftpmaster.internal/ubuntu cosmic/main amd64 libgcrypt20 amd64 1.8.3-1ubuntu1 [419 kB] Get:45 http://ftpmaster.internal/ubuntu cosmic/main amd64 gpgv amd64 2.2.8-1ubuntu1 [197 kB] Get:46 http://ftpmaster.internal/ubuntu cosmic/main amd64 libseccomp2 amd64 2.3.3-3ubuntu1 [38.9 kB] Get:47 http://ftpmaster.internal/ubuntu cosmic/main amd64 apt amd64 1.7.0~alpha2 [1172 kB] Get:48 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libapparmor1 amd64 2.12-4ubuntu6 [31.3 kB] Get:49 http://ftpmaster.internal/ubuntu cosmic/main amd64 libaudit-common all 1:2.8.3-1ubuntu2 [4064 B] Get:50 http://ftpmaster.internal/ubuntu cosmic/main amd64 libcap-ng0 amd64 0.7.9-1 [11.3 kB] Get:51 http://ftpmaster.internal/ubuntu cosmic/main amd64 libaudit1 amd64 1:2.8.3-1ubuntu2 [38.6 kB] Get:52 http://ftpmaster.internal/ubuntu cosmic/main amd64 libargon2-1 amd64 0~20171227-0.1 [20.2 kB] Get:53 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libcryptsetup12 amd64 2:2.0.3-6ubuntu1 [139 kB] Get:54 http://ftpmaster.internal/ubuntu cosmic/main amd64 libkmod2 amd64 25-1ubuntu1 [41.6 kB] Get:55 http://ftpmaster.internal/ubuntu cosmic/main amd64 mount amd64 2.32-0.1ubuntu1 [104 kB] Get:56 http://ftpmaster.internal/ubuntu cosmic/main amd64 libncurses6 amd64 6.1+20180210-4ubuntu1 [101 kB] Get:57 http://ftpmaster.internal/ubuntu cosmic/main amd64 libprocps7 amd64 2:3.3.15-2ubuntu1 [32.6 kB] Get:58 http://ftpmaster.internal/ubuntu cosmic/main amd64 procps amd64 2:3.3.15-2ubuntu1 [231 kB] Get:59 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 systemd amd64 238-5ubuntu2 [2930 kB] Get:60 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libsystemd0 amd64 238-5ubuntu2 [208 kB] Get:61 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 systemd-sysv amd64 238-5ubuntu2 [13.7 kB] Get:62 http://ftpmaster.internal/ubuntu cosmic/main amd64 libcom-err2 amd64 1.44.3-1 [9184 B] Get:63 http://ftpmaster.internal/ubuntu cosmic/main amd64 libsepol1 amd64 2.8-1 [252 kB] Get:64 http://ftpmaster.internal/ubuntu cosmic/main amd64 libsemanage-common all 2.8-1build1 [7000 B] Get:65 http://ftpmaster.internal/ubuntu cosmic/main amd64 libsemanage1 amd64 2.8-1build1 [85.3 kB] Get:66 http://ftpmaster.internal/ubuntu cosmic/main amd64 libss2 amd64 1.44.3-1 [11.1 kB] Get:67 http://ftpmaster.internal/ubuntu cosmic/main amd64 libgmp10 amd64 2:6.1.2+dfsg-3 [240 kB] Get:68 http://ftpmaster.internal/ubuntu cosmic/main amd64 libp11-kit0 amd64 0.23.12-2 [184 kB] Get:69 http://ftpmaster.internal/ubuntu cosmic/main amd64 libtasn1-6 amd64 4.13-3 [36.1 kB] Get:70 http://ftpmaster.internal/ubuntu cosmic/main amd64 libncurses5 amd64 6.1+20180210-4ubuntu1 [95.2 kB] Get:71 http://ftpmaster.internal/ubuntu cosmic/main amd64 libncursesw5 amd64 6.1+20180210-4ubuntu1 [117 kB] Get:72 http://ftpmaster.internal/ubuntu cosmic/main amd64 libtinfo5 amd64 6.1+20180210-4ubuntu1 [79.3 kB] Get:73 http://ftpmaster.internal/ubuntu cosmic/main amd64 libargon2-0 amd64 0~20171227-0.1 [4532 B] Get:74 http://ftpmaster.internal/ubuntu cosmic/main amd64 readline-common all 7.0-5 [52.2 kB] Get:75 http://ftpmaster.internal/ubuntu cosmic/main amd64 libreadline7 amd64 7.0-5 [123 kB] Get:76 http://ftpmaster.internal/ubuntu cosmic/main amd64 libslang2 amd64 2.3.2-1ubuntu1 [425 kB] Get:77 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libsqlite3-0 amd64 3.24.0-1 [506 kB] Get:78 http://ftpmaster.internal/ubuntu cosmic/main amd64 libssl1.1 amd64 1.1.0g-2ubuntu5 [1129 kB] Get:79 http://ftpmaster.internal/ubuntu cosmic/main amd64 openssl amd64 1.1.0g-2ubuntu5 [531 kB] Get:80 http://ftpmaster.internal/ubuntu cosmic/main amd64 tzdata all 2018e-1 [188 kB] Get:81 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libpng16-16 amd64 1.6.34-2 [176 kB] Get:82 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 binutils-x86-64-linux-gnu amd64 2.31-1ubuntu1 [1849 kB] Get:83 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 binutils-common amd64 2.31-1ubuntu1 [194 kB] Get:84 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 binutils amd64 2.31-1ubuntu1 [3388 B] Get:85 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libbinutils amd64 2.31-1ubuntu1 [481 kB] Get:86 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 cpp-8 amd64 8.1.0-10ubuntu1 [7209 kB] Get:87 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 cpp amd64 4:8.1.0-2ubuntu0.3 [27.6 kB] Get:88 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libasan5 amd64 8.1.0-10ubuntu1 [365 kB] Get:89 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libubsan1 amd64 8.1.0-10ubuntu1 [121 kB] Get:90 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libgcc-8-dev amd64 8.1.0-10ubuntu1 [2305 kB] Get:91 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 gcc-8 amd64 8.1.0-10ubuntu1 [7977 kB] Get:92 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 gcc amd64 4:8.1.0-2ubuntu0.3 [5196 B] Get:93 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libstdc++-8-dev amd64 8.1.0-10ubuntu1 [1534 kB] Get:94 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 g++-8 amd64 8.1.0-10ubuntu1 [8098 kB] Get:95 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 g++ amd64 4:8.1.0-2ubuntu0.3 [1584 B] Get:96 http://ftpmaster.internal/ubuntu cosmic/main amd64 make amd64 4.2.1-1.1 [162 kB] Get:97 http://ftpmaster.internal/ubuntu cosmic/main amd64 dpkg-dev all 1.19.0.5ubuntu3 [608 kB] Get:98 http://ftpmaster.internal/ubuntu cosmic/main amd64 libdpkg-perl all 1.19.0.5ubuntu3 [211 kB] Get:99 http://ftpmaster.internal/ubuntu cosmic/main amd64 build-essential amd64 12.5ubuntu2 [4732 B] Get:100 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libasan4 amd64 7.3.0-25ubuntu1 [358 kB] Get:101 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libubsan0 amd64 7.3.0-25ubuntu1 [126 kB] Get:102 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libcilkrts5 amd64 7.3.0-25ubuntu1 [42.5 kB] Get:103 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 g++-7 amd64 7.3.0-25ubuntu1 [7573 kB] Get:104 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 gcc-7 amd64 7.3.0-25ubuntu1 [7455 kB] Get:105 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libstdc++-7-dev amd64 7.3.0-25ubuntu1 [1464 kB] Get:106 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libgcc-7-dev amd64 7.3.0-25ubuntu1 [2377 kB] Get:107 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 cpp-7 amd64 7.3.0-25ubuntu1 [6737 kB] Get:108 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 gcc-7-base amd64 7.3.0-25ubuntu1 [19.0 kB] Get:109 http://ftpmaster.internal/ubuntu cosmic/main amd64 e2fslibs amd64 1.44.3-1 [2704 B] Get:110 http://ftpmaster.internal/ubuntu cosmic/main amd64 pinentry-curses amd64 1.1.0-1build2 [35.9 kB] Get:111 http://ftpmaster.internal/ubuntu cosmic/main amd64 libnpth0 amd64 1.5-4 [7708 B] Get:112 http://ftpmaster.internal/ubuntu cosmic/main amd64 gpg amd64 2.2.8-1ubuntu1 [470 kB] Get:113 http://ftpmaster.internal/ubuntu cosmic/main amd64 gpgconf amd64 2.2.8-1ubuntu1 [122 kB] Get:114 http://ftpmaster.internal/ubuntu cosmic/main amd64 gpg-agent amd64 2.2.8-1ubuntu1 [228 kB] Get:115 http://ftpmaster.internal/ubuntu cosmic/main amd64 libcomerr2 amd64 1.44.3-1 [2704 B] Get:116 http://ftpmaster.internal/ubuntu cosmic/main amd64 libusb-0.1-4 amd64 2:0.1.12-32 [17.4 kB] Get:117 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 linux-libc-dev amd64 4.17.0-5.6 [1003 kB] Get:118 http://ftpmaster.internal/ubuntu cosmic/main amd64 pkgbinarymangler all 141 [53.4 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 84.6 MB in 3s (26.5 MB/s) (Reading database ... 12637 files and directories currently installed.) Preparing to unpack .../base-files_10.1ubuntu4_amd64.deb ... Unpacking base-files (10.1ubuntu4) over (10.1ubuntu2) ... Setting up base-files (10.1ubuntu4) ... Installing new version of config file /etc/issue ... Installing new version of config file /etc/issue.net ... Installing new version of config file /etc/lsb-release ... Selecting previously unselected package libtinfo6:amd64. (Reading database ... 12637 files and directories currently installed.) Preparing to unpack .../libtinfo6_6.1+20180210-4ubuntu1_amd64.deb ... Unpacking libtinfo6:amd64 (6.1+20180210-4ubuntu1) ... Setting up libtinfo6:amd64 (6.1+20180210-4ubuntu1) ... (Reading database ... 12646 files and directories currently installed.) Preparing to unpack .../debianutils_4.8.6_amd64.deb ... Unpacking debianutils (4.8.6) over (4.8.4) ... Setting up debianutils (4.8.6) ... (Reading database ... 12646 files and directories currently installed.) Preparing to unpack .../bash_4.4.18-2ubuntu2_amd64.deb ... Unpacking bash (4.4.18-2ubuntu2) over (4.4.18-2ubuntu1) ... Setting up bash (4.4.18-2ubuntu2) ... update-alternatives: using /usr/share/man/man7/bash-builtins.7.gz to provide /usr/share/man/man7/builtins.7.gz (builtins.7.gz) in auto mode (Reading database ... 12646 files and directories currently installed.) Preparing to unpack .../bsdutils_1%3a2.32-0.1ubuntu1_amd64.deb ... Unpacking bsdutils (1:2.32-0.1ubuntu1) over (1:2.31.1-0.4ubuntu3) ... Setting up bsdutils (1:2.32-0.1ubuntu1) ... (Reading database ... 12646 files and directories currently installed.) Preparing to unpack .../tar_1.30+dfsg-2_amd64.deb ... Unpacking tar (1.30+dfsg-2) over (1.29b-2) ... Setting up tar (1.30+dfsg-2) ... (Reading database ... 12646 files and directories currently installed.) Preparing to unpack .../dpkg_1.19.0.5ubuntu3_amd64.deb ... Unpacking dpkg (1.19.0.5ubuntu3) over (1.19.0.5ubuntu2) ... Setting up dpkg (1.19.0.5ubuntu3) ... (Reading database ... 12646 files and directories currently installed.) Preparing to unpack .../libext2fs2_1.44.3-1_amd64.deb ... Unpacking libext2fs2:amd64 (1.44.3-1) over (1.44.1-1) ... Setting up libext2fs2:amd64 (1.44.3-1) ... (Reading database ... 12646 files and directories currently installed.) Preparing to unpack .../e2fsprogs_1.44.3-1_amd64.deb ... Unpacking e2fsprogs (1.44.3-1) over (1.44.1-1) ... Setting up e2fsprogs (1.44.3-1) ... (Reading database ... 12648 files and directories currently installed.) Preparing to unpack .../ncurses-bin_6.1+20180210-4ubuntu1_amd64.deb ... Unpacking ncurses-bin (6.1+20180210-4ubuntu1) over (6.1-1ubuntu1) ... Setting up ncurses-bin (6.1+20180210-4ubuntu1) ... (Reading database ... 12648 files and directories currently installed.) Preparing to unpack .../perl_5.26.2-6_amd64.deb ... Unpacking perl (5.26.2-6) over (5.26.1-6) ... Preparing to unpack .../perl-modules-5.26_5.26.2-6_all.deb ... Unpacking perl-modules-5.26 (5.26.2-6) over (5.26.1-6) ... Preparing to unpack .../libperl5.26_5.26.2-6_amd64.deb ... Unpacking libperl5.26:amd64 (5.26.2-6) over (5.26.1-6) ... Preparing to unpack .../perl-base_5.26.2-6_amd64.deb ... Unpacking perl-base (5.26.2-6) over (5.26.1-6) ... Setting up perl-base (5.26.2-6) ... (Reading database ... 12648 files and directories currently installed.) Preparing to unpack .../archives/sed_4.5-1_amd64.deb ... Unpacking sed (4.5-1) over (4.4-2) ... Setting up sed (4.5-1) ... (Reading database ... 12648 files and directories currently installed.) Preparing to unpack .../libuuid1_2.32-0.1ubuntu1_amd64.deb ... Unpacking libuuid1:amd64 (2.32-0.1ubuntu1) over (2.31.1-0.4ubuntu3) ... Setting up libuuid1:amd64 (2.32-0.1ubuntu1) ... (Reading database ... 12648 files and directories currently installed.) Preparing to unpack .../libblkid1_2.32-0.1ubuntu1_amd64.deb ... Unpacking libblkid1:amd64 (2.32-0.1ubuntu1) over (2.31.1-0.4ubuntu3) ... Setting up libblkid1:amd64 (2.32-0.1ubuntu1) ... (Reading database ... 12648 files and directories currently installed.) Preparing to unpack .../libfdisk1_2.32-0.1ubuntu1_amd64.deb ... Unpacking libfdisk1:amd64 (2.32-0.1ubuntu1) over (2.31.1-0.4ubuntu3) ... Setting up libfdisk1:amd64 (2.32-0.1ubuntu1) ... Selecting previously unselected package libncursesw6:amd64. (Reading database ... 12648 files and directories currently installed.) Preparing to unpack .../libncursesw6_6.1+20180210-4ubuntu1_amd64.deb ... Unpacking libncursesw6:amd64 (6.1+20180210-4ubuntu1) ... Setting up libncursesw6:amd64 (6.1+20180210-4ubuntu1) ... (Reading database ... 12657 files and directories currently installed.) Preparing to unpack .../libselinux1_2.8-1build1_amd64.deb ... Unpacking libselinux1:amd64 (2.8-1build1) over (2.7-2build2) ... Setting up libselinux1:amd64 (2.8-1build1) ... (Reading database ... 12657 files and directories currently installed.) Preparing to unpack .../libmount1_2.32-0.1ubuntu1_amd64.deb ... Unpacking libmount1:amd64 (2.32-0.1ubuntu1) over (2.31.1-0.4ubuntu3) ... Setting up libmount1:amd64 (2.32-0.1ubuntu1) ... (Reading database ... 12657 files and directories currently installed.) Preparing to unpack .../libsmartcols1_2.32-0.1ubuntu1_amd64.deb ... Unpacking libsmartcols1:amd64 (2.32-0.1ubuntu1) over (2.31.1-0.4ubuntu3) ... Setting up libsmartcols1:amd64 (2.32-0.1ubuntu1) ... (Reading database ... 12657 files and directories currently installed.) Preparing to unpack .../fdisk_2.32-0.1ubuntu1_amd64.deb ... Unpacking fdisk (2.32-0.1ubuntu1) over (2.31.1-0.4ubuntu3) ... Setting up fdisk (2.32-0.1ubuntu1) ... (Reading database ... 12657 files and directories currently installed.) Preparing to unpack .../util-linux_2.32-0.1ubuntu1_amd64.deb ... Unpacking util-linux (2.32-0.1ubuntu1) over (2.31.1-0.4ubuntu3) ... Setting up util-linux (2.32-0.1ubuntu1) ... (Reading database ... 12657 files and directories currently installed.) Preparing to unpack .../base-passwd_3.5.45_amd64.deb ... Unpacking base-passwd (3.5.45) over (3.5.44) ... Setting up base-passwd (3.5.45) ... (Reading database ... 12657 files and directories currently installed.) Preparing to unpack .../ncurses-base_6.1+20180210-4ubuntu1_all.deb ... Unpacking ncurses-base (6.1+20180210-4ubuntu1) over (6.1-1ubuntu1) ... Setting up ncurses-base (6.1+20180210-4ubuntu1) ... (Reading database ... 12659 files and directories currently installed.) Preparing to unpack .../libquadmath0_8.1.0-10ubuntu1_amd64.deb ... Unpacking libquadmath0:amd64 (8.1.0-10ubuntu1) over (8-20180414-1ubuntu2) ... Preparing to unpack .../libitm1_8.1.0-10ubuntu1_amd64.deb ... Unpacking libitm1:amd64 (8.1.0-10ubuntu1) over (8-20180414-1ubuntu2) ... Preparing to unpack .../gcc-8-base_8.1.0-10ubuntu1_amd64.deb ... Unpacking gcc-8-base:amd64 (8.1.0-10ubuntu1) over (8-20180414-1ubuntu2) ... Setting up gcc-8-base:amd64 (8.1.0-10ubuntu1) ... (Reading database ... 12658 files and directories currently installed.) Preparing to unpack .../libgcc1_1%3a8.1.0-10ubuntu1_amd64.deb ... Unpacking libgcc1:amd64 (1:8.1.0-10ubuntu1) over (1:8-20180414-1ubuntu2) ... Setting up libgcc1:amd64 (1:8.1.0-10ubuntu1) ... (Reading database ... 12658 files and directories currently installed.) Preparing to unpack .../0-libmpx2_8.1.0-10ubuntu1_amd64.deb ... Unpacking libmpx2:amd64 (8.1.0-10ubuntu1) over (8-20180414-1ubuntu2) ... Preparing to unpack .../1-liblsan0_8.1.0-10ubuntu1_amd64.deb ... Unpacking liblsan0:amd64 (8.1.0-10ubuntu1) over (8-20180414-1ubuntu2) ... Preparing to unpack .../2-libtsan0_8.1.0-10ubuntu1_amd64.deb ... Unpacking libtsan0:amd64 (8.1.0-10ubuntu1) over (8-20180414-1ubuntu2) ... Preparing to unpack .../3-libcc1-0_8.1.0-10ubuntu1_amd64.deb ... Unpacking libcc1-0:amd64 (8.1.0-10ubuntu1) over (8-20180414-1ubuntu2) ... Preparing to unpack .../4-libatomic1_8.1.0-10ubuntu1_amd64.deb ... Unpacking libatomic1:amd64 (8.1.0-10ubuntu1) over (8-20180414-1ubuntu2) ... Preparing to unpack .../5-libgomp1_8.1.0-10ubuntu1_amd64.deb ... Unpacking libgomp1:amd64 (8.1.0-10ubuntu1) over (8-20180414-1ubuntu2) ... Preparing to unpack .../6-libstdc++6_8.1.0-10ubuntu1_amd64.deb ... Unpacking libstdc++6:amd64 (8.1.0-10ubuntu1) over (8-20180414-1ubuntu2) ... Setting up libstdc++6:amd64 (8.1.0-10ubuntu1) ... (Reading database ... 12658 files and directories currently installed.) Preparing to unpack .../liblz4-1_1.8.2-1ubuntu1_amd64.deb ... Unpacking liblz4-1:amd64 (1.8.2-1ubuntu1) over (0.0~r131-2ubuntu3) ... Setting up liblz4-1:amd64 (1.8.2-1ubuntu1) ... (Reading database ... 12658 files and directories currently installed.) Preparing to unpack .../libudev1_238-5ubuntu2_amd64.deb ... Unpacking libudev1:amd64 (238-5ubuntu2) over (237-3ubuntu10) ... Setting up libudev1:amd64 (238-5ubuntu2) ... (Reading database ... 12658 files and directories currently installed.) Preparing to unpack .../libapt-pkg5.0_1.7.0~alpha2_amd64.deb ... Unpacking libapt-pkg5.0:amd64 (1.7.0~alpha2) over (1.6.1) ... Setting up libapt-pkg5.0:amd64 (1.7.0~alpha2) ... (Reading database ... 12658 files and directories currently installed.) Preparing to unpack .../debconf_1.5.67_all.deb ... Unpacking debconf (1.5.67) over (1.5.66) ... Setting up debconf (1.5.67) ... (Reading database ... 12658 files and directories currently installed.) Preparing to unpack .../adduser_3.117ubuntu1_all.deb ... Unpacking adduser (3.117ubuntu1) over (3.116ubuntu1) ... Setting up adduser (3.117ubuntu1) ... (Reading database ... 12658 files and directories currently installed.) Preparing to unpack .../libgpg-error0_1.32-1_amd64.deb ... Unpacking libgpg-error0:amd64 (1.32-1) over (1.27-6) ... Setting up libgpg-error0:amd64 (1.32-1) ... (Reading database ... 12658 files and directories currently installed.) Preparing to unpack .../libgcrypt20_1.8.3-1ubuntu1_amd64.deb ... Unpacking libgcrypt20:amd64 (1.8.3-1ubuntu1) over (1.8.1-4ubuntu1) ... Setting up libgcrypt20:amd64 (1.8.3-1ubuntu1) ... (Reading database ... 12658 files and directories currently installed.) Preparing to unpack .../gpgv_2.2.8-1ubuntu1_amd64.deb ... Unpacking gpgv (2.2.8-1ubuntu1) over (2.2.4-1ubuntu1) ... Setting up gpgv (2.2.8-1ubuntu1) ... (Reading database ... 12658 files and directories currently installed.) Preparing to unpack .../libseccomp2_2.3.3-3ubuntu1_amd64.deb ... Unpacking libseccomp2:amd64 (2.3.3-3ubuntu1) over (2.3.1-2.1ubuntu4) ... Setting up libseccomp2:amd64 (2.3.3-3ubuntu1) ... (Reading database ... 12658 files and directories currently installed.) Preparing to unpack .../apt_1.7.0~alpha2_amd64.deb ... Unpacking apt (1.7.0~alpha2) over (1.6.1) ... Setting up apt (1.7.0~alpha2) ... (Reading database ... 12658 files and directories currently installed.) Preparing to unpack .../libapparmor1_2.12-4ubuntu6_amd64.deb ... Unpacking libapparmor1:amd64 (2.12-4ubuntu6) over (2.12-4ubuntu5) ... Preparing to unpack .../libaudit-common_1%3a2.8.3-1ubuntu2_all.deb ... Unpacking libaudit-common (1:2.8.3-1ubuntu2) over (1:2.8.2-1ubuntu1) ... Setting up libaudit-common (1:2.8.3-1ubuntu2) ... (Reading database ... 12658 files and directories currently installed.) Preparing to unpack .../libcap-ng0_0.7.9-1_amd64.deb ... Unpacking libcap-ng0:amd64 (0.7.9-1) over (0.7.7-3.1) ... Setting up libcap-ng0:amd64 (0.7.9-1) ... (Reading database ... 12658 files and directories currently installed.) Preparing to unpack .../libaudit1_1%3a2.8.3-1ubuntu2_amd64.deb ... Unpacking libaudit1:amd64 (1:2.8.3-1ubuntu2) over (1:2.8.2-1ubuntu1) ... Setting up libaudit1:amd64 (1:2.8.3-1ubuntu2) ... Selecting previously unselected package libargon2-1:amd64. (Reading database ... 12658 files and directories currently installed.) Preparing to unpack .../0-libargon2-1_0~20171227-0.1_amd64.deb ... Unpacking libargon2-1:amd64 (0~20171227-0.1) ... Preparing to unpack .../1-libcryptsetup12_2%3a2.0.3-6ubuntu1_amd64.deb ... Unpacking libcryptsetup12:amd64 (2:2.0.3-6ubuntu1) over (2:2.0.2-1ubuntu1) ... Preparing to unpack .../2-libkmod2_25-1ubuntu1_amd64.deb ... Unpacking libkmod2:amd64 (25-1ubuntu1) over (24-1ubuntu3) ... Preparing to unpack .../3-mount_2.32-0.1ubuntu1_amd64.deb ... Unpacking mount (2.32-0.1ubuntu1) over (2.31.1-0.4ubuntu3) ... Selecting previously unselected package libncurses6:amd64. Preparing to unpack .../4-libncurses6_6.1+20180210-4ubuntu1_amd64.deb ... Unpacking libncurses6:amd64 (6.1+20180210-4ubuntu1) ... Selecting previously unselected package libprocps7:amd64. Preparing to unpack .../5-libprocps7_2%3a3.3.15-2ubuntu1_amd64.deb ... Unpacking libprocps7:amd64 (2:3.3.15-2ubuntu1) ... Preparing to unpack .../6-procps_2%3a3.3.15-2ubuntu1_amd64.deb ... Unpacking procps (2:3.3.15-2ubuntu1) over (2:3.3.12-3ubuntu1) ... Setting up libargon2-1:amd64 (0~20171227-0.1) ... Setting up libcryptsetup12:amd64 (2:2.0.3-6ubuntu1) ... (Reading database ... 12680 files and directories currently installed.) Preparing to unpack .../systemd_238-5ubuntu2_amd64.deb ... Unpacking systemd (238-5ubuntu2) over (237-3ubuntu10) ... Preparing to unpack .../libsystemd0_238-5ubuntu2_amd64.deb ... Unpacking libsystemd0:amd64 (238-5ubuntu2) over (237-3ubuntu10) ... Setting up libsystemd0:amd64 (238-5ubuntu2) ... Setting up libapparmor1:amd64 (2.12-4ubuntu6) ... Setting up libkmod2:amd64 (25-1ubuntu1) ... Setting up mount (2.32-0.1ubuntu1) ... Setting up libncurses6:amd64 (6.1+20180210-4ubuntu1) ... Setting up libprocps7:amd64 (2:3.3.15-2ubuntu1) ... Setting up procps (2:3.3.15-2ubuntu1) ... Installing new version of config file /etc/init.d/procps ... Installing new version of config file /etc/sysctl.conf ... Installing new version of config file /etc/sysctl.d/10-network-security.conf ... Setting up systemd (238-5ubuntu2) ... Installing new version of config file /etc/systemd/logind.conf ... Installing new version of config file /etc/systemd/system.conf ... (Reading database ... 12685 files and directories currently installed.) Preparing to unpack .../systemd-sysv_238-5ubuntu2_amd64.deb ... Unpacking systemd-sysv (238-5ubuntu2) over (237-3ubuntu10) ... Preparing to unpack .../libcom-err2_1.44.3-1_amd64.deb ... Unpacking libcom-err2:amd64 (1.44.3-1) over (1.44.1-1) ... Setting up libcom-err2:amd64 (1.44.3-1) ... (Reading database ... 12685 files and directories currently installed.) Preparing to unpack .../libsepol1_2.8-1_amd64.deb ... Unpacking libsepol1:amd64 (2.8-1) over (2.7-1) ... Setting up libsepol1:amd64 (2.8-1) ... (Reading database ... 12685 files and directories currently installed.) Preparing to unpack .../libsemanage-common_2.8-1build1_all.deb ... Unpacking libsemanage-common (2.8-1build1) over (2.7-2build2) ... Setting up libsemanage-common (2.8-1build1) ... (Reading database ... 12685 files and directories currently installed.) Preparing to unpack .../libsemanage1_2.8-1build1_amd64.deb ... Unpacking libsemanage1:amd64 (2.8-1build1) over (2.7-2build2) ... Setting up libsemanage1:amd64 (2.8-1build1) ... (Reading database ... 12685 files and directories currently installed.) Preparing to unpack .../libss2_1.44.3-1_amd64.deb ... Unpacking libss2:amd64 (1.44.3-1) over (1.44.1-1) ... Setting up libss2:amd64 (1.44.3-1) ... (Reading database ... 12685 files and directories currently installed.) Preparing to unpack .../libgmp10_2%3a6.1.2+dfsg-3_amd64.deb ... Unpacking libgmp10:amd64 (2:6.1.2+dfsg-3) over (2:6.1.2+dfsg-2) ... Setting up libgmp10:amd64 (2:6.1.2+dfsg-3) ... (Reading database ... 12685 files and directories currently installed.) Preparing to unpack .../libp11-kit0_0.23.12-2_amd64.deb ... Unpacking libp11-kit0:amd64 (0.23.12-2) over (0.23.9-2) ... Setting up libp11-kit0:amd64 (0.23.12-2) ... (Reading database ... 12685 files and directories currently installed.) Preparing to unpack .../libtasn1-6_4.13-3_amd64.deb ... Unpacking libtasn1-6:amd64 (4.13-3) over (4.13-2) ... Setting up libtasn1-6:amd64 (4.13-3) ... (Reading database ... 12685 files and directories currently installed.) Preparing to unpack .../libncurses5_6.1+20180210-4ubuntu1_amd64.deb ... Unpacking libncurses5:amd64 (6.1+20180210-4ubuntu1) over (6.1-1ubuntu1) ... Preparing to unpack .../libncursesw5_6.1+20180210-4ubuntu1_amd64.deb ... Unpacking libncursesw5:amd64 (6.1+20180210-4ubuntu1) over (6.1-1ubuntu1) ... Preparing to unpack .../libtinfo5_6.1+20180210-4ubuntu1_amd64.deb ... Unpacking libtinfo5:amd64 (6.1+20180210-4ubuntu1) over (6.1-1ubuntu1) ... Setting up libtinfo5:amd64 (6.1+20180210-4ubuntu1) ... (Reading database ... 12683 files and directories currently installed.) Preparing to unpack .../00-libargon2-0_0~20171227-0.1_amd64.deb ... Unpacking libargon2-0 (0~20171227-0.1) over (0~20161029-1.1) ... Preparing to unpack .../01-readline-common_7.0-5_all.deb ... Unpacking readline-common (7.0-5) over (7.0-3) ... Preparing to unpack .../02-libreadline7_7.0-5_amd64.deb ... Unpacking libreadline7:amd64 (7.0-5) over (7.0-3) ... Preparing to unpack .../03-libslang2_2.3.2-1ubuntu1_amd64.deb ... Unpacking libslang2:amd64 (2.3.2-1ubuntu1) over (2.3.1a-3ubuntu1) ... Preparing to unpack .../04-libsqlite3-0_3.24.0-1_amd64.deb ... Unpacking libsqlite3-0:amd64 (3.24.0-1) over (3.22.0-1) ... Preparing to unpack .../05-libssl1.1_1.1.0g-2ubuntu5_amd64.deb ... Unpacking libssl1.1:amd64 (1.1.0g-2ubuntu5) over (1.1.0g-2ubuntu4) ... Preparing to unpack .../06-openssl_1.1.0g-2ubuntu5_amd64.deb ... Unpacking openssl (1.1.0g-2ubuntu5) over (1.1.0g-2ubuntu4) ... Preparing to unpack .../07-tzdata_2018e-1_all.deb ... Unpacking tzdata (2018e-1) over (2018d-1) ... Preparing to unpack .../08-libpng16-16_1.6.34-2_amd64.deb ... Unpacking libpng16-16:amd64 (1.6.34-2) over (1.6.34-1) ... Preparing to unpack .../09-binutils-x86-64-linux-gnu_2.31-1ubuntu1_amd64.deb ... Unpacking binutils-x86-64-linux-gnu (2.31-1ubuntu1) over (2.30-15ubuntu1) ... Preparing to unpack .../10-binutils-common_2.31-1ubuntu1_amd64.deb ... Unpacking binutils-common:amd64 (2.31-1ubuntu1) over (2.30-15ubuntu1) ... Preparing to unpack .../11-binutils_2.31-1ubuntu1_amd64.deb ... Unpacking binutils (2.31-1ubuntu1) over (2.30-15ubuntu1) ... Preparing to unpack .../12-libbinutils_2.31-1ubuntu1_amd64.deb ... Unpacking libbinutils:amd64 (2.31-1ubuntu1) over (2.30-15ubuntu1) ... Selecting previously unselected package cpp-8. Preparing to unpack .../13-cpp-8_8.1.0-10ubuntu1_amd64.deb ... Unpacking cpp-8 (8.1.0-10ubuntu1) ... Preparing to unpack .../14-cpp_4%3a8.1.0-2ubuntu0.3_amd64.deb ... Unpacking cpp (4:8.1.0-2ubuntu0.3) over (4:7.3.0-3ubuntu2) ... Selecting previously unselected package libasan5:amd64. Preparing to unpack .../15-libasan5_8.1.0-10ubuntu1_amd64.deb ... Unpacking libasan5:amd64 (8.1.0-10ubuntu1) ... Selecting previously unselected package libubsan1:amd64. Preparing to unpack .../16-libubsan1_8.1.0-10ubuntu1_amd64.deb ... Unpacking libubsan1:amd64 (8.1.0-10ubuntu1) ... Selecting previously unselected package libgcc-8-dev:amd64. Preparing to unpack .../17-libgcc-8-dev_8.1.0-10ubuntu1_amd64.deb ... Unpacking libgcc-8-dev:amd64 (8.1.0-10ubuntu1) ... Selecting previously unselected package gcc-8. Preparing to unpack .../18-gcc-8_8.1.0-10ubuntu1_amd64.deb ... Unpacking gcc-8 (8.1.0-10ubuntu1) ... Preparing to unpack .../19-gcc_4%3a8.1.0-2ubuntu0.3_amd64.deb ... Unpacking gcc (4:8.1.0-2ubuntu0.3) over (4:7.3.0-3ubuntu2) ... Selecting previously unselected package libstdc++-8-dev:amd64. Preparing to unpack .../20-libstdc++-8-dev_8.1.0-10ubuntu1_amd64.deb ... Unpacking libstdc++-8-dev:amd64 (8.1.0-10ubuntu1) ... Selecting previously unselected package g++-8. Preparing to unpack .../21-g++-8_8.1.0-10ubuntu1_amd64.deb ... Unpacking g++-8 (8.1.0-10ubuntu1) ... Preparing to unpack .../22-g++_4%3a8.1.0-2ubuntu0.3_amd64.deb ... Unpacking g++ (4:8.1.0-2ubuntu0.3) over (4:7.3.0-3ubuntu2) ... Preparing to unpack .../23-make_4.2.1-1.1_amd64.deb ... Unpacking make (4.2.1-1.1) over (4.1-9.1ubuntu1) ... Preparing to unpack .../24-dpkg-dev_1.19.0.5ubuntu3_all.deb ... Unpacking dpkg-dev (1.19.0.5ubuntu3) over (1.19.0.5ubuntu2) ... Preparing to unpack .../25-libdpkg-perl_1.19.0.5ubuntu3_all.deb ... Unpacking libdpkg-perl (1.19.0.5ubuntu3) over (1.19.0.5ubuntu2) ... Preparing to unpack .../26-build-essential_12.5ubuntu2_amd64.deb ... Unpacking build-essential (12.5ubuntu2) over (12.4ubuntu1) ... Preparing to unpack .../27-libasan4_7.3.0-25ubuntu1_amd64.deb ... Unpacking libasan4:amd64 (7.3.0-25ubuntu1) over (7.3.0-16ubuntu3) ... Preparing to unpack .../28-libubsan0_7.3.0-25ubuntu1_amd64.deb ... Unpacking libubsan0:amd64 (7.3.0-25ubuntu1) over (7.3.0-16ubuntu3) ... Preparing to unpack .../29-libcilkrts5_7.3.0-25ubuntu1_amd64.deb ... Unpacking libcilkrts5:amd64 (7.3.0-25ubuntu1) over (7.3.0-16ubuntu3) ... Preparing to unpack .../30-g++-7_7.3.0-25ubuntu1_amd64.deb ... Unpacking g++-7 (7.3.0-25ubuntu1) over (7.3.0-16ubuntu3) ... Preparing to unpack .../31-gcc-7_7.3.0-25ubuntu1_amd64.deb ... Unpacking gcc-7 (7.3.0-25ubuntu1) over (7.3.0-16ubuntu3) ... Preparing to unpack .../32-libstdc++-7-dev_7.3.0-25ubuntu1_amd64.deb ... Unpacking libstdc++-7-dev:amd64 (7.3.0-25ubuntu1) over (7.3.0-16ubuntu3) ... Preparing to unpack .../33-libgcc-7-dev_7.3.0-25ubuntu1_amd64.deb ... Unpacking libgcc-7-dev:amd64 (7.3.0-25ubuntu1) over (7.3.0-16ubuntu3) ... Preparing to unpack .../34-cpp-7_7.3.0-25ubuntu1_amd64.deb ... Unpacking cpp-7 (7.3.0-25ubuntu1) over (7.3.0-16ubuntu3) ... Preparing to unpack .../35-gcc-7-base_7.3.0-25ubuntu1_amd64.deb ... Unpacking gcc-7-base:amd64 (7.3.0-25ubuntu1) over (7.3.0-16ubuntu3) ... Preparing to unpack .../36-e2fslibs_1.44.3-1_amd64.deb ... Unpacking e2fslibs:amd64 (1.44.3-1) over (1.44.1-1) ... Preparing to unpack .../37-pinentry-curses_1.1.0-1build2_amd64.deb ... Unpacking pinentry-curses (1.1.0-1build2) over (1.1.0-1) ... Preparing to unpack .../38-libnpth0_1.5-4_amd64.deb ... Unpacking libnpth0:amd64 (1.5-4) over (1.5-3) ... Preparing to unpack .../39-gpg_2.2.8-1ubuntu1_amd64.deb ... Unpacking gpg (2.2.8-1ubuntu1) over (2.2.4-1ubuntu1) ... Preparing to unpack .../40-gpgconf_2.2.8-1ubuntu1_amd64.deb ... Unpacking gpgconf (2.2.8-1ubuntu1) over (2.2.4-1ubuntu1) ... Preparing to unpack .../41-gpg-agent_2.2.8-1ubuntu1_amd64.deb ... Unpacking gpg-agent (2.2.8-1ubuntu1) over (2.2.4-1ubuntu1) ... Preparing to unpack .../42-libcomerr2_1.44.3-1_amd64.deb ... Unpacking libcomerr2:amd64 (1.44.3-1) over (1.44.1-1) ... Preparing to unpack .../43-libusb-0.1-4_2%3a0.1.12-32_amd64.deb ... Unpacking libusb-0.1-4:amd64 (2:0.1.12-32) over (2:0.1.12-31) ... Preparing to unpack .../44-linux-libc-dev_4.17.0-5.6_amd64.deb ... Unpacking linux-libc-dev:amd64 (4.17.0-5.6) over (4.15.0-20.21) ... Preparing to unpack .../45-pkgbinarymangler_141_all.deb ... Unpacking pkgbinarymangler (141) over (138) ... Setting up libquadmath0:amd64 (8.1.0-10ubuntu1) ... Setting up libnpth0:amd64 (1.5-4) ... Setting up cpp-8 (8.1.0-10ubuntu1) ... Setting up libncurses5:amd64 (6.1+20180210-4ubuntu1) ... Setting up libgomp1:amd64 (8.1.0-10ubuntu1) ... Setting up libatomic1:amd64 (8.1.0-10ubuntu1) ... Setting up cpp (4:8.1.0-2ubuntu0.3) ... Setting up readline-common (7.0-5) ... Setting up libcc1-0:amd64 (8.1.0-10ubuntu1) ... Setting up make (4.2.1-1.1) ... Setting up pkgbinarymangler (141) ... Setting up e2fslibs:amd64 (1.44.3-1) ... Setting up libpng16-16:amd64 (1.6.34-2) ... Setting up libncursesw5:amd64 (6.1+20180210-4ubuntu1) ... Setting up libreadline7:amd64 (7.0-5) ... Setting up tzdata (2018e-1) ... Current default time zone: 'Etc/UTC' Local time is now: Tue Jul 17 16:50:36 UTC 2018. Universal Time is now: Tue Jul 17 16:50:36 UTC 2018. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up systemd-sysv (238-5ubuntu2) ... Setting up libtsan0:amd64 (8.1.0-10ubuntu1) ... Setting up gpgconf (2.2.8-1ubuntu1) ... Setting up linux-libc-dev:amd64 (4.17.0-5.6) ... Setting up perl-modules-5.26 (5.26.2-6) ... Setting up liblsan0:amd64 (8.1.0-10ubuntu1) ... Setting up libargon2-0 (0~20171227-0.1) ... Setting up gcc-7-base:amd64 (7.3.0-25ubuntu1) ... Setting up binutils-common:amd64 (2.31-1ubuntu1) ... Setting up libmpx2:amd64 (8.1.0-10ubuntu1) ... Processing triggers for libc-bin (2.27-3ubuntu1) ... Setting up libperl5.26:amd64 (5.26.2-6) ... Setting up libssl1.1:amd64 (1.1.0g-2ubuntu5) ... Setting up openssl (1.1.0g-2ubuntu5) ... Setting up libsqlite3-0:amd64 (3.24.0-1) ... Setting up pinentry-curses (1.1.0-1build2) ... Setting up libcomerr2:amd64 (1.44.3-1) ... Setting up libslang2:amd64 (2.3.2-1ubuntu1) ... Setting up libasan5:amd64 (8.1.0-10ubuntu1) ... Setting up libusb-0.1-4:amd64 (2:0.1.12-32) ... Setting up libitm1:amd64 (8.1.0-10ubuntu1) ... Setting up gpg (2.2.8-1ubuntu1) ... Setting up libubsan1:amd64 (8.1.0-10ubuntu1) ... Setting up libasan4:amd64 (7.3.0-25ubuntu1) ... Setting up libbinutils:amd64 (2.31-1ubuntu1) ... Setting up libcilkrts5:amd64 (7.3.0-25ubuntu1) ... Setting up libubsan0:amd64 (7.3.0-25ubuntu1) ... Setting up gpg-agent (2.2.8-1ubuntu1) ... Setting up libgcc-7-dev:amd64 (7.3.0-25ubuntu1) ... Setting up cpp-7 (7.3.0-25ubuntu1) ... Setting up libstdc++-7-dev:amd64 (7.3.0-25ubuntu1) ... Setting up perl (5.26.2-6) ... Setting up libgcc-8-dev:amd64 (8.1.0-10ubuntu1) ... Setting up binutils-x86-64-linux-gnu (2.31-1ubuntu1) ... Setting up libstdc++-8-dev:amd64 (8.1.0-10ubuntu1) ... Setting up libdpkg-perl (1.19.0.5ubuntu3) ... Setting up binutils (2.31-1ubuntu1) ... Setting up gcc-7 (7.3.0-25ubuntu1) ... Setting up g++-7 (7.3.0-25ubuntu1) ... Setting up gcc-8 (8.1.0-10ubuntu1) ... Setting up g++-8 (8.1.0-10ubuntu1) ... Setting up dpkg-dev (1.19.0.5ubuntu3) ... Setting up gcc (4:8.1.0-2ubuntu0.3) ... Setting up g++ (4:8.1.0-2ubuntu0.3) ... Setting up build-essential (12.5ubuntu2) ... Processing triggers for libc-bin (2.27-3ubuntu1) ... RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package PACKAGEBUILD-15138244 amd64 cosmic-proposed -c chroot:build-PACKAGEBUILD-15138244 --arch=amd64 --dist=cosmic-proposed --nolog -A mira_4.9.6-3build3.dsc Initiating build PACKAGEBUILD-15138244 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.4.0-128-generic #154-Ubuntu SMP Fri May 25 14:15:18 UTC 2018 x86_64 sbuild (Debian sbuild) 0.67.0 (26 Dec 2015) on lcy01-amd64-002.buildd +==============================================================================+ | mira 4.9.6-3build3 (amd64) 17 Jul 2018 16:50 | +==============================================================================+ Package: mira Version: 4.9.6-3build3 Source Version: 4.9.6-3build3 Distribution: cosmic-proposed Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 I: NOTICE: Log filtering will replace 'build/mira-fEbTVm/mira-4.9.6' with '<>' I: NOTICE: Log filtering will replace 'build/mira-fEbTVm' with '<>' I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-15138244/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- mira_4.9.6-3build3.dsc exists in .; copying to chroot Check architectures ------------------- Check dependencies ------------------ Merged Build-Depends: build-essential, fakeroot Filtered Build-Depends: build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<>/resolver-unfHTW/apt_archive/sbuild-build-depends-core-dummy.deb'. Ign:1 copy:/<>/resolver-unfHTW/apt_archive ./ InRelease Get:2 copy:/<>/resolver-unfHTW/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-unfHTW/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-unfHTW/apt_archive ./ Sources [214 B] Get:5 copy:/<>/resolver-unfHTW/apt_archive ./ Packages [526 B] Fetched 2859 B in 0s (0 B/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install core 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: g++-7 libargon2-0 libncursesw5 libprocps6 libstdc++-7-dev Use 'apt autoremove' to remove them. The following NEW packages will be installed: sbuild-build-depends-core-dummy 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 852 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-unfHTW/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [852 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 852 B in 0s (0 B/s) Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 13727 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_amd64.deb ... Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... Merged Build-Depends: debhelper (>= 10), dh-autoreconf, autoconf-archive, libbz2-dev, libexpat1-dev, libgoogle-perftools-dev, perl, flex, libfl-dev, vim-common, zlib1g-dev, libboost-thread-dev, libboost-regex-dev, libboost-filesystem-dev, libboost-system-dev, libboost-iostreams-dev, docbook-xsl, dblatex Filtered Build-Depends: debhelper (>= 10), dh-autoreconf, autoconf-archive, libbz2-dev, libexpat1-dev, libgoogle-perftools-dev, perl, flex, libfl-dev, vim-common, zlib1g-dev, libboost-thread-dev, libboost-regex-dev, libboost-filesystem-dev, libboost-system-dev, libboost-iostreams-dev, docbook-xsl, dblatex dpkg-deb: building package 'sbuild-build-depends-mira-dummy' in '/<>/resolver-zj_zKF/apt_archive/sbuild-build-depends-mira-dummy.deb'. Ign:1 copy:/<>/resolver-zj_zKF/apt_archive ./ InRelease Get:2 copy:/<>/resolver-zj_zKF/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-zj_zKF/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-zj_zKF/apt_archive ./ Sources [348 B] Get:5 copy:/<>/resolver-zj_zKF/apt_archive ./ Packages [646 B] Fetched 3113 B in 213503982334601d 7h 0min 15s (0 B/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install mira 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: g++-7 libargon2-0 libncursesw5 libprocps6 Use 'apt autoremove' to remove them. The following additional packages will be installed: autoconf autoconf-archive automake autopoint autotools-dev bsdmainutils dblatex debhelper dh-autoreconf dh-strip-nondeterminism dirmngr docbook-xml docbook-xsl dwz file flex fontconfig-config fonts-dejavu-core fonts-gfs-baskerville fonts-gfs-porson fonts-lmodern gettext gettext-base gir1.2-glib-2.0 gir1.2-harfbuzz-0.0 gnupg gnupg-l10n gnupg-utils gpg-wks-client gpg-wks-server gpgsm groff-base icu-devtools intltool-debian libapt-inst2.0 libarchive-zip-perl libasn1-8-heimdal libavahi-client3 libavahi-common-data libavahi-common3 libboost-atomic1.67-dev libboost-atomic1.67.0 libboost-chrono1.67-dev libboost-chrono1.67.0 libboost-date-time1.67-dev libboost-date-time1.67.0 libboost-filesystem-dev libboost-filesystem1.67-dev libboost-filesystem1.67.0 libboost-iostreams-dev libboost-iostreams1.67-dev libboost-iostreams1.67.0 libboost-regex-dev libboost-regex1.67-dev libboost-regex1.67.0 libboost-serialization1.67-dev libboost-serialization1.67.0 libboost-system-dev libboost-system1.67-dev libboost-system1.67.0 libboost-thread-dev libboost-thread1.67-dev libboost-thread1.67.0 libboost1.67-dev libbsd0 libbz2-dev libcairo2 libcroco3 libcups2 libcupsimage2 libdatrie1 libdbus-1-3 libelf1 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl libfl-dev libfl2 libfontconfig1 libfreetype6 libgirepository-1.0-1 libglib2.0-0 libglib2.0-bin libglib2.0-data libglib2.0-dev libglib2.0-dev-bin libgoogle-perftools-dev libgoogle-perftools4 libgraphite2-3 libgraphite2-dev libgs9 libgs9-common libgssapi-krb5-2 libgssapi3-heimdal libharfbuzz-dev libharfbuzz-gobject0 libharfbuzz-icu0 libharfbuzz0b libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhx509-5-heimdal libice6 libicu-dev libicu-le-hb-dev libicu-le-hb0 libicu60 libiculx60 libijs-0.35 libjbig0 libjbig2dec0 libjpeg-turbo8 libjpeg8 libk5crypto3 libkeyutils1 libkpathsea6 libkrb5-26-heimdal libkrb5-3 libkrb5support0 libksba8 liblcms2-2 libldap-2.4-2 libldap-common liblzma-dev libmagic-mgc libmagic1 libmime-charset-perl libmpdec2 libpaper-utils libpaper1 libpcre16-3 libpcre3-dev libpcre32-3 libpcrecpp0v5 libpipeline1 libpixman-1-0 libpotrace0 libptexenc1 libpython-stdlib libpython2-stdlib libpython2.7-minimal libpython2.7-stdlib libpython3-stdlib libpython3.6-minimal libpython3.6-stdlib libroken18-heimdal libsasl2-2 libsasl2-modules-db libsigsegv2 libsm6 libsombok3 libsynctex2 libtcmalloc-minimal4 libtexlua52 libtexlua53 libtexluajit2 libthai-data libthai0 libtiff5 libtimedate-perl libtool libunicode-linebreak-perl libunwind-dev libunwind8 libwind0-heimdal libx11-6 libx11-data libxau6 libxaw7 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxi6 libxml2 libxmu6 libxpm4 libxrender1 libxslt1.1 libxt6 libzzip-0-13 m4 man-db mime-support pkg-config po-debconf poppler-data preview-latex-style python python-apt python-apt-common python-minimal python2 python2-minimal python2.7 python2.7-minimal python3 python3-distutils python3-lib2to3 python3-minimal python3.6 python3.6-minimal sgml-base sgml-data t1utils tex-common texlive texlive-base texlive-bibtex-extra texlive-binaries texlive-extra-utils texlive-fonts-recommended texlive-lang-greek texlive-latex-base texlive-latex-extra texlive-latex-recommended texlive-pictures texlive-science ucf vim-common x11-common xdg-utils xml-core xsltproc xxd zlib1g-dev Suggested packages: gnu-standards autoconf-doc wamerican | wordlist whois vacation docbook ghostscript graphicsmagick-imagemagick-compat | imagemagick inkscape latex-cjk-all lmodern opensp pdf-viewer texlive-lang-all texlive-lang-cyrillic texlive-xetex transfig xindy dh-make dbus-user-session libpam-systemd pinentry-gnome3 tor docbook-dsssl docbook-defguide dbtoepub docbook-xsl-doc-html | docbook-xsl-doc-pdf | docbook-xsl-doc-text | docbook-xsl-doc docbook-xsl-saxon fop libsaxon-java libxalan2-java libxslthl-java xalan bison flex-doc gettext-doc libasprintf-dev libgettextpo-dev parcimonie xloadimage groff libboost1.67-doc libboost-container1.67-dev libboost-context1.67-dev libboost-coroutine1.67-dev libboost-exception1.67-dev libboost-fiber1.67-dev libboost-graph1.67-dev libboost-graph-parallel1.67-dev libboost-locale1.67-dev libboost-log1.67-dev libboost-math1.67-dev libboost-mpi1.67-dev libboost-mpi-python1.67-dev libboost-numpy1.67-dev libboost-program-options1.67-dev libboost-python1.67-dev libboost-random1.67-dev libboost-signals1.67-dev libboost-stacktrace1.67-dev libboost-test1.67-dev libboost-timer1.67-dev libboost-type-erasure1.67-dev libboost-wave1.67-dev libboost1.67-tools-dev libmpfrc++-dev libntl-dev cups-common libglib2.0-doc libgraphite2-utils krb5-doc krb5-user icu-doc liblcms2-utils liblzma-doc libencode-hanextra-perl libpod2-base-perl libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl poppler-utils fonts-japanese-mincho | fonts-ipafont-mincho fonts-japanese-gothic | fonts-ipafont-gothic fonts-arphic-ukai fonts-arphic-uming fonts-nanum python-doc python-tk python-apt-dbg python-apt-doc python2-doc python2.7-doc binfmt-support python3-doc python3-tk python3-venv python3.6-venv python3.6-doc sgml-base-doc perlsgml w3-recs libxml2-utils gv | postscript-viewer perl-tk xpdf-reader | pdf-viewer chktex dvidvi dvipng fragmaster lacheck latexdiff latexmk purifyeps texlive-fonts-recommended-doc texlive-latex-base-doc python-pygments icc-profiles libfile-which-perl libspreadsheet-parseexcel-perl texlive-latex-extra-doc texlive-latex-recommended-doc texlive-pstricks dot2tex prerex ruby-tcltk | libtcltk-ruby texlive-pictures-doc vprerex texlive-science-doc Recommended packages: libxml2-utils dblatex-doc curl | wget | lynx bzip2-doc libcupsfilters1 dbus libarchive-cpio-perl shared-mime-info xdg-user-dirs fonts-droid-fallback krb5-locales libsasl2-modules libltdl-dev libmail-sendmail-perl lsb-release iso-codes lmodern ghostscript libfile-homedir-perl libyaml-tiny-perl ruby | ruby-interpreter tex-gyre tipa texlive-plain-generic tk vim | vim-gtk | vim-gtk3 | vim-athena | vim-nox | vim-tiny libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils x11-xserver-utils The following NEW packages will be installed: autoconf autoconf-archive automake autopoint autotools-dev bsdmainutils dblatex debhelper dh-autoreconf dh-strip-nondeterminism dirmngr docbook-xml docbook-xsl dwz file flex fontconfig-config fonts-dejavu-core fonts-gfs-baskerville fonts-gfs-porson fonts-lmodern gettext gettext-base gir1.2-glib-2.0 gir1.2-harfbuzz-0.0 gnupg gnupg-l10n gnupg-utils gpg-wks-client gpg-wks-server gpgsm groff-base icu-devtools intltool-debian libapt-inst2.0 libarchive-zip-perl libasn1-8-heimdal libavahi-client3 libavahi-common-data libavahi-common3 libboost-atomic1.67-dev libboost-atomic1.67.0 libboost-chrono1.67-dev libboost-chrono1.67.0 libboost-date-time1.67-dev libboost-date-time1.67.0 libboost-filesystem-dev libboost-filesystem1.67-dev libboost-filesystem1.67.0 libboost-iostreams-dev libboost-iostreams1.67-dev libboost-iostreams1.67.0 libboost-regex-dev libboost-regex1.67-dev libboost-regex1.67.0 libboost-serialization1.67-dev libboost-serialization1.67.0 libboost-system-dev libboost-system1.67-dev libboost-system1.67.0 libboost-thread-dev libboost-thread1.67-dev libboost-thread1.67.0 libboost1.67-dev libbsd0 libbz2-dev libcairo2 libcroco3 libcups2 libcupsimage2 libdatrie1 libdbus-1-3 libelf1 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl libfl-dev libfl2 libfontconfig1 libfreetype6 libgirepository-1.0-1 libglib2.0-0 libglib2.0-bin libglib2.0-data libglib2.0-dev libglib2.0-dev-bin libgoogle-perftools-dev libgoogle-perftools4 libgraphite2-3 libgraphite2-dev libgs9 libgs9-common libgssapi-krb5-2 libgssapi3-heimdal libharfbuzz-dev libharfbuzz-gobject0 libharfbuzz-icu0 libharfbuzz0b libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhx509-5-heimdal libice6 libicu-dev libicu-le-hb-dev libicu-le-hb0 libicu60 libiculx60 libijs-0.35 libjbig0 libjbig2dec0 libjpeg-turbo8 libjpeg8 libk5crypto3 libkeyutils1 libkpathsea6 libkrb5-26-heimdal libkrb5-3 libkrb5support0 libksba8 liblcms2-2 libldap-2.4-2 libldap-common liblzma-dev libmagic-mgc libmagic1 libmime-charset-perl libmpdec2 libpaper-utils libpaper1 libpcre16-3 libpcre3-dev libpcre32-3 libpcrecpp0v5 libpipeline1 libpixman-1-0 libpotrace0 libptexenc1 libpython-stdlib libpython2-stdlib libpython2.7-minimal libpython2.7-stdlib libpython3-stdlib libpython3.6-minimal libpython3.6-stdlib libroken18-heimdal libsasl2-2 libsasl2-modules-db libsigsegv2 libsm6 libsombok3 libsynctex2 libtcmalloc-minimal4 libtexlua52 libtexlua53 libtexluajit2 libthai-data libthai0 libtiff5 libtimedate-perl libtool libunicode-linebreak-perl libunwind-dev libunwind8 libwind0-heimdal libx11-6 libx11-data libxau6 libxaw7 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxi6 libxml2 libxmu6 libxpm4 libxrender1 libxslt1.1 libxt6 libzzip-0-13 m4 man-db mime-support pkg-config po-debconf poppler-data preview-latex-style python python-apt python-apt-common python-minimal python2 python2-minimal python2.7 python2.7-minimal python3 python3-distutils python3-lib2to3 python3-minimal python3.6 python3.6-minimal sbuild-build-depends-mira-dummy sgml-base sgml-data t1utils tex-common texlive texlive-base texlive-bibtex-extra texlive-binaries texlive-extra-utils texlive-fonts-recommended texlive-lang-greek texlive-latex-base texlive-latex-extra texlive-latex-recommended texlive-pictures texlive-science ucf vim-common x11-common xdg-utils xml-core xsltproc xxd zlib1g-dev 0 upgraded, 228 newly installed, 0 to remove and 0 not upgraded. Need to get 312 MB of archives. After this operation, 949 MB of additional disk space will be used. Get:1 copy:/<>/resolver-zj_zKF/apt_archive ./ sbuild-build-depends-mira-dummy 0.invalid.0 [976 B] Get:2 http://ftpmaster.internal/ubuntu cosmic/main amd64 libpython3.6-minimal amd64 3.6.6-1 [531 kB] Get:3 http://ftpmaster.internal/ubuntu cosmic/main amd64 libexpat1 amd64 2.2.5-3 [80.2 kB] Get:4 http://ftpmaster.internal/ubuntu cosmic/main amd64 python3.6-minimal amd64 3.6.6-1 [1607 kB] Get:5 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 python3-minimal amd64 3.6.6-1 [23.6 kB] Get:6 http://ftpmaster.internal/ubuntu cosmic/main amd64 mime-support all 3.60ubuntu1 [30.1 kB] Get:7 http://ftpmaster.internal/ubuntu cosmic/main amd64 libmpdec2 amd64 2.4.2-2 [84.1 kB] Get:8 http://ftpmaster.internal/ubuntu cosmic/main amd64 libpython3.6-stdlib amd64 3.6.6-1 [1708 kB] Get:9 http://ftpmaster.internal/ubuntu cosmic/main amd64 python3.6 amd64 3.6.6-1 [190 kB] Get:10 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libpython3-stdlib amd64 3.6.6-1 [7144 B] Get:11 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 python3 amd64 3.6.6-1 [33.5 kB] Get:12 http://ftpmaster.internal/ubuntu cosmic/main amd64 libxau6 amd64 1:1.0.8-1 [8376 B] Get:13 http://ftpmaster.internal/ubuntu cosmic/main amd64 libbsd0 amd64 0.9.1-1 [44.6 kB] Get:14 http://ftpmaster.internal/ubuntu cosmic/main amd64 libxdmcp6 amd64 1:1.1.2-3 [10.7 kB] Get:15 http://ftpmaster.internal/ubuntu cosmic/main amd64 libxcb1 amd64 1.13-1 [45.6 kB] Get:16 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libx11-data all 2:1.6.5-1 [113 kB] Get:17 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libx11-6 amd64 2:1.6.5-1 [570 kB] Get:18 http://ftpmaster.internal/ubuntu cosmic/main amd64 libxext6 amd64 2:1.3.3-1 [29.4 kB] Get:19 http://ftpmaster.internal/ubuntu cosmic/main amd64 bsdmainutils amd64 11.1.2ubuntu2 [181 kB] Get:20 http://ftpmaster.internal/ubuntu cosmic/main amd64 groff-base amd64 1.22.3-10 [1153 kB] Get:21 http://ftpmaster.internal/ubuntu cosmic/main amd64 libpipeline1 amd64 1.5.0-1 [25.3 kB] Get:22 http://ftpmaster.internal/ubuntu cosmic/main amd64 man-db amd64 2.8.3-2 [1019 kB] Get:23 http://ftpmaster.internal/ubuntu cosmic/universe amd64 autoconf-archive all 20170928-2 [668 kB] Get:24 http://ftpmaster.internal/ubuntu cosmic/main amd64 libsigsegv2 amd64 2.12-2 [13.9 kB] Get:25 http://ftpmaster.internal/ubuntu cosmic/main amd64 m4 amd64 1.4.18-1 [197 kB] Get:26 http://ftpmaster.internal/ubuntu cosmic/main amd64 flex amd64 2.6.4-6.1 [316 kB] Get:27 http://ftpmaster.internal/ubuntu cosmic/main amd64 libjpeg-turbo8 amd64 1.5.2-0ubuntu6 [110 kB] Get:28 http://ftpmaster.internal/ubuntu cosmic/main amd64 x11-common all 1:7.7+19ubuntu8 [22.5 kB] Get:29 http://ftpmaster.internal/ubuntu cosmic/main amd64 libice6 amd64 2:1.0.9-2 [40.2 kB] Get:30 http://ftpmaster.internal/ubuntu cosmic/main amd64 libsm6 amd64 2:1.2.2-1 [15.8 kB] Get:31 http://ftpmaster.internal/ubuntu cosmic/main amd64 poppler-data all 0.4.9-2 [1475 kB] Get:32 http://ftpmaster.internal/ubuntu cosmic/main amd64 libpython2.7-minimal amd64 2.7.15-1 [334 kB] Get:33 http://ftpmaster.internal/ubuntu cosmic/main amd64 python2.7-minimal amd64 2.7.15-1 [1292 kB] Get:34 http://ftpmaster.internal/ubuntu cosmic/main amd64 python2-minimal amd64 2.7.15-3 [28.1 kB] Get:35 http://ftpmaster.internal/ubuntu cosmic/main amd64 python-minimal amd64 2.7.15-3 [5996 B] Get:36 http://ftpmaster.internal/ubuntu cosmic/main amd64 libpython2.7-stdlib amd64 2.7.15-1 [1911 kB] Get:37 http://ftpmaster.internal/ubuntu cosmic/main amd64 python2.7 amd64 2.7.15-1 [239 kB] Get:38 http://ftpmaster.internal/ubuntu cosmic/main amd64 libpython2-stdlib amd64 2.7.15-3 [7728 B] Get:39 http://ftpmaster.internal/ubuntu cosmic/main amd64 libpython-stdlib amd64 2.7.15-3 [5824 B] Get:40 http://ftpmaster.internal/ubuntu cosmic/main amd64 python2 amd64 2.7.15-3 [26.5 kB] Get:41 http://ftpmaster.internal/ubuntu cosmic/main amd64 python amd64 2.7.15-3 [7828 B] Get:42 http://ftpmaster.internal/ubuntu cosmic/main amd64 sgml-base all 1.29 [12.3 kB] Get:43 http://ftpmaster.internal/ubuntu cosmic/main amd64 ucf all 3.0038 [50.5 kB] Get:44 http://ftpmaster.internal/ubuntu cosmic/main amd64 tex-common all 6.09 [33.0 kB] Get:45 http://ftpmaster.internal/ubuntu cosmic/main amd64 libmagic-mgc amd64 1:5.33-3 [192 kB] Get:46 http://ftpmaster.internal/ubuntu cosmic/main amd64 libmagic1 amd64 1:5.33-3 [69.8 kB] Get:47 http://ftpmaster.internal/ubuntu cosmic/main amd64 file amd64 1:5.33-3 [22.9 kB] Get:48 http://ftpmaster.internal/ubuntu cosmic/main amd64 libglib2.0-0 amd64 2.56.1-2ubuntu1 [1167 kB] Get:49 http://ftpmaster.internal/ubuntu cosmic/main amd64 libgirepository-1.0-1 amd64 1.56.1-1 [82.0 kB] Get:50 http://ftpmaster.internal/ubuntu cosmic/main amd64 gir1.2-glib-2.0 amd64 1.56.1-1 [131 kB] Get:51 http://ftpmaster.internal/ubuntu cosmic/main amd64 libapt-inst2.0 amd64 1.7.0~alpha2 [55.6 kB] Get:52 http://ftpmaster.internal/ubuntu cosmic/main amd64 libdbus-1-3 amd64 1.12.2-1ubuntu1 [175 kB] Get:53 http://ftpmaster.internal/ubuntu cosmic/main amd64 libelf1 amd64 0.170-0.5 [44.1 kB] Get:54 http://ftpmaster.internal/ubuntu cosmic/main amd64 libglib2.0-data all 2.56.1-2ubuntu1 [4220 B] Get:55 http://ftpmaster.internal/ubuntu cosmic/main amd64 libicu60 amd64 60.2-6ubuntu1 [8055 kB] Get:56 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libxml2 amd64 2.9.4+dfsg1-7build1 [664 kB] Get:57 http://ftpmaster.internal/ubuntu cosmic/main amd64 xxd amd64 2:8.0.1766-1ubuntu1 [49.6 kB] Get:58 http://ftpmaster.internal/ubuntu cosmic/main amd64 vim-common all 2:8.0.1766-1ubuntu1 [70.6 kB] Get:59 http://ftpmaster.internal/ubuntu cosmic/main amd64 gettext-base amd64 0.19.8.1-6build1 [50.0 kB] Get:60 http://ftpmaster.internal/ubuntu cosmic/main amd64 libkrb5support0 amd64 1.16-2build1 [31.1 kB] Get:61 http://ftpmaster.internal/ubuntu cosmic/main amd64 libk5crypto3 amd64 1.16-2build1 [85.6 kB] Get:62 http://ftpmaster.internal/ubuntu cosmic/main amd64 libkeyutils1 amd64 1.5.9-9.2ubuntu3 [8704 B] Get:63 http://ftpmaster.internal/ubuntu cosmic/main amd64 libkrb5-3 amd64 1.16-2build1 [279 kB] Get:64 http://ftpmaster.internal/ubuntu cosmic/main amd64 libgssapi-krb5-2 amd64 1.16-2build1 [122 kB] Get:65 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 python-apt-common all 1.7.0~alpha2ubuntu2 [16.4 kB] Get:66 http://ftpmaster.internal/ubuntu cosmic/main amd64 autoconf all 2.69-11 [322 kB] Get:67 http://ftpmaster.internal/ubuntu cosmic/main amd64 autotools-dev all 20180224.1 [39.6 kB] Get:68 http://ftpmaster.internal/ubuntu cosmic/main amd64 automake all 1:1.15.1-3ubuntu2 [509 kB] Get:69 http://ftpmaster.internal/ubuntu cosmic/main amd64 autopoint all 0.19.8.1-6build1 [412 kB] Get:70 http://ftpmaster.internal/ubuntu cosmic/main amd64 xml-core all 0.18 [21.3 kB] Get:71 http://ftpmaster.internal/ubuntu cosmic/universe amd64 sgml-data all 2.0.11 [171 kB] Get:72 http://ftpmaster.internal/ubuntu cosmic/universe amd64 docbook-xml all 4.5-8 [71.8 kB] Get:73 http://ftpmaster.internal/ubuntu cosmic/main amd64 libksba8 amd64 1.3.5-2 [92.6 kB] Get:74 http://ftpmaster.internal/ubuntu cosmic/main amd64 libroken18-heimdal amd64 7.5.0+dfsg-2 [41.3 kB] Get:75 http://ftpmaster.internal/ubuntu cosmic/main amd64 libasn1-8-heimdal amd64 7.5.0+dfsg-2 [174 kB] Get:76 http://ftpmaster.internal/ubuntu cosmic/main amd64 libheimbase1-heimdal amd64 7.5.0+dfsg-2 [29.3 kB] Get:77 http://ftpmaster.internal/ubuntu cosmic/main amd64 libhcrypto4-heimdal amd64 7.5.0+dfsg-2 [85.9 kB] Get:78 http://ftpmaster.internal/ubuntu cosmic/main amd64 libwind0-heimdal amd64 7.5.0+dfsg-2 [47.8 kB] Get:79 http://ftpmaster.internal/ubuntu cosmic/main amd64 libhx509-5-heimdal amd64 7.5.0+dfsg-2 [108 kB] Get:80 http://ftpmaster.internal/ubuntu cosmic/main amd64 libkrb5-26-heimdal amd64 7.5.0+dfsg-2 [206 kB] Get:81 http://ftpmaster.internal/ubuntu cosmic/main amd64 libheimntlm0-heimdal amd64 7.5.0+dfsg-2 [14.8 kB] Get:82 http://ftpmaster.internal/ubuntu cosmic/main amd64 libgssapi3-heimdal amd64 7.5.0+dfsg-2 [96.3 kB] Get:83 http://ftpmaster.internal/ubuntu cosmic/main amd64 libsasl2-modules-db amd64 2.1.27~101-g0780600+dfsg-3ubuntu2 [14.8 kB] Get:84 http://ftpmaster.internal/ubuntu cosmic/main amd64 libsasl2-2 amd64 2.1.27~101-g0780600+dfsg-3ubuntu2 [49.2 kB] Get:85 http://ftpmaster.internal/ubuntu cosmic/main amd64 libldap-common all 2.4.46+dfsg-5ubuntu1 [16.6 kB] Get:86 http://ftpmaster.internal/ubuntu cosmic/main amd64 libldap-2.4-2 amd64 2.4.46+dfsg-5ubuntu1 [155 kB] Get:87 http://ftpmaster.internal/ubuntu cosmic/main amd64 dirmngr amd64 2.2.8-1ubuntu1 [320 kB] Get:88 http://ftpmaster.internal/ubuntu cosmic/main amd64 gnupg-l10n all 2.2.8-1ubuntu1 [48.8 kB] Get:89 http://ftpmaster.internal/ubuntu cosmic/main amd64 gnupg-utils amd64 2.2.8-1ubuntu1 [126 kB] Get:90 http://ftpmaster.internal/ubuntu cosmic/main amd64 gpg-wks-client amd64 2.2.8-1ubuntu1 [91.9 kB] Get:91 http://ftpmaster.internal/ubuntu cosmic/main amd64 gpg-wks-server amd64 2.2.8-1ubuntu1 [87.5 kB] Get:92 http://ftpmaster.internal/ubuntu cosmic/main amd64 gpgsm amd64 2.2.8-1ubuntu1 [215 kB] Get:93 http://ftpmaster.internal/ubuntu cosmic/main amd64 gnupg amd64 2.2.8-1ubuntu1 [250 kB] Get:94 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 python-apt amd64 1.7.0~alpha2ubuntu2 [150 kB] Get:95 http://ftpmaster.internal/ubuntu cosmic/main amd64 libpaper1 amd64 1.1.24+nmu5ubuntu1 [13.6 kB] Get:96 http://ftpmaster.internal/ubuntu cosmic/main amd64 libpaper-utils amd64 1.1.24+nmu5ubuntu1 [8170 B] Get:97 http://ftpmaster.internal/ubuntu cosmic/main amd64 libkpathsea6 amd64 2018.20180710.48169-1 [56.2 kB] Get:98 http://ftpmaster.internal/ubuntu cosmic/main amd64 libptexenc1 amd64 2018.20180710.48169-1 [35.3 kB] Get:99 http://ftpmaster.internal/ubuntu cosmic/main amd64 libsynctex2 amd64 2018.20180710.48169-1 [54.3 kB] Get:100 http://ftpmaster.internal/ubuntu cosmic/main amd64 libtexlua52 amd64 2018.20180710.48169-1 [91.3 kB] Get:101 http://ftpmaster.internal/ubuntu cosmic/main amd64 libtexlua53 amd64 2018.20180710.48169-1 [104 kB] Get:102 http://ftpmaster.internal/ubuntu cosmic/main amd64 libtexluajit2 amd64 2018.20180710.48169-1 [234 kB] Get:103 http://ftpmaster.internal/ubuntu cosmic/main amd64 t1utils amd64 1.41-2 [56.0 kB] Get:104 http://ftpmaster.internal/ubuntu cosmic/main amd64 libfreetype6 amd64 2.8.1-2ubuntu2 [335 kB] Get:105 http://ftpmaster.internal/ubuntu cosmic/main amd64 fonts-dejavu-core all 2.37-1 [1041 kB] Get:106 http://ftpmaster.internal/ubuntu cosmic/main amd64 fontconfig-config all 2.12.6-0ubuntu2 [55.8 kB] Get:107 http://ftpmaster.internal/ubuntu cosmic/main amd64 libfontconfig1 amd64 2.12.6-0ubuntu2 [137 kB] Get:108 http://ftpmaster.internal/ubuntu cosmic/main amd64 libpixman-1-0 amd64 0.34.0-2 [229 kB] Get:109 http://ftpmaster.internal/ubuntu cosmic/main amd64 libxcb-render0 amd64 1.13-1 [14.7 kB] Get:110 http://ftpmaster.internal/ubuntu cosmic/main amd64 libxcb-shm0 amd64 1.13-1 [5572 B] Get:111 http://ftpmaster.internal/ubuntu cosmic/main amd64 libxrender1 amd64 1:0.9.10-1 [18.7 kB] Get:112 http://ftpmaster.internal/ubuntu cosmic/main amd64 libcairo2 amd64 1.15.10-3 [580 kB] Get:113 http://ftpmaster.internal/ubuntu cosmic/main amd64 libgraphite2-3 amd64 1.3.11-2 [78.7 kB] Get:114 http://ftpmaster.internal/ubuntu cosmic/main amd64 libavahi-common-data amd64 0.7-4ubuntu1 [22.2 kB] Get:115 http://ftpmaster.internal/ubuntu cosmic/main amd64 libavahi-common3 amd64 0.7-4ubuntu1 [21.6 kB] Get:116 http://ftpmaster.internal/ubuntu cosmic/main amd64 libavahi-client3 amd64 0.7-4ubuntu1 [25.2 kB] Get:117 http://ftpmaster.internal/ubuntu cosmic/main amd64 libcups2 amd64 2.2.7-1ubuntu3 [211 kB] Get:118 http://ftpmaster.internal/ubuntu cosmic/main amd64 libcupsimage2 amd64 2.2.7-1ubuntu3 [18.6 kB] Get:119 http://ftpmaster.internal/ubuntu cosmic/main amd64 libijs-0.35 amd64 0.35-13 [15.5 kB] Get:120 http://ftpmaster.internal/ubuntu cosmic/main amd64 libjbig2dec0 amd64 0.14-1 [55.3 kB] Get:121 http://ftpmaster.internal/ubuntu cosmic/main amd64 libjpeg8 amd64 8c-2ubuntu8 [2194 B] Get:122 http://ftpmaster.internal/ubuntu cosmic/main amd64 liblcms2-2 amd64 2.9-2 [139 kB] Get:123 http://ftpmaster.internal/ubuntu cosmic/main amd64 libjbig0 amd64 2.1-3.1build1 [26.7 kB] Get:124 http://ftpmaster.internal/ubuntu cosmic/main amd64 libtiff5 amd64 4.0.9-6 [152 kB] Get:125 http://ftpmaster.internal/ubuntu cosmic/main amd64 libgs9-common all 9.22~dfsg+1-0ubuntu1.1 [5198 kB] Get:126 http://ftpmaster.internal/ubuntu cosmic/main amd64 libgs9 amd64 9.22~dfsg+1-0ubuntu1.1 [2213 kB] Get:127 http://ftpmaster.internal/ubuntu cosmic/main amd64 libharfbuzz0b amd64 1.8.3-1 [256 kB] Get:128 http://ftpmaster.internal/ubuntu cosmic/main amd64 libharfbuzz-icu0 amd64 1.8.3-1 [5644 B] Get:129 http://ftpmaster.internal/ubuntu cosmic/main amd64 libpotrace0 amd64 1.15-1 [17.5 kB] Get:130 http://ftpmaster.internal/ubuntu cosmic/main amd64 libxt6 amd64 1:1.1.5-1 [160 kB] Get:131 http://ftpmaster.internal/ubuntu cosmic/main amd64 libxmu6 amd64 2:1.1.2-2 [46.0 kB] Get:132 http://ftpmaster.internal/ubuntu cosmic/main amd64 libxpm4 amd64 1:3.5.12-1 [34.0 kB] Get:133 http://ftpmaster.internal/ubuntu cosmic/main amd64 libxaw7 amd64 2:1.0.13-1 [173 kB] Get:134 http://ftpmaster.internal/ubuntu cosmic/main amd64 libxi6 amd64 2:1.7.9-1 [29.2 kB] Get:135 http://ftpmaster.internal/ubuntu cosmic/main amd64 libzzip-0-13 amd64 0.13.62-3.1ubuntu1 [26.0 kB] Get:136 http://ftpmaster.internal/ubuntu cosmic/main amd64 texlive-binaries amd64 2018.20180710.48169-1 [11.9 MB] Get:137 http://ftpmaster.internal/ubuntu cosmic/main amd64 xdg-utils all 1.1.3-1ubuntu1 [60.3 kB] Get:138 http://ftpmaster.internal/ubuntu cosmic/main amd64 texlive-base all 2018.20180505-1 [18.9 MB] Get:139 http://ftpmaster.internal/ubuntu cosmic/universe amd64 texlive-fonts-recommended all 2018.20180505-1 [5264 kB] Get:140 http://ftpmaster.internal/ubuntu cosmic/main amd64 fonts-lmodern all 2.004.5-3 [4551 kB] Get:141 http://ftpmaster.internal/ubuntu cosmic/main amd64 texlive-latex-base all 2018.20180505-1 [953 kB] Get:142 http://ftpmaster.internal/ubuntu cosmic/main amd64 texlive-latex-recommended all 2018.20180505-1 [15.3 MB] Get:143 http://ftpmaster.internal/ubuntu cosmic/universe amd64 texlive all 2018.20180505-1 [14.4 kB] Get:144 http://ftpmaster.internal/ubuntu cosmic/universe amd64 texlive-bibtex-extra all 2018.20180505-1 [58.0 MB] Get:145 http://ftpmaster.internal/ubuntu cosmic/main amd64 libthai-data all 0.1.27-2 [133 kB] Get:146 http://ftpmaster.internal/ubuntu cosmic/main amd64 libdatrie1 amd64 0.2.12-1 [18.3 kB] Get:147 http://ftpmaster.internal/ubuntu cosmic/main amd64 libthai0 amd64 0.1.27-2 [18.0 kB] Get:148 http://ftpmaster.internal/ubuntu cosmic/universe amd64 libsombok3 amd64 2.4.0-2 [26.9 kB] Get:149 http://ftpmaster.internal/ubuntu cosmic/universe amd64 libmime-charset-perl all 1.012.2-1 [30.9 kB] Get:150 http://ftpmaster.internal/ubuntu cosmic/universe amd64 libunicode-linebreak-perl amd64 0.0.20170401-1 [96.9 kB] Get:151 http://ftpmaster.internal/ubuntu cosmic/universe amd64 texlive-extra-utils all 2018.20180505-1 [29.4 MB] Get:152 http://ftpmaster.internal/ubuntu cosmic/main amd64 preview-latex-style all 11.91-1ubuntu1 [185 kB] Get:153 http://ftpmaster.internal/ubuntu cosmic/universe amd64 texlive-pictures all 2018.20180505-1 [4082 kB] Get:154 http://ftpmaster.internal/ubuntu cosmic/universe amd64 texlive-latex-extra all 2018.20180505-1 [10.9 MB] Get:155 http://ftpmaster.internal/ubuntu cosmic/universe amd64 fonts-gfs-baskerville all 1.1-5 [43.4 kB] Get:156 http://ftpmaster.internal/ubuntu cosmic/universe amd64 fonts-gfs-porson all 1.1-6 [33.7 kB] Get:157 http://ftpmaster.internal/ubuntu cosmic/universe amd64 texlive-lang-greek all 2018.20180505-1 [76.3 MB] Get:158 http://ftpmaster.internal/ubuntu cosmic/universe amd64 texlive-science all 2018.20180505-1 [3093 kB] Get:159 http://ftpmaster.internal/ubuntu cosmic/main amd64 libxslt1.1 amd64 1.1.32-2 [150 kB] Get:160 http://ftpmaster.internal/ubuntu cosmic/main amd64 xsltproc amd64 1.1.32-2 [14.0 kB] Get:161 http://ftpmaster.internal/ubuntu cosmic/universe amd64 dblatex all 0.3.10-2 [346 kB] Get:162 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libtool all 2.4.6-2.1build1 [196 kB] Get:163 http://ftpmaster.internal/ubuntu cosmic/main amd64 dh-autoreconf all 19 [16.1 kB] Get:164 http://ftpmaster.internal/ubuntu cosmic/main amd64 libarchive-zip-perl all 1.60-1ubuntu1 [84.6 kB] Get:165 http://ftpmaster.internal/ubuntu cosmic/main amd64 libfile-stripnondeterminism-perl all 0.042-1 [15.2 kB] Get:166 http://ftpmaster.internal/ubuntu cosmic/main amd64 libtimedate-perl all 2.3000-2 [37.5 kB] Get:167 http://ftpmaster.internal/ubuntu cosmic/main amd64 dh-strip-nondeterminism all 0.042-1 [5188 B] Get:168 http://ftpmaster.internal/ubuntu cosmic/main amd64 dwz amd64 0.12-2 [77.7 kB] Get:169 http://ftpmaster.internal/ubuntu cosmic/main amd64 libcroco3 amd64 0.6.12-2 [81.3 kB] Get:170 http://ftpmaster.internal/ubuntu cosmic/main amd64 gettext amd64 0.19.8.1-6build1 [895 kB] Get:171 http://ftpmaster.internal/ubuntu cosmic/main amd64 intltool-debian all 0.35.0+20060710.4 [24.9 kB] Get:172 http://ftpmaster.internal/ubuntu cosmic/main amd64 po-debconf all 1.0.20 [232 kB] Get:173 http://ftpmaster.internal/ubuntu cosmic/main amd64 debhelper all 11.3.2ubuntu1 [883 kB] Get:174 http://ftpmaster.internal/ubuntu cosmic/universe amd64 docbook-xsl all 1.79.1+dfsg-2 [1075 kB] Get:175 http://ftpmaster.internal/ubuntu cosmic/main amd64 gir1.2-harfbuzz-0.0 amd64 1.8.3-1 [19.2 kB] Get:176 http://ftpmaster.internal/ubuntu cosmic/main amd64 icu-devtools amd64 60.2-6ubuntu1 [181 kB] Get:177 http://ftpmaster.internal/ubuntu cosmic/main amd64 libboost1.67-dev amd64 1.67.0-0ubuntu1 [8364 kB] Get:178 http://ftpmaster.internal/ubuntu cosmic/main amd64 libboost-atomic1.67.0 amd64 1.67.0-0ubuntu1 [201 kB] Get:179 http://ftpmaster.internal/ubuntu cosmic/main amd64 libboost-atomic1.67-dev amd64 1.67.0-0ubuntu1 [199 kB] Get:180 http://ftpmaster.internal/ubuntu cosmic/main amd64 libboost-system1.67.0 amd64 1.67.0-0ubuntu1 [205 kB] Get:181 http://ftpmaster.internal/ubuntu cosmic/main amd64 libboost-chrono1.67.0 amd64 1.67.0-0ubuntu1 [207 kB] Get:182 http://ftpmaster.internal/ubuntu cosmic/main amd64 libboost-chrono1.67-dev amd64 1.67.0-0ubuntu1 [209 kB] Get:183 http://ftpmaster.internal/ubuntu cosmic/main amd64 libboost-date-time1.67.0 amd64 1.67.0-0ubuntu1 [214 kB] Get:184 http://ftpmaster.internal/ubuntu cosmic/main amd64 libboost-serialization1.67.0 amd64 1.67.0-0ubuntu1 [291 kB] Get:185 http://ftpmaster.internal/ubuntu cosmic/main amd64 libboost-serialization1.67-dev amd64 1.67.0-0ubuntu1 [330 kB] Get:186 http://ftpmaster.internal/ubuntu cosmic/main amd64 libboost-date-time1.67-dev amd64 1.67.0-0ubuntu1 [221 kB] Get:187 http://ftpmaster.internal/ubuntu cosmic/main amd64 libboost-filesystem1.67.0 amd64 1.67.0-0ubuntu1 [234 kB] Get:188 http://ftpmaster.internal/ubuntu cosmic/main amd64 libboost-system1.67-dev amd64 1.67.0-0ubuntu1 [205 kB] Get:189 http://ftpmaster.internal/ubuntu cosmic/main amd64 libboost-filesystem1.67-dev amd64 1.67.0-0ubuntu1 [246 kB] Get:190 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libboost-filesystem-dev amd64 1.67.0.0ubuntu1 [2972 B] Get:191 http://ftpmaster.internal/ubuntu cosmic/universe amd64 libboost-regex1.67.0 amd64 1.67.0-0ubuntu1 [456 kB] Get:192 http://ftpmaster.internal/ubuntu cosmic/main amd64 libicu-le-hb0 amd64 1.0.3+git161113-5 [14.4 kB] Get:193 http://ftpmaster.internal/ubuntu cosmic/main amd64 libiculx60 amd64 60.2-6ubuntu1 [19.0 kB] Get:194 http://ftpmaster.internal/ubuntu cosmic/main amd64 libharfbuzz-gobject0 amd64 1.8.3-1 [13.6 kB] Get:195 http://ftpmaster.internal/ubuntu cosmic/main amd64 libglib2.0-bin amd64 2.56.1-2ubuntu1 [68.8 kB] Get:196 http://ftpmaster.internal/ubuntu cosmic/main amd64 python3-lib2to3 all 3.6.6-1 [76.9 kB] Get:197 http://ftpmaster.internal/ubuntu cosmic/main amd64 python3-distutils all 3.6.6-1 [141 kB] Get:198 http://ftpmaster.internal/ubuntu cosmic/main amd64 libglib2.0-dev-bin amd64 2.56.1-2ubuntu1 [102 kB] Get:199 http://ftpmaster.internal/ubuntu cosmic/main amd64 libpcre16-3 amd64 2:8.39-9 [147 kB] Get:200 http://ftpmaster.internal/ubuntu cosmic/main amd64 libpcre32-3 amd64 2:8.39-9 [138 kB] Get:201 http://ftpmaster.internal/ubuntu cosmic/main amd64 libpcrecpp0v5 amd64 2:8.39-9 [15.3 kB] Get:202 http://ftpmaster.internal/ubuntu cosmic/main amd64 libpcre3-dev amd64 2:8.39-9 [537 kB] Get:203 http://ftpmaster.internal/ubuntu cosmic/main amd64 pkg-config amd64 0.29.1-0ubuntu2 [45.0 kB] Get:204 http://ftpmaster.internal/ubuntu cosmic/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-0ubuntu2 [176 kB] Get:205 http://ftpmaster.internal/ubuntu cosmic/main amd64 libglib2.0-dev amd64 2.56.1-2ubuntu1 [1382 kB] Get:206 http://ftpmaster.internal/ubuntu cosmic/main amd64 libgraphite2-dev amd64 1.3.11-2 [14.5 kB] Get:207 http://ftpmaster.internal/ubuntu cosmic/main amd64 libharfbuzz-dev amd64 1.8.3-1 [358 kB] Get:208 http://ftpmaster.internal/ubuntu cosmic/main amd64 libicu-le-hb-dev amd64 1.0.3+git161113-5 [29.6 kB] Get:209 http://ftpmaster.internal/ubuntu cosmic/main amd64 libicu-dev amd64 60.2-6ubuntu1 [8894 kB] Get:210 http://ftpmaster.internal/ubuntu cosmic/universe amd64 libboost-regex1.67-dev amd64 1.67.0-0ubuntu1 [510 kB] Get:211 http://ftpmaster.internal/ubuntu cosmic/universe amd64 libboost-iostreams1.67.0 amd64 1.67.0-0ubuntu1 [223 kB] Get:212 http://ftpmaster.internal/ubuntu cosmic/universe amd64 libboost-iostreams1.67-dev amd64 1.67.0-0ubuntu1 [230 kB] Get:213 http://ftpmaster.internal/ubuntu cosmic-proposed/universe amd64 libboost-iostreams-dev amd64 1.67.0.0ubuntu1 [2920 B] Get:214 http://ftpmaster.internal/ubuntu cosmic-proposed/universe amd64 libboost-regex-dev amd64 1.67.0.0ubuntu1 [3192 B] Get:215 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libboost-system-dev amd64 1.67.0.0ubuntu1 [3080 B] Get:216 http://ftpmaster.internal/ubuntu cosmic/main amd64 libboost-thread1.67.0 amd64 1.67.0-0ubuntu1 [240 kB] Get:217 http://ftpmaster.internal/ubuntu cosmic/main amd64 libboost-thread1.67-dev amd64 1.67.0-0ubuntu1 [243 kB] Get:218 http://ftpmaster.internal/ubuntu cosmic-proposed/main amd64 libboost-thread-dev amd64 1.67.0.0ubuntu1 [2964 B] Get:219 http://ftpmaster.internal/ubuntu cosmic/main amd64 libbz2-dev amd64 1.0.6-8.1 [29.5 kB] Get:220 http://ftpmaster.internal/ubuntu cosmic/main amd64 libexpat1-dev amd64 2.2.5-3 [122 kB] Get:221 http://ftpmaster.internal/ubuntu cosmic/main amd64 libfl2 amd64 2.6.4-6.1 [11.4 kB] Get:222 http://ftpmaster.internal/ubuntu cosmic/main amd64 libfl-dev amd64 2.6.4-6.1 [6316 B] Get:223 http://ftpmaster.internal/ubuntu cosmic/main amd64 libtcmalloc-minimal4 amd64 2.5-2.2ubuntu3 [91.6 kB] Get:224 http://ftpmaster.internal/ubuntu cosmic/main amd64 libunwind8 amd64 1.2.1-8 [47.5 kB] Get:225 http://ftpmaster.internal/ubuntu cosmic/main amd64 libgoogle-perftools4 amd64 2.5-2.2ubuntu3 [190 kB] Get:226 http://ftpmaster.internal/ubuntu cosmic/main amd64 liblzma-dev amd64 5.2.2-1.3 [145 kB] Get:227 http://ftpmaster.internal/ubuntu cosmic/main amd64 libunwind-dev amd64 1.2.1-8 [423 kB] Get:228 http://ftpmaster.internal/ubuntu cosmic/main amd64 libgoogle-perftools-dev amd64 2.5-2.2ubuntu3 [204 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 312 MB in 9s (36.2 MB/s) Selecting previously unselected package libpython3.6-minimal:amd64. (Reading database ... 13727 files and directories currently installed.) Preparing to unpack .../libpython3.6-minimal_3.6.6-1_amd64.deb ... Unpacking libpython3.6-minimal:amd64 (3.6.6-1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../libexpat1_2.2.5-3_amd64.deb ... Unpacking libexpat1:amd64 (2.2.5-3) ... Selecting previously unselected package python3.6-minimal. Preparing to unpack .../python3.6-minimal_3.6.6-1_amd64.deb ... Unpacking python3.6-minimal (3.6.6-1) ... Setting up libpython3.6-minimal:amd64 (3.6.6-1) ... Setting up libexpat1:amd64 (2.2.5-3) ... Setting up python3.6-minimal (3.6.6-1) ... Selecting previously unselected package python3-minimal. (Reading database ... 13974 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.6.6-1_amd64.deb ... Unpacking python3-minimal (3.6.6-1) ... Selecting previously unselected package mime-support. Preparing to unpack .../1-mime-support_3.60ubuntu1_all.deb ... Unpacking mime-support (3.60ubuntu1) ... Selecting previously unselected package libmpdec2:amd64. Preparing to unpack .../2-libmpdec2_2.4.2-2_amd64.deb ... Unpacking libmpdec2:amd64 (2.4.2-2) ... Selecting previously unselected package libpython3.6-stdlib:amd64. Preparing to unpack .../3-libpython3.6-stdlib_3.6.6-1_amd64.deb ... Unpacking libpython3.6-stdlib:amd64 (3.6.6-1) ... Selecting previously unselected package python3.6. Preparing to unpack .../4-python3.6_3.6.6-1_amd64.deb ... Unpacking python3.6 (3.6.6-1) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../5-libpython3-stdlib_3.6.6-1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.6.6-1) ... Setting up python3-minimal (3.6.6-1) ... Selecting previously unselected package python3. (Reading database ... 14402 files and directories currently installed.) Preparing to unpack .../00-python3_3.6.6-1_amd64.deb ... Unpacking python3 (3.6.6-1) ... Selecting previously unselected package libxau6:amd64. Preparing to unpack .../01-libxau6_1%3a1.0.8-1_amd64.deb ... Unpacking libxau6:amd64 (1:1.0.8-1) ... Selecting previously unselected package libbsd0:amd64. Preparing to unpack .../02-libbsd0_0.9.1-1_amd64.deb ... Unpacking libbsd0:amd64 (0.9.1-1) ... Selecting previously unselected package libxdmcp6:amd64. Preparing to unpack .../03-libxdmcp6_1%3a1.1.2-3_amd64.deb ... Unpacking libxdmcp6:amd64 (1:1.1.2-3) ... Selecting previously unselected package libxcb1:amd64. Preparing to unpack .../04-libxcb1_1.13-1_amd64.deb ... Unpacking libxcb1:amd64 (1.13-1) ... Selecting previously unselected package libx11-data. Preparing to unpack .../05-libx11-data_2%3a1.6.5-1_all.deb ... Unpacking libx11-data (2:1.6.5-1) ... Selecting previously unselected package libx11-6:amd64. Preparing to unpack .../06-libx11-6_2%3a1.6.5-1_amd64.deb ... Unpacking libx11-6:amd64 (2:1.6.5-1) ... Selecting previously unselected package libxext6:amd64. Preparing to unpack .../07-libxext6_2%3a1.3.3-1_amd64.deb ... Unpacking libxext6:amd64 (2:1.3.3-1) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../08-bsdmainutils_11.1.2ubuntu2_amd64.deb ... Unpacking bsdmainutils (11.1.2ubuntu2) ... Selecting previously unselected package groff-base. Preparing to unpack .../09-groff-base_1.22.3-10_amd64.deb ... Unpacking groff-base (1.22.3-10) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../10-libpipeline1_1.5.0-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.0-1) ... Selecting previously unselected package man-db. Preparing to unpack .../11-man-db_2.8.3-2_amd64.deb ... Unpacking man-db (2.8.3-2) ... Selecting previously unselected package autoconf-archive. Preparing to unpack .../12-autoconf-archive_20170928-2_all.deb ... Unpacking autoconf-archive (20170928-2) ... Selecting previously unselected package libsigsegv2:amd64. Preparing to unpack .../13-libsigsegv2_2.12-2_amd64.deb ... Unpacking libsigsegv2:amd64 (2.12-2) ... Selecting previously unselected package m4. Preparing to unpack .../14-m4_1.4.18-1_amd64.deb ... Unpacking m4 (1.4.18-1) ... Selecting previously unselected package flex. Preparing to unpack .../15-flex_2.6.4-6.1_amd64.deb ... Unpacking flex (2.6.4-6.1) ... Selecting previously unselected package libjpeg-turbo8:amd64. Preparing to unpack .../16-libjpeg-turbo8_1.5.2-0ubuntu6_amd64.deb ... Unpacking libjpeg-turbo8:amd64 (1.5.2-0ubuntu6) ... Selecting previously unselected package x11-common. Preparing to unpack .../17-x11-common_1%3a7.7+19ubuntu8_all.deb ... dpkg-query: no packages found matching nux-tools Unpacking x11-common (1:7.7+19ubuntu8) ... Selecting previously unselected package libice6:amd64. Preparing to unpack .../18-libice6_2%3a1.0.9-2_amd64.deb ... Unpacking libice6:amd64 (2:1.0.9-2) ... Selecting previously unselected package libsm6:amd64. Preparing to unpack .../19-libsm6_2%3a1.2.2-1_amd64.deb ... Unpacking libsm6:amd64 (2:1.2.2-1) ... Selecting previously unselected package poppler-data. Preparing to unpack .../20-poppler-data_0.4.9-2_all.deb ... Unpacking poppler-data (0.4.9-2) ... Selecting previously unselected package libpython2.7-minimal:amd64. Preparing to unpack .../21-libpython2.7-minimal_2.7.15-1_amd64.deb ... Unpacking libpython2.7-minimal:amd64 (2.7.15-1) ... Selecting previously unselected package python2.7-minimal. Preparing to unpack .../22-python2.7-minimal_2.7.15-1_amd64.deb ... Unpacking python2.7-minimal (2.7.15-1) ... Selecting previously unselected package python2-minimal. Preparing to unpack .../23-python2-minimal_2.7.15-3_amd64.deb ... Unpacking python2-minimal (2.7.15-3) ... Selecting previously unselected package python-minimal. Preparing to unpack .../24-python-minimal_2.7.15-3_amd64.deb ... Unpacking python-minimal (2.7.15-3) ... Selecting previously unselected package libpython2.7-stdlib:amd64. Preparing to unpack .../25-libpython2.7-stdlib_2.7.15-1_amd64.deb ... Unpacking libpython2.7-stdlib:amd64 (2.7.15-1) ... Selecting previously unselected package python2.7. Preparing to unpack .../26-python2.7_2.7.15-1_amd64.deb ... Unpacking python2.7 (2.7.15-1) ... Selecting previously unselected package libpython2-stdlib:amd64. Preparing to unpack .../27-libpython2-stdlib_2.7.15-3_amd64.deb ... Unpacking libpython2-stdlib:amd64 (2.7.15-3) ... Selecting previously unselected package libpython-stdlib:amd64. Preparing to unpack .../28-libpython-stdlib_2.7.15-3_amd64.deb ... Unpacking libpython-stdlib:amd64 (2.7.15-3) ... Setting up libpython2.7-minimal:amd64 (2.7.15-1) ... Setting up python2.7-minimal (2.7.15-1) ... Setting up python2-minimal (2.7.15-3) ... Selecting previously unselected package python2. (Reading database ... 17886 files and directories currently installed.) Preparing to unpack .../python2_2.7.15-3_amd64.deb ... Unpacking python2 (2.7.15-3) ... Setting up python-minimal (2.7.15-3) ... Selecting previously unselected package python. (Reading database ... 17918 files and directories currently installed.) Preparing to unpack .../000-python_2.7.15-3_amd64.deb ... Unpacking python (2.7.15-3) ... Selecting previously unselected package sgml-base. Preparing to unpack .../001-sgml-base_1.29_all.deb ... Unpacking sgml-base (1.29) ... Selecting previously unselected package ucf. Preparing to unpack .../002-ucf_3.0038_all.deb ... Moving old data out of the way Unpacking ucf (3.0038) ... Selecting previously unselected package tex-common. Preparing to unpack .../003-tex-common_6.09_all.deb ... Unpacking tex-common (6.09) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../004-libmagic-mgc_1%3a5.33-3_amd64.deb ... Unpacking libmagic-mgc (1:5.33-3) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../005-libmagic1_1%3a5.33-3_amd64.deb ... Unpacking libmagic1:amd64 (1:5.33-3) ... Selecting previously unselected package file. Preparing to unpack .../006-file_1%3a5.33-3_amd64.deb ... Unpacking file (1:5.33-3) ... Selecting previously unselected package libglib2.0-0:amd64. Preparing to unpack .../007-libglib2.0-0_2.56.1-2ubuntu1_amd64.deb ... Unpacking libglib2.0-0:amd64 (2.56.1-2ubuntu1) ... Selecting previously unselected package libgirepository-1.0-1:amd64. Preparing to unpack .../008-libgirepository-1.0-1_1.56.1-1_amd64.deb ... Unpacking libgirepository-1.0-1:amd64 (1.56.1-1) ... Selecting previously unselected package gir1.2-glib-2.0:amd64. Preparing to unpack .../009-gir1.2-glib-2.0_1.56.1-1_amd64.deb ... Unpacking gir1.2-glib-2.0:amd64 (1.56.1-1) ... Selecting previously unselected package libapt-inst2.0:amd64. Preparing to unpack .../010-libapt-inst2.0_1.7.0~alpha2_amd64.deb ... Unpacking libapt-inst2.0:amd64 (1.7.0~alpha2) ... Selecting previously unselected package libdbus-1-3:amd64. Preparing to unpack .../011-libdbus-1-3_1.12.2-1ubuntu1_amd64.deb ... Unpacking libdbus-1-3:amd64 (1.12.2-1ubuntu1) ... Selecting previously unselected package libelf1:amd64. Preparing to unpack .../012-libelf1_0.170-0.5_amd64.deb ... Unpacking libelf1:amd64 (0.170-0.5) ... Selecting previously unselected package libglib2.0-data. Preparing to unpack .../013-libglib2.0-data_2.56.1-2ubuntu1_all.deb ... Unpacking libglib2.0-data (2.56.1-2ubuntu1) ... Selecting previously unselected package libicu60:amd64. Preparing to unpack .../014-libicu60_60.2-6ubuntu1_amd64.deb ... Unpacking libicu60:amd64 (60.2-6ubuntu1) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../015-libxml2_2.9.4+dfsg1-7build1_amd64.deb ... Unpacking libxml2:amd64 (2.9.4+dfsg1-7build1) ... Selecting previously unselected package xxd. Preparing to unpack .../016-xxd_2%3a8.0.1766-1ubuntu1_amd64.deb ... Unpacking xxd (2:8.0.1766-1ubuntu1) ... Selecting previously unselected package vim-common. Preparing to unpack .../017-vim-common_2%3a8.0.1766-1ubuntu1_all.deb ... Unpacking vim-common (2:8.0.1766-1ubuntu1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../018-gettext-base_0.19.8.1-6build1_amd64.deb ... Unpacking gettext-base (0.19.8.1-6build1) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../019-libkrb5support0_1.16-2build1_amd64.deb ... Unpacking libkrb5support0:amd64 (1.16-2build1) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../020-libk5crypto3_1.16-2build1_amd64.deb ... Unpacking libk5crypto3:amd64 (1.16-2build1) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../021-libkeyutils1_1.5.9-9.2ubuntu3_amd64.deb ... Unpacking libkeyutils1:amd64 (1.5.9-9.2ubuntu3) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../022-libkrb5-3_1.16-2build1_amd64.deb ... Unpacking libkrb5-3:amd64 (1.16-2build1) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../023-libgssapi-krb5-2_1.16-2build1_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.16-2build1) ... Selecting previously unselected package python-apt-common. Preparing to unpack .../024-python-apt-common_1.7.0~alpha2ubuntu2_all.deb ... Unpacking python-apt-common (1.7.0~alpha2ubuntu2) ... Selecting previously unselected package autoconf. Preparing to unpack .../025-autoconf_2.69-11_all.deb ... Unpacking autoconf (2.69-11) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../026-autotools-dev_20180224.1_all.deb ... Unpacking autotools-dev (20180224.1) ... Selecting previously unselected package automake. Preparing to unpack .../027-automake_1%3a1.15.1-3ubuntu2_all.deb ... Unpacking automake (1:1.15.1-3ubuntu2) ... Selecting previously unselected package autopoint. Preparing to unpack .../028-autopoint_0.19.8.1-6build1_all.deb ... Unpacking autopoint (0.19.8.1-6build1) ... Selecting previously unselected package xml-core. Preparing to unpack .../029-xml-core_0.18_all.deb ... Unpacking xml-core (0.18) ... Selecting previously unselected package sgml-data. Preparing to unpack .../030-sgml-data_2.0.11_all.deb ... Unpacking sgml-data (2.0.11) ... Selecting previously unselected package docbook-xml. Preparing to unpack .../031-docbook-xml_4.5-8_all.deb ... Unpacking docbook-xml (4.5-8) ... Selecting previously unselected package libksba8:amd64. Preparing to unpack .../032-libksba8_1.3.5-2_amd64.deb ... Unpacking libksba8:amd64 (1.3.5-2) ... Selecting previously unselected package libroken18-heimdal:amd64. Preparing to unpack .../033-libroken18-heimdal_7.5.0+dfsg-2_amd64.deb ... Unpacking libroken18-heimdal:amd64 (7.5.0+dfsg-2) ... Selecting previously unselected package libasn1-8-heimdal:amd64. Preparing to unpack .../034-libasn1-8-heimdal_7.5.0+dfsg-2_amd64.deb ... Unpacking libasn1-8-heimdal:amd64 (7.5.0+dfsg-2) ... Selecting previously unselected package libheimbase1-heimdal:amd64. Preparing to unpack .../035-libheimbase1-heimdal_7.5.0+dfsg-2_amd64.deb ... Unpacking libheimbase1-heimdal:amd64 (7.5.0+dfsg-2) ... Selecting previously unselected package libhcrypto4-heimdal:amd64. Preparing to unpack .../036-libhcrypto4-heimdal_7.5.0+dfsg-2_amd64.deb ... Unpacking libhcrypto4-heimdal:amd64 (7.5.0+dfsg-2) ... Selecting previously unselected package libwind0-heimdal:amd64. Preparing to unpack .../037-libwind0-heimdal_7.5.0+dfsg-2_amd64.deb ... Unpacking libwind0-heimdal:amd64 (7.5.0+dfsg-2) ... Selecting previously unselected package libhx509-5-heimdal:amd64. Preparing to unpack .../038-libhx509-5-heimdal_7.5.0+dfsg-2_amd64.deb ... Unpacking libhx509-5-heimdal:amd64 (7.5.0+dfsg-2) ... Selecting previously unselected package libkrb5-26-heimdal:amd64. Preparing to unpack .../039-libkrb5-26-heimdal_7.5.0+dfsg-2_amd64.deb ... Unpacking libkrb5-26-heimdal:amd64 (7.5.0+dfsg-2) ... Selecting previously unselected package libheimntlm0-heimdal:amd64. Preparing to unpack .../040-libheimntlm0-heimdal_7.5.0+dfsg-2_amd64.deb ... Unpacking libheimntlm0-heimdal:amd64 (7.5.0+dfsg-2) ... Selecting previously unselected package libgssapi3-heimdal:amd64. Preparing to unpack .../041-libgssapi3-heimdal_7.5.0+dfsg-2_amd64.deb ... Unpacking libgssapi3-heimdal:amd64 (7.5.0+dfsg-2) ... Selecting previously unselected package libsasl2-modules-db:amd64. Preparing to unpack .../042-libsasl2-modules-db_2.1.27~101-g0780600+dfsg-3ubuntu2_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.27~101-g0780600+dfsg-3ubuntu2) ... Selecting previously unselected package libsasl2-2:amd64. Preparing to unpack .../043-libsasl2-2_2.1.27~101-g0780600+dfsg-3ubuntu2_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.27~101-g0780600+dfsg-3ubuntu2) ... Selecting previously unselected package libldap-common. Preparing to unpack .../044-libldap-common_2.4.46+dfsg-5ubuntu1_all.deb ... Unpacking libldap-common (2.4.46+dfsg-5ubuntu1) ... Selecting previously unselected package libldap-2.4-2:amd64. Preparing to unpack .../045-libldap-2.4-2_2.4.46+dfsg-5ubuntu1_amd64.deb ... Unpacking libldap-2.4-2:amd64 (2.4.46+dfsg-5ubuntu1) ... Selecting previously unselected package dirmngr. Preparing to unpack .../046-dirmngr_2.2.8-1ubuntu1_amd64.deb ... Unpacking dirmngr (2.2.8-1ubuntu1) ... Selecting previously unselected package gnupg-l10n. Preparing to unpack .../047-gnupg-l10n_2.2.8-1ubuntu1_all.deb ... Unpacking gnupg-l10n (2.2.8-1ubuntu1) ... Selecting previously unselected package gnupg-utils. Preparing to unpack .../048-gnupg-utils_2.2.8-1ubuntu1_amd64.deb ... Unpacking gnupg-utils (2.2.8-1ubuntu1) ... Selecting previously unselected package gpg-wks-client. Preparing to unpack .../049-gpg-wks-client_2.2.8-1ubuntu1_amd64.deb ... Unpacking gpg-wks-client (2.2.8-1ubuntu1) ... Selecting previously unselected package gpg-wks-server. Preparing to unpack .../050-gpg-wks-server_2.2.8-1ubuntu1_amd64.deb ... Unpacking gpg-wks-server (2.2.8-1ubuntu1) ... Selecting previously unselected package gpgsm. Preparing to unpack .../051-gpgsm_2.2.8-1ubuntu1_amd64.deb ... Unpacking gpgsm (2.2.8-1ubuntu1) ... Selecting previously unselected package gnupg. Preparing to unpack .../052-gnupg_2.2.8-1ubuntu1_amd64.deb ... Unpacking gnupg (2.2.8-1ubuntu1) ... Selecting previously unselected package python-apt. Preparing to unpack .../053-python-apt_1.7.0~alpha2ubuntu2_amd64.deb ... Unpacking python-apt (1.7.0~alpha2ubuntu2) ... Selecting previously unselected package libpaper1:amd64. Preparing to unpack .../054-libpaper1_1.1.24+nmu5ubuntu1_amd64.deb ... Unpacking libpaper1:amd64 (1.1.24+nmu5ubuntu1) ... Selecting previously unselected package libpaper-utils. Preparing to unpack .../055-libpaper-utils_1.1.24+nmu5ubuntu1_amd64.deb ... Unpacking libpaper-utils (1.1.24+nmu5ubuntu1) ... Selecting previously unselected package libkpathsea6:amd64. Preparing to unpack .../056-libkpathsea6_2018.20180710.48169-1_amd64.deb ... Unpacking libkpathsea6:amd64 (2018.20180710.48169-1) ... Selecting previously unselected package libptexenc1:amd64. Preparing to unpack .../057-libptexenc1_2018.20180710.48169-1_amd64.deb ... Unpacking libptexenc1:amd64 (2018.20180710.48169-1) ... Selecting previously unselected package libsynctex2:amd64. Preparing to unpack .../058-libsynctex2_2018.20180710.48169-1_amd64.deb ... Unpacking libsynctex2:amd64 (2018.20180710.48169-1) ... Selecting previously unselected package libtexlua52:amd64. Preparing to unpack .../059-libtexlua52_2018.20180710.48169-1_amd64.deb ... Unpacking libtexlua52:amd64 (2018.20180710.48169-1) ... Selecting previously unselected package libtexlua53:amd64. Preparing to unpack .../060-libtexlua53_2018.20180710.48169-1_amd64.deb ... Unpacking libtexlua53:amd64 (2018.20180710.48169-1) ... Selecting previously unselected package libtexluajit2:amd64. Preparing to unpack .../061-libtexluajit2_2018.20180710.48169-1_amd64.deb ... Unpacking libtexluajit2:amd64 (2018.20180710.48169-1) ... Selecting previously unselected package t1utils. Preparing to unpack .../062-t1utils_1.41-2_amd64.deb ... Unpacking t1utils (1.41-2) ... Selecting previously unselected package libfreetype6:amd64. Preparing to unpack .../063-libfreetype6_2.8.1-2ubuntu2_amd64.deb ... Unpacking libfreetype6:amd64 (2.8.1-2ubuntu2) ... Selecting previously unselected package fonts-dejavu-core. Preparing to unpack .../064-fonts-dejavu-core_2.37-1_all.deb ... Unpacking fonts-dejavu-core (2.37-1) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../065-fontconfig-config_2.12.6-0ubuntu2_all.deb ... Unpacking fontconfig-config (2.12.6-0ubuntu2) ... Selecting previously unselected package libfontconfig1:amd64. Preparing to unpack .../066-libfontconfig1_2.12.6-0ubuntu2_amd64.deb ... Unpacking libfontconfig1:amd64 (2.12.6-0ubuntu2) ... Selecting previously unselected package libpixman-1-0:amd64. Preparing to unpack .../067-libpixman-1-0_0.34.0-2_amd64.deb ... Unpacking libpixman-1-0:amd64 (0.34.0-2) ... Selecting previously unselected package libxcb-render0:amd64. Preparing to unpack .../068-libxcb-render0_1.13-1_amd64.deb ... Unpacking libxcb-render0:amd64 (1.13-1) ... Selecting previously unselected package libxcb-shm0:amd64. Preparing to unpack .../069-libxcb-shm0_1.13-1_amd64.deb ... Unpacking libxcb-shm0:amd64 (1.13-1) ... Selecting previously unselected package libxrender1:amd64. Preparing to unpack .../070-libxrender1_1%3a0.9.10-1_amd64.deb ... Unpacking libxrender1:amd64 (1:0.9.10-1) ... Selecting previously unselected package libcairo2:amd64. Preparing to unpack .../071-libcairo2_1.15.10-3_amd64.deb ... Unpacking libcairo2:amd64 (1.15.10-3) ... Selecting previously unselected package libgraphite2-3:amd64. Preparing to unpack .../072-libgraphite2-3_1.3.11-2_amd64.deb ... Unpacking libgraphite2-3:amd64 (1.3.11-2) ... Selecting previously unselected package libavahi-common-data:amd64. Preparing to unpack .../073-libavahi-common-data_0.7-4ubuntu1_amd64.deb ... Unpacking libavahi-common-data:amd64 (0.7-4ubuntu1) ... Selecting previously unselected package libavahi-common3:amd64. Preparing to unpack .../074-libavahi-common3_0.7-4ubuntu1_amd64.deb ... Unpacking libavahi-common3:amd64 (0.7-4ubuntu1) ... Selecting previously unselected package libavahi-client3:amd64. Preparing to unpack .../075-libavahi-client3_0.7-4ubuntu1_amd64.deb ... Unpacking libavahi-client3:amd64 (0.7-4ubuntu1) ... Selecting previously unselected package libcups2:amd64. Preparing to unpack .../076-libcups2_2.2.7-1ubuntu3_amd64.deb ... Unpacking libcups2:amd64 (2.2.7-1ubuntu3) ... Selecting previously unselected package libcupsimage2:amd64. Preparing to unpack .../077-libcupsimage2_2.2.7-1ubuntu3_amd64.deb ... Unpacking libcupsimage2:amd64 (2.2.7-1ubuntu3) ... Selecting previously unselected package libijs-0.35:amd64. Preparing to unpack .../078-libijs-0.35_0.35-13_amd64.deb ... Unpacking libijs-0.35:amd64 (0.35-13) ... Selecting previously unselected package libjbig2dec0:amd64. Preparing to unpack .../079-libjbig2dec0_0.14-1_amd64.deb ... Unpacking libjbig2dec0:amd64 (0.14-1) ... Selecting previously unselected package libjpeg8:amd64. Preparing to unpack .../080-libjpeg8_8c-2ubuntu8_amd64.deb ... Unpacking libjpeg8:amd64 (8c-2ubuntu8) ... Selecting previously unselected package liblcms2-2:amd64. Preparing to unpack .../081-liblcms2-2_2.9-2_amd64.deb ... Unpacking liblcms2-2:amd64 (2.9-2) ... Selecting previously unselected package libjbig0:amd64. Preparing to unpack .../082-libjbig0_2.1-3.1build1_amd64.deb ... Unpacking libjbig0:amd64 (2.1-3.1build1) ... Selecting previously unselected package libtiff5:amd64. Preparing to unpack .../083-libtiff5_4.0.9-6_amd64.deb ... Unpacking libtiff5:amd64 (4.0.9-6) ... Selecting previously unselected package libgs9-common. Preparing to unpack .../084-libgs9-common_9.22~dfsg+1-0ubuntu1.1_all.deb ... Unpacking libgs9-common (9.22~dfsg+1-0ubuntu1.1) ... Selecting previously unselected package libgs9:amd64. Preparing to unpack .../085-libgs9_9.22~dfsg+1-0ubuntu1.1_amd64.deb ... Unpacking libgs9:amd64 (9.22~dfsg+1-0ubuntu1.1) ... Selecting previously unselected package libharfbuzz0b:amd64. Preparing to unpack .../086-libharfbuzz0b_1.8.3-1_amd64.deb ... Unpacking libharfbuzz0b:amd64 (1.8.3-1) ... Selecting previously unselected package libharfbuzz-icu0:amd64. Preparing to unpack .../087-libharfbuzz-icu0_1.8.3-1_amd64.deb ... Unpacking libharfbuzz-icu0:amd64 (1.8.3-1) ... Selecting previously unselected package libpotrace0:amd64. Preparing to unpack .../088-libpotrace0_1.15-1_amd64.deb ... Unpacking libpotrace0:amd64 (1.15-1) ... Selecting previously unselected package libxt6:amd64. Preparing to unpack .../089-libxt6_1%3a1.1.5-1_amd64.deb ... Unpacking libxt6:amd64 (1:1.1.5-1) ... Selecting previously unselected package libxmu6:amd64. Preparing to unpack .../090-libxmu6_2%3a1.1.2-2_amd64.deb ... Unpacking libxmu6:amd64 (2:1.1.2-2) ... Selecting previously unselected package libxpm4:amd64. Preparing to unpack .../091-libxpm4_1%3a3.5.12-1_amd64.deb ... Unpacking libxpm4:amd64 (1:3.5.12-1) ... Selecting previously unselected package libxaw7:amd64. Preparing to unpack .../092-libxaw7_2%3a1.0.13-1_amd64.deb ... Unpacking libxaw7:amd64 (2:1.0.13-1) ... Selecting previously unselected package libxi6:amd64. Preparing to unpack .../093-libxi6_2%3a1.7.9-1_amd64.deb ... Unpacking libxi6:amd64 (2:1.7.9-1) ... Selecting previously unselected package libzzip-0-13:amd64. Preparing to unpack .../094-libzzip-0-13_0.13.62-3.1ubuntu1_amd64.deb ... Unpacking libzzip-0-13:amd64 (0.13.62-3.1ubuntu1) ... Selecting previously unselected package texlive-binaries. Preparing to unpack .../095-texlive-binaries_2018.20180710.48169-1_amd64.deb ... Unpacking texlive-binaries (2018.20180710.48169-1) ... Selecting previously unselected package xdg-utils. Preparing to unpack .../096-xdg-utils_1.1.3-1ubuntu1_all.deb ... Unpacking xdg-utils (1.1.3-1ubuntu1) ... Selecting previously unselected package texlive-base. Preparing to unpack .../097-texlive-base_2018.20180505-1_all.deb ... Unpacking texlive-base (2018.20180505-1) ... Selecting previously unselected package texlive-fonts-recommended. Preparing to unpack .../098-texlive-fonts-recommended_2018.20180505-1_all.deb ... Unpacking texlive-fonts-recommended (2018.20180505-1) ... Selecting previously unselected package fonts-lmodern. Preparing to unpack .../099-fonts-lmodern_2.004.5-3_all.deb ... Unpacking fonts-lmodern (2.004.5-3) ... Selecting previously unselected package texlive-latex-base. Preparing to unpack .../100-texlive-latex-base_2018.20180505-1_all.deb ... Unpacking texlive-latex-base (2018.20180505-1) ... Selecting previously unselected package texlive-latex-recommended. Preparing to unpack .../101-texlive-latex-recommended_2018.20180505-1_all.deb ... Unpacking texlive-latex-recommended (2018.20180505-1) ... Selecting previously unselected package texlive. Preparing to unpack .../102-texlive_2018.20180505-1_all.deb ... Unpacking texlive (2018.20180505-1) ... Selecting previously unselected package texlive-bibtex-extra. Preparing to unpack .../103-texlive-bibtex-extra_2018.20180505-1_all.deb ... Unpacking texlive-bibtex-extra (2018.20180505-1) ... Selecting previously unselected package libthai-data. Preparing to unpack .../104-libthai-data_0.1.27-2_all.deb ... Unpacking libthai-data (0.1.27-2) ... Selecting previously unselected package libdatrie1:amd64. Preparing to unpack .../105-libdatrie1_0.2.12-1_amd64.deb ... Unpacking libdatrie1:amd64 (0.2.12-1) ... Selecting previously unselected package libthai0:amd64. Preparing to unpack .../106-libthai0_0.1.27-2_amd64.deb ... Unpacking libthai0:amd64 (0.1.27-2) ... Selecting previously unselected package libsombok3:amd64. Preparing to unpack .../107-libsombok3_2.4.0-2_amd64.deb ... Unpacking libsombok3:amd64 (2.4.0-2) ... Selecting previously unselected package libmime-charset-perl. Preparing to unpack .../108-libmime-charset-perl_1.012.2-1_all.deb ... Unpacking libmime-charset-perl (1.012.2-1) ... Selecting previously unselected package libunicode-linebreak-perl. Preparing to unpack .../109-libunicode-linebreak-perl_0.0.20170401-1_amd64.deb ... Unpacking libunicode-linebreak-perl (0.0.20170401-1) ... Selecting previously unselected package texlive-extra-utils. Preparing to unpack .../110-texlive-extra-utils_2018.20180505-1_all.deb ... Unpacking texlive-extra-utils (2018.20180505-1) ... Selecting previously unselected package preview-latex-style. Preparing to unpack .../111-preview-latex-style_11.91-1ubuntu1_all.deb ... Unpacking preview-latex-style (11.91-1ubuntu1) ... Selecting previously unselected package texlive-pictures. Preparing to unpack .../112-texlive-pictures_2018.20180505-1_all.deb ... Unpacking texlive-pictures (2018.20180505-1) ... Selecting previously unselected package texlive-latex-extra. Preparing to unpack .../113-texlive-latex-extra_2018.20180505-1_all.deb ... Unpacking texlive-latex-extra (2018.20180505-1) ... Selecting previously unselected package fonts-gfs-baskerville. Preparing to unpack .../114-fonts-gfs-baskerville_1.1-5_all.deb ... Unpacking fonts-gfs-baskerville (1.1-5) ... Selecting previously unselected package fonts-gfs-porson. Preparing to unpack .../115-fonts-gfs-porson_1.1-6_all.deb ... Unpacking fonts-gfs-porson (1.1-6) ... Selecting previously unselected package texlive-lang-greek. Preparing to unpack .../116-texlive-lang-greek_2018.20180505-1_all.deb ... Unpacking texlive-lang-greek (2018.20180505-1) ... Selecting previously unselected package texlive-science. Preparing to unpack .../117-texlive-science_2018.20180505-1_all.deb ... Unpacking texlive-science (2018.20180505-1) ... Selecting previously unselected package libxslt1.1:amd64. Preparing to unpack .../118-libxslt1.1_1.1.32-2_amd64.deb ... Unpacking libxslt1.1:amd64 (1.1.32-2) ... Selecting previously unselected package xsltproc. Preparing to unpack .../119-xsltproc_1.1.32-2_amd64.deb ... Unpacking xsltproc (1.1.32-2) ... Selecting previously unselected package dblatex. Preparing to unpack .../120-dblatex_0.3.10-2_all.deb ... Unpacking dblatex (0.3.10-2) ... Selecting previously unselected package libtool. Preparing to unpack .../121-libtool_2.4.6-2.1build1_all.deb ... Unpacking libtool (2.4.6-2.1build1) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../122-dh-autoreconf_19_all.deb ... Unpacking dh-autoreconf (19) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../123-libarchive-zip-perl_1.60-1ubuntu1_all.deb ... Unpacking libarchive-zip-perl (1.60-1ubuntu1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../124-libfile-stripnondeterminism-perl_0.042-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (0.042-1) ... Selecting previously unselected package libtimedate-perl. Preparing to unpack .../125-libtimedate-perl_2.3000-2_all.deb ... Unpacking libtimedate-perl (2.3000-2) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../126-dh-strip-nondeterminism_0.042-1_all.deb ... Unpacking dh-strip-nondeterminism (0.042-1) ... Selecting previously unselected package dwz. Preparing to unpack .../127-dwz_0.12-2_amd64.deb ... Unpacking dwz (0.12-2) ... Selecting previously unselected package libcroco3:amd64. Preparing to unpack .../128-libcroco3_0.6.12-2_amd64.deb ... Unpacking libcroco3:amd64 (0.6.12-2) ... Selecting previously unselected package gettext. Preparing to unpack .../129-gettext_0.19.8.1-6build1_amd64.deb ... Unpacking gettext (0.19.8.1-6build1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../130-intltool-debian_0.35.0+20060710.4_all.deb ... Unpacking intltool-debian (0.35.0+20060710.4) ... Selecting previously unselected package po-debconf. Preparing to unpack .../131-po-debconf_1.0.20_all.deb ... Unpacking po-debconf (1.0.20) ... Selecting previously unselected package debhelper. Preparing to unpack .../132-debhelper_11.3.2ubuntu1_all.deb ... Unpacking debhelper (11.3.2ubuntu1) ... Selecting previously unselected package docbook-xsl. Preparing to unpack .../133-docbook-xsl_1.79.1+dfsg-2_all.deb ... Unpacking docbook-xsl (1.79.1+dfsg-2) ... Selecting previously unselected package gir1.2-harfbuzz-0.0:amd64. Preparing to unpack .../134-gir1.2-harfbuzz-0.0_1.8.3-1_amd64.deb ... Unpacking gir1.2-harfbuzz-0.0:amd64 (1.8.3-1) ... Selecting previously unselected package icu-devtools. Preparing to unpack .../135-icu-devtools_60.2-6ubuntu1_amd64.deb ... Unpacking icu-devtools (60.2-6ubuntu1) ... Selecting previously unselected package libboost1.67-dev:amd64. Preparing to unpack .../136-libboost1.67-dev_1.67.0-0ubuntu1_amd64.deb ... Unpacking libboost1.67-dev:amd64 (1.67.0-0ubuntu1) ... Selecting previously unselected package libboost-atomic1.67.0:amd64. Preparing to unpack .../137-libboost-atomic1.67.0_1.67.0-0ubuntu1_amd64.deb ... Unpacking libboost-atomic1.67.0:amd64 (1.67.0-0ubuntu1) ... Selecting previously unselected package libboost-atomic1.67-dev:amd64. Preparing to unpack .../138-libboost-atomic1.67-dev_1.67.0-0ubuntu1_amd64.deb ... Unpacking libboost-atomic1.67-dev:amd64 (1.67.0-0ubuntu1) ... Selecting previously unselected package libboost-system1.67.0:amd64. Preparing to unpack .../139-libboost-system1.67.0_1.67.0-0ubuntu1_amd64.deb ... Unpacking libboost-system1.67.0:amd64 (1.67.0-0ubuntu1) ... Selecting previously unselected package libboost-chrono1.67.0:amd64. Preparing to unpack .../140-libboost-chrono1.67.0_1.67.0-0ubuntu1_amd64.deb ... Unpacking libboost-chrono1.67.0:amd64 (1.67.0-0ubuntu1) ... Selecting previously unselected package libboost-chrono1.67-dev:amd64. Preparing to unpack .../141-libboost-chrono1.67-dev_1.67.0-0ubuntu1_amd64.deb ... Unpacking libboost-chrono1.67-dev:amd64 (1.67.0-0ubuntu1) ... Selecting previously unselected package libboost-date-time1.67.0:amd64. Preparing to unpack .../142-libboost-date-time1.67.0_1.67.0-0ubuntu1_amd64.deb ... Unpacking libboost-date-time1.67.0:amd64 (1.67.0-0ubuntu1) ... Selecting previously unselected package libboost-serialization1.67.0:amd64. Preparing to unpack .../143-libboost-serialization1.67.0_1.67.0-0ubuntu1_amd64.deb ... Unpacking libboost-serialization1.67.0:amd64 (1.67.0-0ubuntu1) ... Selecting previously unselected package libboost-serialization1.67-dev:amd64. Preparing to unpack .../144-libboost-serialization1.67-dev_1.67.0-0ubuntu1_amd64.deb ... Unpacking libboost-serialization1.67-dev:amd64 (1.67.0-0ubuntu1) ... Selecting previously unselected package libboost-date-time1.67-dev:amd64. Preparing to unpack .../145-libboost-date-time1.67-dev_1.67.0-0ubuntu1_amd64.deb ... Unpacking libboost-date-time1.67-dev:amd64 (1.67.0-0ubuntu1) ... Selecting previously unselected package libboost-filesystem1.67.0:amd64. Preparing to unpack .../146-libboost-filesystem1.67.0_1.67.0-0ubuntu1_amd64.deb ... Unpacking libboost-filesystem1.67.0:amd64 (1.67.0-0ubuntu1) ... Selecting previously unselected package libboost-system1.67-dev:amd64. Preparing to unpack .../147-libboost-system1.67-dev_1.67.0-0ubuntu1_amd64.deb ... Unpacking libboost-system1.67-dev:amd64 (1.67.0-0ubuntu1) ... Selecting previously unselected package libboost-filesystem1.67-dev:amd64. Preparing to unpack .../148-libboost-filesystem1.67-dev_1.67.0-0ubuntu1_amd64.deb ... Unpacking libboost-filesystem1.67-dev:amd64 (1.67.0-0ubuntu1) ... Selecting previously unselected package libboost-filesystem-dev:amd64. Preparing to unpack .../149-libboost-filesystem-dev_1.67.0.0ubuntu1_amd64.deb ... Unpacking libboost-filesystem-dev:amd64 (1.67.0.0ubuntu1) ... Selecting previously unselected package libboost-regex1.67.0:amd64. Preparing to unpack .../150-libboost-regex1.67.0_1.67.0-0ubuntu1_amd64.deb ... Unpacking libboost-regex1.67.0:amd64 (1.67.0-0ubuntu1) ... Selecting previously unselected package libicu-le-hb0:amd64. Preparing to unpack .../151-libicu-le-hb0_1.0.3+git161113-5_amd64.deb ... Unpacking libicu-le-hb0:amd64 (1.0.3+git161113-5) ... Selecting previously unselected package libiculx60:amd64. Preparing to unpack .../152-libiculx60_60.2-6ubuntu1_amd64.deb ... Unpacking libiculx60:amd64 (60.2-6ubuntu1) ... Selecting previously unselected package libharfbuzz-gobject0:amd64. Preparing to unpack .../153-libharfbuzz-gobject0_1.8.3-1_amd64.deb ... Unpacking libharfbuzz-gobject0:amd64 (1.8.3-1) ... Selecting previously unselected package libglib2.0-bin. Preparing to unpack .../154-libglib2.0-bin_2.56.1-2ubuntu1_amd64.deb ... Unpacking libglib2.0-bin (2.56.1-2ubuntu1) ... Selecting previously unselected package python3-lib2to3. Preparing to unpack .../155-python3-lib2to3_3.6.6-1_all.deb ... Unpacking python3-lib2to3 (3.6.6-1) ... Selecting previously unselected package python3-distutils. Preparing to unpack .../156-python3-distutils_3.6.6-1_all.deb ... Unpacking python3-distutils (3.6.6-1) ... Selecting previously unselected package libglib2.0-dev-bin. Preparing to unpack .../157-libglib2.0-dev-bin_2.56.1-2ubuntu1_amd64.deb ... Unpacking libglib2.0-dev-bin (2.56.1-2ubuntu1) ... Selecting previously unselected package libpcre16-3:amd64. Preparing to unpack .../158-libpcre16-3_2%3a8.39-9_amd64.deb ... Unpacking libpcre16-3:amd64 (2:8.39-9) ... Selecting previously unselected package libpcre32-3:amd64. Preparing to unpack .../159-libpcre32-3_2%3a8.39-9_amd64.deb ... Unpacking libpcre32-3:amd64 (2:8.39-9) ... Selecting previously unselected package libpcrecpp0v5:amd64. Preparing to unpack .../160-libpcrecpp0v5_2%3a8.39-9_amd64.deb ... Unpacking libpcrecpp0v5:amd64 (2:8.39-9) ... Selecting previously unselected package libpcre3-dev:amd64. Preparing to unpack .../161-libpcre3-dev_2%3a8.39-9_amd64.deb ... Unpacking libpcre3-dev:amd64 (2:8.39-9) ... Selecting previously unselected package pkg-config. Preparing to unpack .../162-pkg-config_0.29.1-0ubuntu2_amd64.deb ... Unpacking pkg-config (0.29.1-0ubuntu2) ... Selecting previously unselected package zlib1g-dev:amd64. Preparing to unpack .../163-zlib1g-dev_1%3a1.2.11.dfsg-0ubuntu2_amd64.deb ... Unpacking zlib1g-dev:amd64 (1:1.2.11.dfsg-0ubuntu2) ... Selecting previously unselected package libglib2.0-dev:amd64. Preparing to unpack .../164-libglib2.0-dev_2.56.1-2ubuntu1_amd64.deb ... Unpacking libglib2.0-dev:amd64 (2.56.1-2ubuntu1) ... Selecting previously unselected package libgraphite2-dev:amd64. Preparing to unpack .../165-libgraphite2-dev_1.3.11-2_amd64.deb ... Unpacking libgraphite2-dev:amd64 (1.3.11-2) ... Selecting previously unselected package libharfbuzz-dev:amd64. Preparing to unpack .../166-libharfbuzz-dev_1.8.3-1_amd64.deb ... Unpacking libharfbuzz-dev:amd64 (1.8.3-1) ... Selecting previously unselected package libicu-le-hb-dev:amd64. Preparing to unpack .../167-libicu-le-hb-dev_1.0.3+git161113-5_amd64.deb ... Unpacking libicu-le-hb-dev:amd64 (1.0.3+git161113-5) ... Selecting previously unselected package libicu-dev. Preparing to unpack .../168-libicu-dev_60.2-6ubuntu1_amd64.deb ... Unpacking libicu-dev (60.2-6ubuntu1) ... Selecting previously unselected package libboost-regex1.67-dev:amd64. Preparing to unpack .../169-libboost-regex1.67-dev_1.67.0-0ubuntu1_amd64.deb ... Unpacking libboost-regex1.67-dev:amd64 (1.67.0-0ubuntu1) ... Selecting previously unselected package libboost-iostreams1.67.0:amd64. Preparing to unpack .../170-libboost-iostreams1.67.0_1.67.0-0ubuntu1_amd64.deb ... Unpacking libboost-iostreams1.67.0:amd64 (1.67.0-0ubuntu1) ... Selecting previously unselected package libboost-iostreams1.67-dev:amd64. Preparing to unpack .../171-libboost-iostreams1.67-dev_1.67.0-0ubuntu1_amd64.deb ... Unpacking libboost-iostreams1.67-dev:amd64 (1.67.0-0ubuntu1) ... Selecting previously unselected package libboost-iostreams-dev:amd64. Preparing to unpack .../172-libboost-iostreams-dev_1.67.0.0ubuntu1_amd64.deb ... Unpacking libboost-iostreams-dev:amd64 (1.67.0.0ubuntu1) ... Selecting previously unselected package libboost-regex-dev:amd64. Preparing to unpack .../173-libboost-regex-dev_1.67.0.0ubuntu1_amd64.deb ... Unpacking libboost-regex-dev:amd64 (1.67.0.0ubuntu1) ... Selecting previously unselected package libboost-system-dev:amd64. Preparing to unpack .../174-libboost-system-dev_1.67.0.0ubuntu1_amd64.deb ... Unpacking libboost-system-dev:amd64 (1.67.0.0ubuntu1) ... Selecting previously unselected package libboost-thread1.67.0:amd64. Preparing to unpack .../175-libboost-thread1.67.0_1.67.0-0ubuntu1_amd64.deb ... Unpacking libboost-thread1.67.0:amd64 (1.67.0-0ubuntu1) ... Selecting previously unselected package libboost-thread1.67-dev:amd64. Preparing to unpack .../176-libboost-thread1.67-dev_1.67.0-0ubuntu1_amd64.deb ... Unpacking libboost-thread1.67-dev:amd64 (1.67.0-0ubuntu1) ... Selecting previously unselected package libboost-thread-dev:amd64. Preparing to unpack .../177-libboost-thread-dev_1.67.0.0ubuntu1_amd64.deb ... Unpacking libboost-thread-dev:amd64 (1.67.0.0ubuntu1) ... Selecting previously unselected package libbz2-dev:amd64. Preparing to unpack .../178-libbz2-dev_1.0.6-8.1_amd64.deb ... Unpacking libbz2-dev:amd64 (1.0.6-8.1) ... Selecting previously unselected package libexpat1-dev:amd64. Preparing to unpack .../179-libexpat1-dev_2.2.5-3_amd64.deb ... Unpacking libexpat1-dev:amd64 (2.2.5-3) ... Selecting previously unselected package libfl2:amd64. Preparing to unpack .../180-libfl2_2.6.4-6.1_amd64.deb ... Unpacking libfl2:amd64 (2.6.4-6.1) ... Selecting previously unselected package libfl-dev:amd64. Preparing to unpack .../181-libfl-dev_2.6.4-6.1_amd64.deb ... Unpacking libfl-dev:amd64 (2.6.4-6.1) ... Selecting previously unselected package libtcmalloc-minimal4. Preparing to unpack .../182-libtcmalloc-minimal4_2.5-2.2ubuntu3_amd64.deb ... Unpacking libtcmalloc-minimal4 (2.5-2.2ubuntu3) ... Selecting previously unselected package libunwind8:amd64. Preparing to unpack .../183-libunwind8_1.2.1-8_amd64.deb ... Unpacking libunwind8:amd64 (1.2.1-8) ... Selecting previously unselected package libgoogle-perftools4. Preparing to unpack .../184-libgoogle-perftools4_2.5-2.2ubuntu3_amd64.deb ... Unpacking libgoogle-perftools4 (2.5-2.2ubuntu3) ... Selecting previously unselected package liblzma-dev:amd64. Preparing to unpack .../185-liblzma-dev_5.2.2-1.3_amd64.deb ... Unpacking liblzma-dev:amd64 (5.2.2-1.3) ... Selecting previously unselected package libunwind-dev:amd64. Preparing to unpack .../186-libunwind-dev_1.2.1-8_amd64.deb ... Unpacking libunwind-dev:amd64 (1.2.1-8) ... Selecting previously unselected package libgoogle-perftools-dev. Preparing to unpack .../187-libgoogle-perftools-dev_2.5-2.2ubuntu3_amd64.deb ... Unpacking libgoogle-perftools-dev (2.5-2.2ubuntu3) ... Selecting previously unselected package sbuild-build-depends-mira-dummy. Preparing to unpack .../188-sbuild-build-depends-mira-dummy_0.invalid.0_amd64.deb ... Unpacking sbuild-build-depends-mira-dummy (0.invalid.0) ... Setting up python-apt-common (1.7.0~alpha2ubuntu2) ... Setting up libgs9-common (9.22~dfsg+1-0ubuntu1.1) ... Setting up libkpathsea6:amd64 (2018.20180710.48169-1) ... Setting up libtexlua52:amd64 (2018.20180710.48169-1) ... Setting up libapt-inst2.0:amd64 (1.7.0~alpha2) ... Setting up libicu60:amd64 (60.2-6ubuntu1) ... Setting up libbz2-dev:amd64 (1.0.6-8.1) ... Setting up libboost-iostreams1.67.0:amd64 (1.67.0-0ubuntu1) ... Setting up libptexenc1:amd64 (2018.20180710.48169-1) ... Setting up libarchive-zip-perl (1.60-1ubuntu1) ... Setting up mime-support (3.60ubuntu1) ... Setting up xxd (2:8.0.1766-1ubuntu1) ... Setting up libtimedate-perl (2.3000-2) ... Setting up liblcms2-2:amd64 (2.9-2) ... Setting up libjbig0:amd64 (2.1-3.1build1) ... Setting up libsigsegv2:amd64 (2.12-2) ... Setting up libldap-common (2.4.46+dfsg-5ubuntu1) ... Setting up fonts-dejavu-core (2.37-1) ... Setting up poppler-data (0.4.9-2) ... Setting up fonts-gfs-porson (1.1-6) ... Setting up libelf1:amd64 (0.170-0.5) ... Setting up libboost-atomic1.67.0:amd64 (1.67.0-0ubuntu1) ... Setting up groff-base (1.22.3-10) ... Setting up libglib2.0-0:amd64 (2.56.1-2ubuntu1) ... No schema files found: doing nothing. Setting up libtexlua53:amd64 (2018.20180710.48169-1) ... Setting up libsasl2-modules-db:amd64 (2.1.27~101-g0780600+dfsg-3ubuntu2) ... Setting up libsasl2-2:amd64 (2.1.27~101-g0780600+dfsg-3ubuntu2) ... Setting up libdatrie1:amd64 (0.2.12-1) ... Setting up gettext-base (0.19.8.1-6build1) ... Setting up libsynctex2:amd64 (2018.20180710.48169-1) ... Setting up libjpeg-turbo8:amd64 (1.5.2-0ubuntu6) ... Setting up libpipeline1:amd64 (1.5.0-1) ... Setting up libroken18-heimdal:amd64 (7.5.0+dfsg-2) ... Setting up libksba8:amd64 (1.3.5-2) ... Setting up gpg-wks-server (2.2.8-1ubuntu1) ... Setting up m4 (1.4.18-1) ... Setting up sgml-base (1.29) ... Setting up libbsd0:amd64 (0.9.1-1) ... Setting up libkrb5support0:amd64 (1.16-2build1) ... Setting up libboost-date-time1.67.0:amd64 (1.67.0-0ubuntu1) ... Setting up ucf (3.0038) ... Setting up libgirepository-1.0-1:amd64 (1.56.1-1) ... Setting up libxml2:amd64 (2.9.4+dfsg1-7build1) ... Setting up libfreetype6:amd64 (2.8.1-2ubuntu2) ... Setting up libmagic-mgc (1:5.33-3) ... Setting up gnupg-l10n (2.2.8-1ubuntu1) ... Setting up libmagic1:amd64 (1:5.33-3) ... Setting up libgraphite2-3:amd64 (1.3.11-2) ... Setting up libcroco3:amd64 (0.6.12-2) ... Setting up libxslt1.1:amd64 (1.1.32-2) ... Setting up pkg-config (0.29.1-0ubuntu2) ... Setting up libjbig2dec0:amd64 (0.14-1) ... Setting up libtcmalloc-minimal4 (2.5-2.2ubuntu3) ... Setting up libpixman-1-0:amd64 (0.34.0-2) ... Setting up libmime-charset-perl (1.012.2-1) ... Setting up autoconf-archive (20170928-2) ... Setting up gir1.2-glib-2.0:amd64 (1.56.1-1) ... Setting up libglib2.0-data (2.56.1-2ubuntu1) ... Setting up libunwind8:amd64 (1.2.1-8) ... Processing triggers for libc-bin (2.27-3ubuntu1) ... Setting up fonts-gfs-baskerville (1.1-5) ... Setting up dwz (0.12-2) ... Setting up autotools-dev (20180224.1) ... Setting up t1utils (1.41-2) ... Setting up libboost1.67-dev:amd64 (1.67.0-0ubuntu1) ... Setting up libheimbase1-heimdal:amd64 (7.5.0+dfsg-2) ... Setting up gpgsm (2.2.8-1ubuntu1) ... Processing triggers for systemd (238-5ubuntu2) ... Setting up gnupg-utils (2.2.8-1ubuntu1) ... Setting up vim-common (2:8.0.1766-1ubuntu1) ... Setting up libijs-0.35:amd64 (0.35-13) ... Setting up libfl2:amd64 (2.6.4-6.1) ... Setting up libexpat1-dev:amd64 (2.2.5-3) ... Setting up libpotrace0:amd64 (1.15-1) ... Setting up libpcrecpp0v5:amd64 (2:8.39-9) ... Setting up libpcre32-3:amd64 (2:8.39-9) ... Setting up libboost-serialization1.67.0:amd64 (1.67.0-0ubuntu1) ... Setting up icu-devtools (60.2-6ubuntu1) ... Setting up libpcre16-3:amd64 (2:8.39-9) ... Setting up libthai-data (0.1.27-2) ... Setting up liblzma-dev:amd64 (5.2.2-1.3) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up xml-core (0.18) ... Setting up libkeyutils1:amd64 (1.5.9-9.2ubuntu3) ... Setting up bsdmainutils (11.1.2ubuntu2) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up libzzip-0-13:amd64 (0.13.62-3.1ubuntu1) ... Setting up x11-common (1:7.7+19ubuntu8) ... update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Setting up xdg-utils (1.1.3-1ubuntu1) ... Setting up libboost-system1.67.0:amd64 (1.67.0-0ubuntu1) ... Setting up libglib2.0-bin (2.56.1-2ubuntu1) ... Setting up libgraphite2-dev:amd64 (1.3.11-2) ... Setting up libtexluajit2:amd64 (2018.20180710.48169-1) ... Setting up libboost-regex1.67.0:amd64 (1.67.0-0ubuntu1) ... Setting up libx11-data (2:1.6.5-1) ... Setting up libpython2.7-stdlib:amd64 (2.7.15-1) ... Setting up libxau6:amd64 (1:1.0.8-1) ... Setting up autopoint (0.19.8.1-6build1) ... Setting up libmpdec2:amd64 (2.4.2-2) ... Setting up libdbus-1-3:amd64 (1.12.2-1ubuntu1) ... Setting up fonts-lmodern (2.004.5-3) ... Setting up libavahi-common-data:amd64 (0.7-4ubuntu1) ... Setting up zlib1g-dev:amd64 (1:1.2.11.dfsg-0ubuntu2) ... Setting up libfile-stripnondeterminism-perl (0.042-1) ... Setting up libjpeg8:amd64 (8c-2ubuntu8) ... Setting up libpaper1:amd64 (1.1.24+nmu5ubuntu1) ... Creating config file /etc/papersize with new version Setting up libpython3.6-stdlib:amd64 (3.6.6-1) ... Setting up libk5crypto3:amd64 (1.16-2build1) ... Setting up libpaper-utils (1.1.24+nmu5ubuntu1) ... Setting up libpcre3-dev:amd64 (2:8.39-9) ... Setting up fontconfig-config (2.12.6-0ubuntu2) ... Setting up python3.6 (3.6.6-1) ... Setting up tex-common (6.09) ... update-language: texlive-base not installed and configured, doing nothing! Setting up libwind0-heimdal:amd64 (7.5.0+dfsg-2) ... Setting up gettext (0.19.8.1-6build1) ... Setting up libboost-serialization1.67-dev:amd64 (1.67.0-0ubuntu1) ... Setting up flex (2.6.4-6.1) ... Setting up libboost-filesystem1.67.0:amd64 (1.67.0-0ubuntu1) ... Setting up libasn1-8-heimdal:amd64 (7.5.0+dfsg-2) ... Setting up libboost-thread1.67.0:amd64 (1.67.0-0ubuntu1) ... Setting up libhcrypto4-heimdal:amd64 (7.5.0+dfsg-2) ... Setting up python2.7 (2.7.15-1) ... Setting up libharfbuzz0b:amd64 (1.8.3-1) ... Setting up libtiff5:amd64 (4.0.9-6) ... Setting up xsltproc (1.1.32-2) ... Setting up preview-latex-style (11.91-1ubuntu1) ... Setting up autoconf (2.69-11) ... Setting up libthai0:amd64 (0.1.27-2) ... Setting up file (1:5.33-3) ... Setting up libhx509-5-heimdal:amd64 (7.5.0+dfsg-2) ... Setting up libfl-dev:amd64 (2.6.4-6.1) ... Setting up intltool-debian (0.35.0+20060710.4) ... Setting up libboost-atomic1.67-dev:amd64 (1.67.0-0ubuntu1) ... Setting up libgoogle-perftools4 (2.5-2.2ubuntu3) ... Setting up gir1.2-harfbuzz-0.0:amd64 (1.8.3-1) ... Setting up libunwind-dev:amd64 (1.2.1-8) ... Setting up libboost-chrono1.67.0:amd64 (1.67.0-0ubuntu1) ... Setting up automake (1:1.15.1-3ubuntu2) ... update-alternatives: using /usr/bin/automake-1.15 to provide /usr/bin/automake (automake) in auto mode Setting up libboost-system1.67-dev:amd64 (1.67.0-0ubuntu1) ... Setting up libice6:amd64 (2:1.0.9-2) ... Setting up man-db (2.8.3-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libpython2-stdlib:amd64 (2.7.15-3) ... Setting up libkrb5-3:amd64 (1.16-2build1) ... Setting up libboost-chrono1.67-dev:amd64 (1.67.0-0ubuntu1) ... Setting up libboost-date-time1.67-dev:amd64 (1.67.0-0ubuntu1) ... Setting up libavahi-common3:amd64 (0.7-4ubuntu1) ... Setting up libkrb5-26-heimdal:amd64 (7.5.0+dfsg-2) ... Setting up libxcb1:amd64 (1.13-1) ... Setting up libharfbuzz-gobject0:amd64 (1.8.3-1) ... Setting up libheimntlm0-heimdal:amd64 (7.5.0+dfsg-2) ... Setting up libsombok3:amd64 (2.4.0-2) ... Setting up libgoogle-perftools-dev (2.5-2.2ubuntu3) ... Setting up libtool (2.4.6-2.1build1) ... Setting up libpython3-stdlib:amd64 (3.6.6-1) ... Setting up libfontconfig1:amd64 (2.12.6-0ubuntu2) ... Setting up libboost-filesystem1.67-dev:amd64 (1.67.0-0ubuntu1) ... Setting up libsm6:amd64 (2:1.2.2-1) ... Setting up libxcb-render0:amd64 (1.13-1) ... Setting up libharfbuzz-icu0:amd64 (1.8.3-1) ... Setting up po-debconf (1.0.20) ... Setting up python3 (3.6.6-1) ... Setting up libboost-thread1.67-dev:amd64 (1.67.0-0ubuntu1) ... Setting up libboost-system-dev:amd64 (1.67.0.0ubuntu1) ... Setting up libicu-le-hb0:amd64 (1.0.3+git161113-5) ... Setting up libx11-6:amd64 (2:1.6.5-1) ... Setting up libboost-filesystem-dev:amd64 (1.67.0.0ubuntu1) ... Setting up python2 (2.7.15-3) ... Setting up libgssapi-krb5-2:amd64 (1.16-2build1) ... Setting up libpython-stdlib:amd64 (2.7.15-3) ... Setting up libiculx60:amd64 (60.2-6ubuntu1) ... Setting up libunicode-linebreak-perl (0.0.20170401-1) ... Setting up libxcb-shm0:amd64 (1.13-1) ... Setting up libxpm4:amd64 (1:3.5.12-1) ... Setting up libxt6:amd64 (1:1.1.5-1) ... Setting up libxrender1:amd64 (1:0.9.10-1) ... Setting up libavahi-client3:amd64 (0.7-4ubuntu1) ... Setting up libgssapi3-heimdal:amd64 (7.5.0+dfsg-2) ... Setting up python3-lib2to3 (3.6.6-1) ... Setting up python3-distutils (3.6.6-1) ... Setting up python (2.7.15-3) ... Setting up libcups2:amd64 (2.2.7-1ubuntu3) ... Setting up libboost-thread-dev:amd64 (1.67.0.0ubuntu1) ... Setting up libxext6:amd64 (2:1.3.3-1) ... Setting up libglib2.0-dev-bin (2.56.1-2ubuntu1) ... Setting up libglib2.0-dev:amd64 (2.56.1-2ubuntu1) ... Setting up libxmu6:amd64 (2:1.1.2-2) ... Setting up libcupsimage2:amd64 (2.2.7-1ubuntu3) ... Setting up libldap-2.4-2:amd64 (2.4.46+dfsg-5ubuntu1) ... Setting up dirmngr (2.2.8-1ubuntu1) ... Setting up libgs9:amd64 (9.22~dfsg+1-0ubuntu1.1) ... Setting up libxi6:amd64 (2:1.7.9-1) ... Setting up libxaw7:amd64 (2:1.0.13-1) ... Setting up libcairo2:amd64 (1.15.10-3) ... Setting up gpg-wks-client (2.2.8-1ubuntu1) ... Setting up texlive-binaries (2018.20180710.48169-1) ... 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 texlive-base (2018.20180505-1) ... 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/config/pdftexconfig.tex Setting up texlive-fonts-recommended (2018.20180505-1) ... Setting up texlive-latex-base (2018.20180505-1) ... Setting up texlive-latex-recommended (2018.20180505-1) ... Setting up texlive-extra-utils (2018.20180505-1) ... Setting up texlive-lang-greek (2018.20180505-1) ... Setting up texlive-science (2018.20180505-1) ... Setting up texlive-pictures (2018.20180505-1) ... Setting up gnupg (2.2.8-1ubuntu1) ... Setting up texlive-bibtex-extra (2018.20180505-1) ... Setting up python-apt (1.7.0~alpha2ubuntu2) ... Setting up texlive (2018.20180505-1) ... Setting up texlive-latex-extra (2018.20180505-1) ... Processing triggers for sgml-base (1.29) ... Setting up docbook-xsl (1.79.1+dfsg-2) ... Setting up sgml-data (2.0.11) ... Processing triggers for sgml-base (1.29) ... Setting up docbook-xml (4.5-8) ... Processing triggers for sgml-base (1.29) ... Setting up dblatex (0.3.10-2) ... Setting up libharfbuzz-dev:amd64 (1.8.3-1) ... Setting up dh-autoreconf (19) ... Setting up libicu-le-hb-dev:amd64 (1.0.3+git161113-5) ... Setting up libicu-dev (60.2-6ubuntu1) ... Setting up dh-strip-nondeterminism (0.042-1) ... Setting up debhelper (11.3.2ubuntu1) ... Setting up libboost-regex1.67-dev:amd64 (1.67.0-0ubuntu1) ... Setting up libboost-regex-dev:amd64 (1.67.0.0ubuntu1) ... Setting up libboost-iostreams1.67-dev:amd64 (1.67.0-0ubuntu1) ... Setting up libboost-iostreams-dev:amd64 (1.67.0.0ubuntu1) ... Setting up sbuild-build-depends-mira-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.27-3ubuntu1) ... Processing triggers for systemd (238-5ubuntu2) ... Processing triggers for tex-common (6.09) ... 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. +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.4.0-128-generic amd64 (x86_64) Toolchain package versions: binutils_2.31-1ubuntu1 dpkg-dev_1.19.0.5ubuntu3 g++-7_7.3.0-25ubuntu1 g++-8_8.1.0-10ubuntu1 gcc-7_7.3.0-25ubuntu1 gcc-8_8.1.0-10ubuntu1 libc6-dev_2.27-3ubuntu1 libstdc++-7-dev_7.3.0-25ubuntu1 libstdc++-8-dev_8.1.0-10ubuntu1 libstdc++6_8.1.0-10ubuntu1 linux-libc-dev_4.17.0-5.6 Package versions: adduser_3.117ubuntu1 advancecomp_2.1-1 apt_1.7.0~alpha2 autoconf_2.69-11 autoconf-archive_20170928-2 automake_1:1.15.1-3ubuntu2 autopoint_0.19.8.1-6build1 autotools-dev_20180224.1 base-files_10.1ubuntu4 base-passwd_3.5.45 bash_4.4.18-2ubuntu2 binutils_2.31-1ubuntu1 binutils-common_2.31-1ubuntu1 binutils-x86-64-linux-gnu_2.31-1ubuntu1 bsdmainutils_11.1.2ubuntu2 bsdutils_1:2.32-0.1ubuntu1 build-essential_12.5ubuntu2 bzip2_1.0.6-8.1 ca-certificates_20180409 coreutils_8.28-1ubuntu1 cpp_4:8.1.0-2ubuntu0.3 cpp-7_7.3.0-25ubuntu1 cpp-8_8.1.0-10ubuntu1 dash_0.5.8-2.10 dblatex_0.3.10-2 debconf_1.5.67 debhelper_11.3.2ubuntu1 debianutils_4.8.6 dh-autoreconf_19 dh-strip-nondeterminism_0.042-1 diffutils_1:3.6-1 dirmngr_2.2.8-1ubuntu1 dmsetup_2:1.02.145-4.1ubuntu3 docbook-xml_4.5-8 docbook-xsl_1.79.1+dfsg-2 dpkg_1.19.0.5ubuntu3 dpkg-dev_1.19.0.5ubuntu3 dwz_0.12-2 e2fslibs_1.44.3-1 e2fsprogs_1.44.3-1 fakeroot_1.22-2ubuntu1 fdisk_2.32-0.1ubuntu1 file_1:5.33-3 findutils_4.6.0+git+20170828-2 flex_2.6.4-6.1 fontconfig-config_2.12.6-0ubuntu2 fonts-dejavu-core_2.37-1 fonts-gfs-baskerville_1.1-5 fonts-gfs-porson_1.1-6 fonts-lmodern_2.004.5-3 g++_4:8.1.0-2ubuntu0.3 g++-7_7.3.0-25ubuntu1 g++-8_8.1.0-10ubuntu1 gcc_4:8.1.0-2ubuntu0.3 gcc-7_7.3.0-25ubuntu1 gcc-7-base_7.3.0-25ubuntu1 gcc-8_8.1.0-10ubuntu1 gcc-8-base_8.1.0-10ubuntu1 gettext_0.19.8.1-6build1 gettext-base_0.19.8.1-6build1 gir1.2-glib-2.0_1.56.1-1 gir1.2-harfbuzz-0.0_1.8.3-1 gnupg_2.2.8-1ubuntu1 gnupg-l10n_2.2.8-1ubuntu1 gnupg-utils_2.2.8-1ubuntu1 gpg_2.2.8-1ubuntu1 gpg-agent_2.2.8-1ubuntu1 gpg-wks-client_2.2.8-1ubuntu1 gpg-wks-server_2.2.8-1ubuntu1 gpgconf_2.2.8-1ubuntu1 gpgsm_2.2.8-1ubuntu1 gpgv_2.2.8-1ubuntu1 grep_3.1-2 groff-base_1.22.3-10 gzip_1.6-5ubuntu1 hostname_3.20 icu-devtools_60.2-6ubuntu1 init_1.51 init-system-helpers_1.51 initscripts_2.88dsf-59.3ubuntu2 insserv_1.14.0-5ubuntu3 intltool-debian_0.35.0+20060710.4 libacl1_2.2.52-3build1 libapparmor1_2.12-4ubuntu6 libapt-inst2.0_1.7.0~alpha2 libapt-pkg5.0_1.7.0~alpha2 libarchive-zip-perl_1.60-1ubuntu1 libargon2-0_0~20171227-0.1 libargon2-1_0~20171227-0.1 libasan4_7.3.0-25ubuntu1 libasan5_8.1.0-10ubuntu1 libasn1-8-heimdal_7.5.0+dfsg-2 libassuan0_2.5.1-2 libatomic1_8.1.0-10ubuntu1 libattr1_1:2.4.47-2build1 libaudit-common_1:2.8.3-1ubuntu2 libaudit1_1:2.8.3-1ubuntu2 libavahi-client3_0.7-4ubuntu1 libavahi-common-data_0.7-4ubuntu1 libavahi-common3_0.7-4ubuntu1 libbinutils_2.31-1ubuntu1 libblkid1_2.32-0.1ubuntu1 libboost-atomic1.67-dev_1.67.0-0ubuntu1 libboost-atomic1.67.0_1.67.0-0ubuntu1 libboost-chrono1.67-dev_1.67.0-0ubuntu1 libboost-chrono1.67.0_1.67.0-0ubuntu1 libboost-date-time1.67-dev_1.67.0-0ubuntu1 libboost-date-time1.67.0_1.67.0-0ubuntu1 libboost-filesystem-dev_1.67.0.0ubuntu1 libboost-filesystem1.67-dev_1.67.0-0ubuntu1 libboost-filesystem1.67.0_1.67.0-0ubuntu1 libboost-iostreams-dev_1.67.0.0ubuntu1 libboost-iostreams1.67-dev_1.67.0-0ubuntu1 libboost-iostreams1.67.0_1.67.0-0ubuntu1 libboost-regex-dev_1.67.0.0ubuntu1 libboost-regex1.67-dev_1.67.0-0ubuntu1 libboost-regex1.67.0_1.67.0-0ubuntu1 libboost-serialization1.67-dev_1.67.0-0ubuntu1 libboost-serialization1.67.0_1.67.0-0ubuntu1 libboost-system-dev_1.67.0.0ubuntu1 libboost-system1.67-dev_1.67.0-0ubuntu1 libboost-system1.67.0_1.67.0-0ubuntu1 libboost-thread-dev_1.67.0.0ubuntu1 libboost-thread1.67-dev_1.67.0-0ubuntu1 libboost-thread1.67.0_1.67.0-0ubuntu1 libboost1.67-dev_1.67.0-0ubuntu1 libbsd0_0.9.1-1 libbz2-1.0_1.0.6-8.1 libbz2-dev_1.0.6-8.1 libc-bin_2.27-3ubuntu1 libc-dev-bin_2.27-3ubuntu1 libc6_2.27-3ubuntu1 libc6-dev_2.27-3ubuntu1 libcairo2_1.15.10-3 libcap-ng0_0.7.9-1 libcap2_1:2.25-1.2 libcc1-0_8.1.0-10ubuntu1 libcilkrts5_7.3.0-25ubuntu1 libcom-err2_1.44.3-1 libcomerr2_1.44.3-1 libcroco3_0.6.12-2 libcryptsetup12_2:2.0.3-6ubuntu1 libcups2_2.2.7-1ubuntu3 libcupsimage2_2.2.7-1ubuntu3 libdatrie1_0.2.12-1 libdb5.3_5.3.28-13.1ubuntu1 libdbus-1-3_1.12.2-1ubuntu1 libdebconfclient0_0.213ubuntu1 libdevmapper1.02.1_2:1.02.145-4.1ubuntu3 libdpkg-perl_1.19.0.5ubuntu3 libelf1_0.170-0.5 libexpat1_2.2.5-3 libexpat1-dev_2.2.5-3 libext2fs2_1.44.3-1 libfakeroot_1.22-2ubuntu1 libfdisk1_2.32-0.1ubuntu1 libffi6_3.2.1-8 libfile-stripnondeterminism-perl_0.042-1 libfl-dev_2.6.4-6.1 libfl2_2.6.4-6.1 libfontconfig1_2.12.6-0ubuntu2 libfreetype6_2.8.1-2ubuntu2 libgcc-7-dev_7.3.0-25ubuntu1 libgcc-8-dev_8.1.0-10ubuntu1 libgcc1_1:8.1.0-10ubuntu1 libgcrypt20_1.8.3-1ubuntu1 libgdbm-compat4_1.14.1-6 libgdbm5_1.14.1-6 libgirepository-1.0-1_1.56.1-1 libglib2.0-0_2.56.1-2ubuntu1 libglib2.0-bin_2.56.1-2ubuntu1 libglib2.0-data_2.56.1-2ubuntu1 libglib2.0-dev_2.56.1-2ubuntu1 libglib2.0-dev-bin_2.56.1-2ubuntu1 libgmp10_2:6.1.2+dfsg-3 libgnutls30_3.5.18-1ubuntu1 libgomp1_8.1.0-10ubuntu1 libgoogle-perftools-dev_2.5-2.2ubuntu3 libgoogle-perftools4_2.5-2.2ubuntu3 libgpg-error0_1.32-1 libgraphite2-3_1.3.11-2 libgraphite2-dev_1.3.11-2 libgs9_9.22~dfsg+1-0ubuntu1.1 libgs9-common_9.22~dfsg+1-0ubuntu1.1 libgssapi-krb5-2_1.16-2build1 libgssapi3-heimdal_7.5.0+dfsg-2 libharfbuzz-dev_1.8.3-1 libharfbuzz-gobject0_1.8.3-1 libharfbuzz-icu0_1.8.3-1 libharfbuzz0b_1.8.3-1 libhcrypto4-heimdal_7.5.0+dfsg-2 libheimbase1-heimdal_7.5.0+dfsg-2 libheimntlm0-heimdal_7.5.0+dfsg-2 libhogweed4_3.4-1 libhx509-5-heimdal_7.5.0+dfsg-2 libice6_2:1.0.9-2 libicu-dev_60.2-6ubuntu1 libicu-le-hb-dev_1.0.3+git161113-5 libicu-le-hb0_1.0.3+git161113-5 libicu60_60.2-6ubuntu1 libiculx60_60.2-6ubuntu1 libidn11_1.33-2.1ubuntu1 libidn2-0_2.0.4-1.1build2 libijs-0.35_0.35-13 libip4tc0_1.6.1-2ubuntu2 libisl19_0.19-1 libitm1_8.1.0-10ubuntu1 libjbig0_2.1-3.1build1 libjbig2dec0_0.14-1 libjpeg-turbo8_1.5.2-0ubuntu6 libjpeg8_8c-2ubuntu8 libjson-c3_0.12.1-1.3 libk5crypto3_1.16-2build1 libkeyutils1_1.5.9-9.2ubuntu3 libkmod2_25-1ubuntu1 libkpathsea6_2018.20180710.48169-1 libkrb5-26-heimdal_7.5.0+dfsg-2 libkrb5-3_1.16-2build1 libkrb5support0_1.16-2build1 libksba8_1.3.5-2 liblcms2-2_2.9-2 libldap-2.4-2_2.4.46+dfsg-5ubuntu1 libldap-common_2.4.46+dfsg-5ubuntu1 liblockfile-bin_1.14-1.1 liblockfile1_1.14-1.1 liblsan0_8.1.0-10ubuntu1 liblz4-1_1.8.2-1ubuntu1 liblzma-dev_5.2.2-1.3 liblzma5_5.2.2-1.3 libmagic-mgc_1:5.33-3 libmagic1_1:5.33-3 libmime-charset-perl_1.012.2-1 libmount1_2.32-0.1ubuntu1 libmpc3_1.1.0-1 libmpdec2_2.4.2-2 libmpfr6_4.0.1-1 libmpx2_8.1.0-10ubuntu1 libncurses5_6.1+20180210-4ubuntu1 libncurses6_6.1+20180210-4ubuntu1 libncursesw5_6.1+20180210-4ubuntu1 libncursesw6_6.1+20180210-4ubuntu1 libnettle6_3.4-1 libnpth0_1.5-4 libp11-kit0_0.23.12-2 libpam-modules_1.1.8-3.6ubuntu2 libpam-modules-bin_1.1.8-3.6ubuntu2 libpam-runtime_1.1.8-3.6ubuntu2 libpam0g_1.1.8-3.6ubuntu2 libpaper-utils_1.1.24+nmu5ubuntu1 libpaper1_1.1.24+nmu5ubuntu1 libpcre16-3_2:8.39-9 libpcre3_2:8.39-9 libpcre3-dev_2:8.39-9 libpcre32-3_2:8.39-9 libpcrecpp0v5_2:8.39-9 libperl5.26_5.26.2-6 libpipeline1_1.5.0-1 libpixman-1-0_0.34.0-2 libpng16-16_1.6.34-2 libpotrace0_1.15-1 libprocps6_2:3.3.12-3ubuntu1 libprocps7_2:3.3.15-2ubuntu1 libptexenc1_2018.20180710.48169-1 libpython-stdlib_2.7.15-3 libpython2-stdlib_2.7.15-3 libpython2.7-minimal_2.7.15-1 libpython2.7-stdlib_2.7.15-1 libpython3-stdlib_3.6.6-1 libpython3.6-minimal_3.6.6-1 libpython3.6-stdlib_3.6.6-1 libquadmath0_8.1.0-10ubuntu1 libreadline7_7.0-5 libroken18-heimdal_7.5.0+dfsg-2 libsasl2-2_2.1.27~101-g0780600+dfsg-3ubuntu2 libsasl2-modules-db_2.1.27~101-g0780600+dfsg-3ubuntu2 libseccomp2_2.3.3-3ubuntu1 libselinux1_2.8-1build1 libsemanage-common_2.8-1build1 libsemanage1_2.8-1build1 libsepol1_2.8-1 libsigsegv2_2.12-2 libslang2_2.3.2-1ubuntu1 libsm6_2:1.2.2-1 libsmartcols1_2.32-0.1ubuntu1 libsombok3_2.4.0-2 libsqlite3-0_3.24.0-1 libss2_1.44.3-1 libssl1.1_1.1.0g-2ubuntu5 libstdc++-7-dev_7.3.0-25ubuntu1 libstdc++-8-dev_8.1.0-10ubuntu1 libstdc++6_8.1.0-10ubuntu1 libsynctex2_2018.20180710.48169-1 libsystemd0_238-5ubuntu2 libtasn1-6_4.13-3 libtcmalloc-minimal4_2.5-2.2ubuntu3 libtexlua52_2018.20180710.48169-1 libtexlua53_2018.20180710.48169-1 libtexluajit2_2018.20180710.48169-1 libthai-data_0.1.27-2 libthai0_0.1.27-2 libtiff5_4.0.9-6 libtimedate-perl_2.3000-2 libtinfo5_6.1+20180210-4ubuntu1 libtinfo6_6.1+20180210-4ubuntu1 libtool_2.4.6-2.1build1 libtsan0_8.1.0-10ubuntu1 libubsan0_7.3.0-25ubuntu1 libubsan1_8.1.0-10ubuntu1 libudev1_238-5ubuntu2 libunicode-linebreak-perl_0.0.20170401-1 libunistring2_0.9.9-0ubuntu1 libunwind-dev_1.2.1-8 libunwind8_1.2.1-8 libusb-0.1-4_2:0.1.12-32 libuuid1_2.32-0.1ubuntu1 libwind0-heimdal_7.5.0+dfsg-2 libx11-6_2:1.6.5-1 libx11-data_2:1.6.5-1 libxau6_1:1.0.8-1 libxaw7_2:1.0.13-1 libxcb-render0_1.13-1 libxcb-shm0_1.13-1 libxcb1_1.13-1 libxdmcp6_1:1.1.2-3 libxext6_2:1.3.3-1 libxi6_2:1.7.9-1 libxml2_2.9.4+dfsg1-7build1 libxmu6_2:1.1.2-2 libxpm4_1:3.5.12-1 libxrender1_1:0.9.10-1 libxslt1.1_1.1.32-2 libxt6_1:1.1.5-1 libzstd1_1.3.3+dfsg-2ubuntu1 libzzip-0-13_0.13.62-3.1ubuntu1 linux-libc-dev_4.17.0-5.6 lockfile-progs_0.1.17build1 login_1:4.5-1ubuntu1 lsb-base_9.20170808ubuntu1 m4_1.4.18-1 make_4.2.1-1.1 man-db_2.8.3-2 mawk_1.3.3-17ubuntu3 mime-support_3.60ubuntu1 mount_2.32-0.1ubuntu1 multiarch-support_2.27-3ubuntu1 ncurses-base_6.1+20180210-4ubuntu1 ncurses-bin_6.1+20180210-4ubuntu1 openssl_1.1.0g-2ubuntu5 optipng_0.7.6-1.1 passwd_1:4.5-1ubuntu1 patch_2.7.6-2ubuntu1 perl_5.26.2-6 perl-base_5.26.2-6 perl-modules-5.26_5.26.2-6 pinentry-curses_1.1.0-1build2 pkg-config_0.29.1-0ubuntu2 pkgbinarymangler_141 po-debconf_1.0.20 policyrcd-script-zg2_0.1-3 poppler-data_0.4.9-2 preview-latex-style_11.91-1ubuntu1 procps_2:3.3.15-2ubuntu1 python_2.7.15-3 python-apt_1.7.0~alpha2ubuntu2 python-apt-common_1.7.0~alpha2ubuntu2 python-minimal_2.7.15-3 python2_2.7.15-3 python2-minimal_2.7.15-3 python2.7_2.7.15-1 python2.7-minimal_2.7.15-1 python3_3.6.6-1 python3-distutils_3.6.6-1 python3-lib2to3_3.6.6-1 python3-minimal_3.6.6-1 python3.6_3.6.6-1 python3.6-minimal_3.6.6-1 readline-common_7.0-5 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-mira-dummy_0.invalid.0 sed_4.5-1 sensible-utils_0.0.12 sgml-base_1.29 sgml-data_2.0.11 systemd_238-5ubuntu2 systemd-sysv_238-5ubuntu2 sysv-rc_2.88dsf-59.3ubuntu2 sysvinit-utils_2.88dsf-59.10ubuntu1 t1utils_1.41-2 tar_1.30+dfsg-2 tex-common_6.09 texlive_2018.20180505-1 texlive-base_2018.20180505-1 texlive-bibtex-extra_2018.20180505-1 texlive-binaries_2018.20180710.48169-1 texlive-extra-utils_2018.20180505-1 texlive-fonts-recommended_2018.20180505-1 texlive-lang-greek_2018.20180505-1 texlive-latex-base_2018.20180505-1 texlive-latex-extra_2018.20180505-1 texlive-latex-recommended_2018.20180505-1 texlive-pictures_2018.20180505-1 texlive-science_2018.20180505-1 tzdata_2018e-1 ubuntu-keyring_2018.02.28 ucf_3.0038 util-linux_2.32-0.1ubuntu1 vim-common_2:8.0.1766-1ubuntu1 x11-common_1:7.7+19ubuntu8 xdg-utils_1.1.3-1ubuntu1 xml-core_0.18 xsltproc_1.1.32-2 xxd_2:8.0.1766-1ubuntu1 xz-utils_5.2.2-1.3 zlib1g_1:1.2.11.dfsg-0ubuntu2 zlib1g-dev_1:1.2.11.dfsg-0ubuntu2 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Tue Jul 17 13:24:26 2018 UTC gpgv: using RSA key D56571B88A8BBAF140BF63D6BD7EAA60778FA6F5 gpgv: issuer "doko@ubuntu.com" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./mira_4.9.6-3build3.dsc dpkg-source: info: extracting mira in mira-4.9.6 dpkg-source: info: unpacking mira_4.9.6.orig.tar.bz2 dpkg-source: info: unpacking mira_4.9.6-3build3.debian.tar.xz dpkg-source: info: applying spelling.patch dpkg-source: info: applying sls-rrna-fix dpkg-source: info: applying man-directory Check disc 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-15138244 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-15138244 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-15138244 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package mira dpkg-buildpackage: info: source version 4.9.6-3build3 dpkg-buildpackage: info: source distribution cosmic dpkg-source --before-build mira-4.9.6 dpkg-buildpackage: info: host architecture amd64 fakeroot debian/rules clean dh clean --with autoreconf --parallel debian/rules override_dh_auto_clean make[1]: Entering directory '/<>' ( cd doc ; make clean ) || true make[2]: Entering directory '/<>/doc' cd .. && make am--refresh make[3]: Entering directory '/<>' make[3]: *** No rule to make target 'am--refresh'. Stop. make[3]: Leaving directory '/<>' make[2]: *** [Makefile:263: ../config.status] Error 2 make[2]: Leaving directory '/<>/doc' dh_auto_clean || true find * -name Makefile -exec rm '{}' ';' find * -name '*.xxd.H' -exec rm '{}' ';' find * -name '*.par.H' -exec rm '{}' ';' find * -name 'compileinfo.*' -exec rm '{}' ';' make[1]: Leaving directory '/<>' dh_clean rm -f debian/debhelper-build-stamp rm -rf debian/.debhelper/ rm -f -- debian/mira-assembler.substvars debian/mira-rfam-12s-rrna.substvars debian/mira-doc.substvars debian/files rm -fr -- debian/mira-assembler/ debian/tmp/ debian/mira-rfam-12s-rrna/ debian/mira-doc/ find . \( \( \ \( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \ \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \ -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \ -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \ -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \ \) -exec rm -f {} + \) -o \ \( -type d -a -name autom4te.cache -prune -exec rm -rf {} + \) \) debian/rules build dh build --with autoreconf --parallel dh_update_autotools_config install -d debian/.debhelper/bucket/files cp -an --reflink=auto config.guess debian/.debhelper/bucket/files/9be3de218833c076786b919dc34aab691611f4cd73316e7705f2673e2c41921b.tmp mv debian/.debhelper/bucket/files/9be3de218833c076786b919dc34aab691611f4cd73316e7705f2673e2c41921b.tmp debian/.debhelper/bucket/files/9be3de218833c076786b919dc34aab691611f4cd73316e7705f2673e2c41921b cp -f /usr/share/misc/config.guess ./config.guess cp -an --reflink=auto config.sub debian/.debhelper/bucket/files/e308ae7f7f524bd790f8d4457c7c0a30f8403ffff4dd0b7d4388daca24275db4.tmp mv debian/.debhelper/bucket/files/e308ae7f7f524bd790f8d4457c7c0a30f8403ffff4dd0b7d4388daca24275db4.tmp debian/.debhelper/bucket/files/e308ae7f7f524bd790f8d4457c7c0a30f8403ffff4dd0b7d4388daca24275db4 cp -f /usr/share/misc/config.sub ./config.sub dh_autoreconf find ! -ipath "./debian/*" -a ! \( -path '*/.git/*' -o -path '*/.hg/*' -o -path '*/.bzr/*' -o -path '*/.svn/*' -o -path '*/CVS/*' \) -a -type f -exec md5sum {} + -o -type l -printf "symlink %p " > debian/autoreconf.before grep -q ^XDT_ configure.ac autoreconf -f -i libtoolize: putting auxiliary files in '.'. libtoolize: copying file './ltmain.sh' libtoolize: putting macros in AC_CONFIG_MACRO_DIRS, 'm4'. libtoolize: copying file 'm4/libtool.m4' libtoolize: copying file 'm4/ltoptions.m4' libtoolize: copying file 'm4/ltsugar.m4' libtoolize: copying file 'm4/ltversion.m4' libtoolize: copying file 'm4/lt~obsolete.m4' configure.ac:103: installing './compile' configure.ac:9: installing './missing' doc/docbook/Makefile.am:22: warning: '%'-style pattern rules are a GNU make extension src/caf/Makefile.am: installing './depcomp' src/io/Makefile.am:12: warning: '%'-style pattern rules are a GNU make extension src/mira/Makefile.am:10: warning: '%'-style pattern rules are a GNU make extension find ! -ipath "./debian/*" -a ! \( -path '*/.git/*' -o -path '*/.hg/*' -o -path '*/.bzr/*' -o -path '*/.svn/*' -o -path '*/CVS/*' \) -a -type f -exec md5sum {} + -o -type l -printf "symlink %p " > debian/autoreconf.after dh_auto_configure ./configure --build=x86_64-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-silent-rules --libdir=\${prefix}/lib/x86_64-linux-gnu --libexecdir=\${prefix}/lib/x86_64-linux-gnu --disable-maintainer-mode --disable-dependency-tracking configure: WARNING: unrecognized options: --disable-maintainer-mode checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking whether UID '2001' is supported by ustar format... yes checking whether GID '2501' is supported by ustar format... yes checking how to create a ustar tar archive... gnutar checking for a sed that does not truncate output... /bin/sed checking whether to add --prefix as include path... yes +++++++++++++++++++++++++++++++++++++ systemuname: Linux CFLAGS now: -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include CXXFLAGS now: -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include LDFLAGS now: -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -L/usr/lib +++++++++++++++++++++++++++++++++++++ checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking whether gcc understands -c and -o together... yes checking for style of include used by make... GNU checking dependency style of gcc... none checking for g++... g++ checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking dependency style of g++... none checking for OpenMP flag of C compiler... -fopenmp Rescuing C++ flags for OpenMP +++++++++++++++++++++++++++++++++++++ OpenMP CFLAGS: -fopenmp OpenMP CXXFLAGS: -fopenmp +++++++++++++++++++++++++++++++++++++ +++++++++++++++++++++++++++++++++++++ systemuname: Linux CFLAGS now: -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include CXXFLAGS now: -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include LDFLAGS now: -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -L/usr/lib +++++++++++++++++++++++++++++++++++++ checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking for int64_t... yes +++++++++++++++++++++++++++++++++++++ CFLAGS now: -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include CXXFLAGS now: -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include LDFLAGS now: -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -L/usr/lib +++++++++++++++++++++++++++++++++++++ checking whether long has 64bit... yes checking whether enabling 64bit compilation support... yes checking build system type... x86_64-pc-linux-gnu checking for compiler optimisation settings... -O3 -funroll-loops +++++++++++++++++++++++++++++++++++++ CFLAGS now: -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops CXXFLAGS now: -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops LDFLAGS now: -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -L/usr/lib +++++++++++++++++++++++++++++++++++++ checking host system type... x86_64-pc-linux-gnu checking how to print strings... printf checking for a sed that does not truncate output... (cached) /bin/sed checking for fgrep... /bin/grep -F checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... 1572864 checking how to convert x86_64-pc-linux-gnu file names to x86_64-pc-linux-gnu format... func_convert_file_noop checking how to convert x86_64-pc-linux-gnu file names to toolchain format... func_convert_file_noop checking for /usr/bin/ld option to reload object files... -r checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for ar... ar checking for archiver @FILE support... @ checking for strip... strip checking for ranlib... ranlib checking command to parse /usr/bin/nm -B output from gcc object... ok checking for sysroot... no checking for a working dd... /bin/dd checking how to truncate binary pipes... /bin/dd bs=4096 count=1 checking for mt... no checking if : is a manifest tool... no checking for dlfcn.h... yes checking for objdir... .libs checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC -DPIC checking if gcc PIC flag -fPIC -DPIC works... yes checking if gcc static flag -static works... yes checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... yes checking how to run the C++ preprocessor... g++ -E checking for ld used by g++... /usr/bin/ld -m elf_x86_64 checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking for g++ option to produce PIC... -fPIC -DPIC checking if g++ PIC flag -fPIC -DPIC works... yes checking if g++ static flag -static works... yes checking if g++ supports -c -o file.o... yes checking if g++ supports -c -o file.o... (cached) yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether make sets $(MAKE)... (cached) yes checking whether ln -s works... yes checking for flex... yes checking for flex... flex checking lex output file root... lex.yy checking lex library... -lfl checking whether yytext is a pointer... yes checking for flex++... yes checking for xxd... yes checking for ANSI C header files... (cached) yes checking for stdbool.h that conforms to C99... yes checking for _Bool... yes checking for an ANSI C-conforming const... yes checking for inline... inline checking for C/C++ restrict keyword... __restrict checking whether struct tm is in sys/time.h or time.h... time.h checking for stdlib.h... (cached) yes checking for GNU libc compatible malloc... yes checking for stdlib.h... (cached) yes checking for GNU libc compatible realloc... yes checking whether lstat correctly handles trailing slash... yes checking whether stat accepts an empty string... no checking for strftime... yes checking for floor... no checking for memset... yes checking for pow... no checking for sqrt... no checking for special C compiler options needed for large files... no checking for _FILE_OFFSET_BITS value needed for large files... no checking for _LARGEFILE_SOURCE value needed for large files... no checking for isblank... yes +++++++++++++++++++++++++++++++++++++ CFLAGS now: -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops CXXFLAGS now: -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops LDFLAGS now: -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -L/usr/lib +++++++++++++++++++++++++++++++++++++ checking for boostlib >= 1.48.0... yes +++++++++++++++++++++++++++++++++++++ BOOST_CPPFLAGS: -I/usr/include BOOST LDFLAGS: -L/usr/lib/x86_64-linux-gnu ac_boost_path: ac_boost_lib_path: CFLAGS now: -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops CXXFLAGS now: -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops LDFLAGS now: -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -L/usr/lib +++++++++++++++++++++++++++++++++++++ +++++++++++++++++++++++++++++++++++++ BOOST_CPPFLAGS: -I/usr/include BOOST LDFLAGS: -L/usr/lib/x86_64-linux-gnu CFLAGS now: -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -Wl,-rpath, CXXFLAGS now: -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops LDFLAGS now: -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -L/usr/lib +++++++++++++++++++++++++++++++++++++ checking whether the Boost::Thread library is available... yes checking for exit in -lboost_thread... yes +++++++++++++++++++++++++++++++++++++ BOOST_CPPFLAGS: -pthread -I/usr/include BOOST LDFLAGS: -L/usr/lib/x86_64-linux-gnu ac_boost_path: ac_boost_lib_path: BOOST_THREAD_LIB: -lboost_thread CFLAGS now: -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -Wl,-rpath, CXXFLAGS now: -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops LDFLAGS now: -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -L/usr/lib +++++++++++++++++++++++++++++++++++++ +++++++++++++++++++++++++++++++++++++ BOOST_CPPFLAGS: -pthread -I/usr/include BOOST LDFLAGS: -L/usr/lib/x86_64-linux-gnu ac_boost_path: ac_boost_lib_path: BOOST_THREAD_LIB: -lboost_thread CFLAGS now: -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -Wl,-rpath, CXXFLAGS now: -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include LDFLAGS now: -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -L/usr/lib -L/usr/lib/x86_64-linux-gnu LIBS now: -lboost_thread +++++++++++++++++++++++++++++++++++++ checking whether the Boost::Regex library is available... yes checking for exit in -lboost_regex... yes +++++++++++++++++++++++++++++++++++++ BOOST_CPPFLAGS: -pthread -I/usr/include BOOST LDFLAGS: -L/usr/lib/x86_64-linux-gnu ac_boost_path: ac_boost_lib_path: BOOST_REGEX_LIB: -lboost_regex CFLAGS now: -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -Wl,-rpath, CXXFLAGS now: -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include LIBS now: -lboost_thread -lboost_regex +++++++++++++++++++++++++++++++++++++ checking whether the Boost::System library is available... yes checking for exit in -lboost_system... yes +++++++++++++++++++++++++++++++++++++ BOOST_CPPFLAGS: -pthread -I/usr/include BOOST LDFLAGS: -L/usr/lib/x86_64-linux-gnu ac_boost_path: ac_boost_lib_path: BOOST_SYSTEM_LIB: -lboost_system CFLAGS now: -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -Wl,-rpath, CXXFLAGS now: -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include LIBS now: -lboost_thread -lboost_regex -lboost_system +++++++++++++++++++++++++++++++++++++ checking whether the Boost::Filesystem library is available... yes checking for exit in -lboost_filesystem... yes +++++++++++++++++++++++++++++++++++++ BOOST_CPPFLAGS: -pthread -I/usr/include BOOST LDFLAGS: -L/usr/lib/x86_64-linux-gnu ac_boost_path: ac_boost_lib_path: BOOST_FILESYSTEM_LIB: -lboost_filesystem CFLAGS now: -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -Wl,-rpath, CXXFLAGS now: -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include LIBS now: -lboost_thread -lboost_regex -lboost_system -lboost_filesystem +++++++++++++++++++++++++++++++++++++ checking whether the Boost::IOStreams library is available... yes checking for exit in -lboost_iostreams... yes +++++++++++++++++++++++++++++++++++++ BOOST_CPPFLAGS: -pthread -I/usr/include BOOST LDFLAGS: -L/usr/lib/x86_64-linux-gnu ac_boost_path: ac_boost_lib_path: BOOST_IOSTREAMS_LIB: -lboost_iostreams CFLAGS now: -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -Wl,-rpath, CXXFLAGS now: -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include LIBS now: -lboost_thread -lboost_regex -lboost_system -lboost_filesystem -lboost_iostreams +++++++++++++++++++++++++++++++++++++ checking for clock_gettime in -lrt... yes +++++++++++++++++++++++++++++++++++++ Need to specifically use rt library LIBS now: -lboost_thread -lboost_regex -lboost_system -lboost_filesystem -lboost_iostreams -lrt +++++++++++++++++++++++++++++++++++++ BOOST is through, yay. +++++++++++++++++++++++++++++++++++++ CFLAGS now: -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops CXXFLAGS now: -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include LDFLAGS now: -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -L/usr/lib -L/usr/lib/x86_64-linux-gnu LIBS now: -lboost_thread -lboost_regex -lboost_system -lboost_filesystem -lboost_iostreams -lrt +++++++++++++++++++++++++++++++++++++ checking for Expat XML Parser headers in /usr/include... found checking for Expat XML Parser libraries... found checking for Expat XML Parser... yes +++++++++++++++++++++++++++++++++++++ CFLAGS now: -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -I/usr/include CXXFLAGS now: -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include LDFLAGS now: -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -L/usr/lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib LIBS now: -lboost_thread -lboost_regex -lboost_system -lboost_filesystem -lboost_iostreams -lrt -lexpat +++++++++++++++++++++++++++++++++++++ checking if zlib is wanted... yes +++++++++++++++++++++++++++++++++++++ CFLAGS now: -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -I/usr/include CXXFLAGS now: -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include LDFLAGS now: -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -L/usr/lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib LIBS now: -lboost_thread -lboost_regex -lboost_system -lboost_filesystem -lboost_iostreams -lrt -lexpat -lm -lz +++++++++++++++++++++++++++++++++++++ checking for gzoffset in -lz... yes checking for BZ2_bzRead in -lbz2... yes checking for flex version compatible with MIRA... yes checking for profiling settings... no checking for purify... no checking whether mira should compile in public quiet mode... yes checking whether mira should compile with bound tracking... yes checking whether mira should compile with bug tracking... yes checking whether mira should compile with extended bug tracking... no checking whether mira should compile with function trace... no checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating src/other/Makefile config.status: creating src/other/sls/Makefile config.status: creating src/other/sls/mira-createsls/Makefile config.status: creating src/other/sls/mira-createsls/bin/Makefile config.status: creating src/stdinc/Makefile config.status: creating src/debuggersupport/Makefile config.status: creating src/memorc/Makefile config.status: creating src/errorhandling/Makefile config.status: creating src/util/Makefile config.status: creating src/io/Makefile config.status: creating src/mira/Makefile config.status: creating src/caf/Makefile config.status: creating src/support/Makefile config.status: creating src/scripts/Makefile config.status: creating src/modules/Makefile config.status: creating src/version/Makefile config.status: creating src/progs/Makefile config.status: creating man/Makefile config.status: creating doc/Makefile config.status: creating doc/docbook/Makefile config.status: creating distribution/Makefile config.status: executing depfiles commands config.status: executing libtool commands configure: WARNING: unrecognized options: --disable-maintainer-mode -------------------------------------------------------------------------------- Summary of MIRA configuration -------------------------------------------------------------------------------- Building version ................................. 4.9.6_linux-gnu_x86_64_dynamic We are building on ............................... Linux CPU supports 64 bit? ............................. yes Compiler family .................................. gcc Compiler optimisation flags used ................. -O3 -funroll-loops Do we compile in 64 bit? ......................... yes Building completely static? ...................... no BOOST expected to compile and link? .............. yes Have OpenMP? ..................................... yes Have complete zlib support? ...................... yes Can MIRA be built on this system? ................ yes Using CFLAGS : -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -I/usr/include -Werror=uninitialized -Werror=return-type -fopenmp Using CXXFLAGS : -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp Using LDFLAGS : -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -L/usr/lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib Using LIBS : -lboost_thread -lboost_regex -lboost_system -lboost_filesystem -lboost_iostreams -lrt -lexpat -lm -lz -lbz2 Looks good, we do not expect compilation problems. -------------------------------------------------------------------------------- Type 'make' to make the binaries and then 'make install' to install binaries and man pages. Type 'make docinstall' to install extensive documentation as HTML and PDF. debian/rules override_dh_auto_build-arch make[1]: Entering directory '/<>' # some *.cc files are created by old flex version which breaks the build # see bug #812681 find -name '*.ll' | sed -e 's/[.]ll$/.cc/' | xargs rm dh_auto_build make -j4 make[2]: Entering directory '/<>' make all-recursive make[3]: Entering directory '/<>' Making all in man make[4]: Entering directory '/<>/man' make[4]: Nothing to be done for 'all'. make[4]: Leaving directory '/<>/man' Making all in src make[4]: Entering directory '/<>/src' Making all in debuggersupport make[5]: Entering directory '/<>/src/debuggersupport' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o dbgsupport.o dbgsupport.C rm -f libmiradebuggersupport.a ar cru libmiradebuggersupport.a dbgsupport.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libmiradebuggersupport.a make[5]: Leaving directory '/<>/src/debuggersupport' Making all in io make[5]: Entering directory '/<>/src/io' Making .H out of .xxd mira_ft_set.xxd.H Making .H out of .xxd gap4_ft_so_map.xxd.H Reducing so.obo for smaller so.obo.xxd Making .H out of .xxd so2xgap4map.xxd.H Making .H out of .xxd oldso2so.xxd.H Making .H out of .xxd so.obo.xxd.H make all-am make[6]: Entering directory '/<>/src/io' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o annotationmappings.o annotationmappings.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o exp.o exp.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o generalio.o generalio.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o fasta.o fasta.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o fastq-mira.o fastq-mira.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o phd.o phd.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o scf.o scf.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o ncbiinfoxml.o ncbiinfoxml.C /bin/bash ../../ylwrap exp_flexer.ll lex.yy.c exp_flexer.cc -- flex g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o exp_flexer.o exp_flexer.cc rm -f libmirafio.a ar cru libmirafio.a annotationmappings.o exp.o generalio.o fasta.o fastq-mira.o phd.o scf.o ncbiinfoxml.o exp_flexer.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libmirafio.a make[6]: Leaving directory '/<>/src/io' make[5]: Leaving directory '/<>/src/io' Making all in stdinc make[5]: Entering directory '/<>/src/stdinc' make[5]: Nothing to be done for 'all'. make[5]: Leaving directory '/<>/src/stdinc' Making all in errorhandling make[5]: Entering directory '/<>/src/errorhandling' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o errorhandling.o errorhandling.C rm -f libmiraerrorhandling.a ar cru libmiraerrorhandling.a errorhandling.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libmiraerrorhandling.a make[5]: Leaving directory '/<>/src/errorhandling' Making all in util make[5]: Entering directory '/<>/src/util' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o machineinfo.o machineinfo.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o fileanddisk.o fileanddisk.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o misc.o misc.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o dptools.o dptools.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o fmttext.o fmttext.C rm -f libmirafmttext.a ar cru libmirafmttext.a fmttext.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libmirafmttext.a rm -f libmiradptools.a ar cru libmiradptools.a dptools.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libmiradptools.a fileanddisk.C: In function ‘int64 myGZRead(gzFile_s*&, void*, uint64)’: fileanddisk.C:173:12: warning: ignoring return value of ‘char* strerror_r(int, char*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] strerror_r(errno,buf,1024); ~~~~~~~~~~^~~~~~~~~~~~~~~~ rm -f libmirautil.a ar cru libmirautil.a machineinfo.o fileanddisk.o misc.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libmirautil.a make[5]: Leaving directory '/<>/src/util' Making all in mira make[5]: Entering directory '/<>/src/mira' Making .H out of .xxd adaptorsforclip.454.xxd.H Making .H out of .xxd adaptorsforclip.solexa.xxd.H Making .H out of .xxd adaptorsforclip.iontor.xxd.H Making .H out of .xxd adaptorsregex.solexa.xxd.H Making .H out of .xxd adaptorsregex.iontor.xxd.H Making .H out of .xxd seqforfilter_phix174.solexa.xxd.H make all-am make[6]: Entering directory '/<>/src/mira' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o estassembly.o estassembly.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o hashstats_sdbg.o hashstats_sdbg.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o hashstats.o hashstats.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o skim.o skim.C hashstats.C:1088: warning: "CEBUG" redefined #define CEBUG(bla) {cout << bla; cout.flush();} hashstats.C:83: note: this is the location of the previous definition #define CEBUG(bla) hashstats.C:1197: warning: "CEBUG" redefined #define CEBUG(bla) hashstats.C:1088: note: this is the location of the previous definition #define CEBUG(bla) {cout << bla; cout.flush();} g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o assembly.o assembly.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o contig.o contig.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o read.o read.C read.C: In member function ‘void Read::dumpAsReadname(std::ostream&)’: read.C:1242:23: warning: format ‘%x’ expects argument of type ‘unsigned int’, but argument 3 has type ‘Read*’ [-Wformat=] sprintf(buffer, "%x", this) ; ^~~~ read.C: In member function ‘void Read::dumpAsFASTA(std::ostream&, bool, bool, bool)’: read.C:1273:23: warning: format ‘%x’ expects argument of type ‘unsigned int’, but argument 3 has type ‘Read*’ [-Wformat=] sprintf(buffer, "%x", this) ; ^~~~ read.C: In member function ‘void Read::dumpAsFASTQ(std::ostream&, bool, bool, bool)’: read.C:1357:23: warning: format ‘%x’ expects argument of type ‘unsigned int’, but argument 3 has type ‘Read*’ [-Wformat=] sprintf(buffer, "%x", this) ; ^~~~ read.C: In member function ‘void Read::dumpAsFASTAQual(std::ostream&, bool, bool, bool)’: read.C:1458:23: warning: format ‘%x’ expects argument of type ‘unsigned int’, but argument 3 has type ‘Read*’ [-Wformat=] sprintf(buffer, "%x", this) ; ^~~~ read.C: In member function ‘void Read::dumpAsCAF(std::ostream&)’: read.C:1530:23: warning: format ‘%x’ expects argument of type ‘unsigned int’, but argument 3 has type ‘Read*’ [-Wformat=] sprintf(buffer, "%x", this) ; ^~~~ read.C: In member function ‘void Read::dumpAsMAF(std::ostream&)’: read.C:1945:23: warning: format ‘%x’ expects argument of type ‘unsigned int’, but argument 3 has type ‘Read*’ [-Wformat=] sprintf(buffer, "%x", this) ; ^~~~ g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o contig_analysis.o contig_analysis.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o ads.o ads.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o adsfacts.o adsfacts.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o align.o align.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o assembly_info.o assembly_info.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o assembly_buildcontigs.o assembly_buildcontigs.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o assembly_io.o assembly_io.C assembly_buildcontigs.C:80: warning: "CEBUG" redefined #define CEBUG(bla) {cout << bla; cout.flush(); } assembly_buildcontigs.C:55: note: this is the location of the previous definition #define CEBUG(bla) assembly_buildcontigs.C:1251: warning: "CEBUG" redefined #define CEBUG(bla) assembly_buildcontigs.C:80: note: this is the location of the previous definition #define CEBUG(bla) {cout << bla; cout.flush(); } assembly_buildcontigs.C:1332: warning: "CEBUG" redefined #define CEBUG(bla) {cout << bla; cout.flush(); } assembly_buildcontigs.C:1251: note: this is the location of the previous definition #define CEBUG(bla) assembly_buildcontigs.C:1485: warning: "CEBUG" redefined #define CEBUG(bla) assembly_buildcontigs.C:1332: note: this is the location of the previous definition #define CEBUG(bla) {cout << bla; cout.flush(); } assembly_buildcontigs.C:1496: warning: "CEBUG" redefined #define CEBUG(bla) {cout << bla; cout.flush(); } assembly_buildcontigs.C:1485: note: this is the location of the previous definition #define CEBUG(bla) assembly_buildcontigs.C:1621: warning: "CEBUG" redefined #define CEBUG(bla) assembly_buildcontigs.C:1496: note: this is the location of the previous definition #define CEBUG(bla) {cout << bla; cout.flush(); } assembly_buildcontigs.C:2304: warning: "VCOUT" redefined #define VCOUT(bla) assembly_buildcontigs.C:2043: note: this is the location of the previous definition #define VCOUT(bla) {if(verbose) {cout << bla;} } g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o assembly_misc.o assembly_misc.C assembly_misc.C:1871: warning: "CEBUG" redefined #define CEBUG(bla) {cout << bla; cout.flush();} assembly_misc.C:55: note: this is the location of the previous definition #define CEBUG(bla) assembly_misc.C:1905: warning: "CEBUG" redefined #define CEBUG(bla) assembly_misc.C:1871: note: this is the location of the previous definition #define CEBUG(bla) {cout << bla; cout.flush();} g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o assembly_output.o assembly_output.C assembly_misc.C: In member function ‘void Assembly::priv_phahelper(const string&, const string&, uint32, bool, int32, std::__cxx11::string, std::__cxx11::string, std::__cxx11::string)’: assembly_misc.C:376:17: warning: use of an operand of type ‘bool’ in ‘operator++’ is deprecated [-Wdeprecated] countedthisseq++; ^~ assembly_misc.C: In instantiation of ‘void Assembly::priv_phahelper(const string&, const string&, uint32, bool, int32, std::__cxx11::string, std::__cxx11::string, std::__cxx11::string) [with TVHASH_T = long unsigned int; std::__cxx11::string = std::__cxx11::basic_string; uint32 = unsigned int; int32 = int]’: assembly_misc.C:471:118: required from here assembly_misc.C:376:17: warning: use of an operand of type ‘bool’ in ‘operator++’ is deprecated [-Wdeprecated] countedthisseq++; ~~~~~~~~~~~~~~^~ assembly_misc.C: In instantiation of ‘void Assembly::priv_phahelper(const string&, const string&, uint32, bool, int32, std::__cxx11::string, std::__cxx11::string, std::__cxx11::string) [with TVHASH_T = VLuint<128>; std::__cxx11::string = std::__cxx11::basic_string; uint32 = unsigned int; int32 = int]’: assembly_misc.C:473:119: required from here assembly_misc.C:376:17: warning: use of an operand of type ‘bool’ in ‘operator++’ is deprecated [-Wdeprecated] assembly_misc.C: In instantiation of ‘void Assembly::priv_phahelper(const string&, const string&, uint32, bool, int32, std::__cxx11::string, std::__cxx11::string, std::__cxx11::string) [with TVHASH_T = VLuint<256>; std::__cxx11::string = std::__cxx11::basic_string; uint32 = unsigned int; int32 = int]’: assembly_misc.C:475:119: required from here assembly_misc.C:376:17: warning: use of an operand of type ‘bool’ in ‘operator++’ is deprecated [-Wdeprecated] assembly_misc.C: In instantiation of ‘void Assembly::priv_phahelper(const string&, const string&, uint32, bool, int32, std::__cxx11::string, std::__cxx11::string, std::__cxx11::string) [with TVHASH_T = VLuint<512>; std::__cxx11::string = std::__cxx11::basic_string; uint32 = unsigned int; int32 = int]’: assembly_misc.C:477:119: required from here assembly_misc.C:376:17: warning: use of an operand of type ‘bool’ in ‘operator++’ is deprecated [-Wdeprecated] g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o assembly_pbcorrect.o assembly_pbcorrect.C assembly_pbcorrect.C:59: warning: "CEBUG" redefined #define CEBUG(bla) { if(docebug) {cout << bla; cout.flush();}} assembly_pbcorrect.C:45: note: this is the location of the previous definition #define CEBUG(bla) g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o assembly_reduceskimhits.o assembly_reduceskimhits.C assembly_reduceskimhits.C:1111: warning: "CEBUG" redefined #define CEBUG(bla) {cout << bla; cout.flush();} assembly_reduceskimhits.C:878: note: this is the location of the previous definition #define CEBUG(bla) assembly_reduceskimhits.C:1151: warning: "CEBUG" redefined #define CEBUG(bla) assembly_reduceskimhits.C:1111: note: this is the location of the previous definition #define CEBUG(bla) {cout << bla; cout.flush();} assembly_reduceskimhits.C:2742: warning: "CEBUG" redefined #define CEBUG(bla) {cout << bla; cout.flush();} assembly_reduceskimhits.C:1151: note: this is the location of the previous definition #define CEBUG(bla) assembly_reduceskimhits.C:2760: warning: "CEBUG" redefined #define CEBUG(bla) assembly_reduceskimhits.C:2742: note: this is the location of the previous definition #define CEBUG(bla) {cout << bla; cout.flush();} assembly_reduceskimhits.C:2764: warning: "CEBUG" redefined #define CEBUG(bla) {cout << bla; cout.flush();} assembly_reduceskimhits.C:2760: note: this is the location of the previous definition #define CEBUG(bla) assembly_reduceskimhits.C:2803: warning: "CEBUG" redefined #define CEBUG(bla) assembly_reduceskimhits.C:2764: note: this is the location of the previous definition #define CEBUG(bla) {cout << bla; cout.flush();} assembly_reduceskimhits.C:2808: warning: "CEBUG" redefined #define CEBUG(bla) {cout << bla; cout.flush();} assembly_reduceskimhits.C:2803: note: this is the location of the previous definition #define CEBUG(bla) assembly_reduceskimhits.C:2887: warning: "CEBUG" redefined #define CEBUG(bla) assembly_reduceskimhits.C:2808: note: this is the location of the previous definition #define CEBUG(bla) {cout << bla; cout.flush();} g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o assembly_swalign.o assembly_swalign.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o contig_consensus.o contig_consensus.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o contig_covanalysis.o contig_covanalysis.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o contig_edit.o contig_edit.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o contig_featureinfo.o contig_featureinfo.C contig_featureinfo.C:512: warning: "CEBUGF2" redefined #define CEBUGF2 contig_featureinfo.C:473: note: this is the location of the previous definition #define CEBUGF2(bla) g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o contig_output.o contig_output.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o contig_pairconsistency.o contig_pairconsistency.C contig_pairconsistency.C:313: warning: "CEBUG" redefined #define CEBUG(bla) contig_pairconsistency.C:34: note: this is the location of the previous definition #define CEBUG(bla) {cout << bla; cout.flush();} contig_pairconsistency.C:315: warning: "CEBUG" redefined #define CEBUG(bla) {cout << bla; cout.flush();} contig_pairconsistency.C:313: note: this is the location of the previous definition #define CEBUG(bla) contig_pairconsistency.C:399: warning: "CEBUG" redefined #define CEBUG(bla) contig_pairconsistency.C:315: note: this is the location of the previous definition #define CEBUG(bla) {cout << bla; cout.flush();} g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o dataprocessing.o dataprocessing.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o dynamic.o dynamic.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o gbf_parse.o gbf_parse.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o gff_parse.o gff_parse.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o gff_save.o gff_save.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o maf_parse.o maf_parse.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o manifest.o manifest.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o multitag.o multitag.C /bin/bash ../../ylwrap parameters_flexer.ll lex.yy.c parameters_flexer.cc -- flex g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o parameters.o parameters.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o pcrcontainer.o pcrcontainer.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o ppathfinder.o ppathfinder.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o preventinitfiasco.o preventinitfiasco.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o readgrouplib.o readgrouplib.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o readlotstat.o readlotstat.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o readpool.o readpool.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o readpool_io.o readpool_io.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o sam_collect.o sam_collect.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o scaffolder.o scaffolder.C scaffolder.C:203: warning: "CEBUG" redefined #define CEBUG(bla) scaffolder.C:84: note: this is the location of the previous definition #define CEBUG(bla) {cout << bla; cout.flush(); } g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o seqtohash.o seqtohash.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o simplebloomfilter.o simplebloomfilter.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o skim_lowbph.o skim_lowbph.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o warnings.o warnings.C rm -f libmiraestass.a ar cru libmiraestass.a estassembly.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libmiraestass.a g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o parameters_flexer.o parameters_flexer.cc rm -f libmira.a ar cru libmira.a hashstats_sdbg.o hashstats.o skim.o assembly.o contig.o read.o contig_analysis.o ads.o adsfacts.o align.o assembly_info.o assembly_buildcontigs.o assembly_io.o assembly_misc.o assembly_output.o assembly_pbcorrect.o assembly_reduceskimhits.o assembly_swalign.o contig_consensus.o contig_covanalysis.o contig_edit.o contig_featureinfo.o contig_output.o contig_pairconsistency.o dataprocessing.o dynamic.o gbf_parse.o gff_parse.o gff_save.o maf_parse.o manifest.o multitag.o parameters_flexer.o parameters.o pcrcontainer.o ppathfinder.o preventinitfiasco.o readgrouplib.o readlotstat.o readpool.o readpool_io.o sam_collect.o scaffolder.o seqtohash.o simplebloomfilter.o skim_lowbph.o warnings.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libmira.a make[6]: Leaving directory '/<>/src/mira' make[5]: Leaving directory '/<>/src/mira' Making all in caf make[5]: Entering directory '/<>/src/caf' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o caf.o caf.C /bin/bash ../../ylwrap caf_flexer.ll lex.yy.c caf_flexer.cc -- flex g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o caf_flexer.o caf_flexer.cc rm -f libmiracaf.a ar cru libmiracaf.a caf.o caf_flexer.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libmiracaf.a make[5]: Leaving directory '/<>/src/caf' Making all in memorc make[5]: Entering directory '/<>/src/memorc' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o memorc.o memorc.C memorc.C: In static member function ‘static void MemORC::statistics()’: memorc.C:153:10: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64’ {aka ‘long unsigned int’} [-Wformat=] printf("Current alloc counter : %llu\n", MOC_alloccounter); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~ memorc.C:154:10: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64’ {aka ‘long unsigned int’} [-Wformat=] printf("Total checks performed : %llu\n", MOC_checksperformed); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~ memorc.C:155:10: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘std::map::size_type’ {aka ‘long unsigned int’} [-Wformat=] printf("Num. memory blocks : %llu\n", MOC_memblocks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~ memorc.C:156:10: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘std::map::size_type’ {aka ‘long unsigned int’} [-Wformat=] printf("Num. active hot blocks : %llu\n", MOC_hotblocks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~ memorc.C:157:10: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wformat=] printf("Num. pending hot blocks: %llu\n", MOC_hotaidsrequested.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~ memorc.C:158:10: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] printf("Total mem reqested : %llu\n", MOC_reqmemalloc); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~ memorc.C:159:10: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] printf("Total mem allocated : %llu (including pads and fences)\n", MOC_totalmemalloc); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~ memorc.C: In static member function ‘static void* MemORC::newMemBlock(size_t)’: memorc.C:225:14: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] printf("Used malloc()\nTried to allocate %llu byte.\nSorry, memory allocation failed. Bailing out.\n", totaln); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~ memorc.C: In static member function ‘static void MemORC::deleteMemBlock(void*)’: memorc.C:311:9: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘uint64’ {aka ‘long unsigned int’} [-Wformat=] printf("Nearest memblock above (%d):\t",reinterpret_cast(mbI->first)-reinterpret_cast(usraddr)); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ memorc.C:318:9: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘uint64’ {aka ‘long unsigned int’} [-Wformat=] printf("Nearest memblock below (-%d):\t",reinterpret_cast(usraddr)-reinterpret_cast(mbI->first)); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ memorc.C: In static member function ‘static bool MemORC::checkMemBlock(std::map::iterator)’: memorc.C:430:9: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=] printf("check: lower fence .0 destroyed at position: %d\tExpected: %x\tGot: %x\n", i*sizeof(int32),MOC_clowfencemagic[0], *fencecptr); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~ memorc.C:433:9: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=] printf("check: lower fence .1 destroyed at position: %d\tExpected: %x\tGot: %x\n", i*sizeof(int32)+1,MOC_clowfencemagic[1], *fencecptr); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~ memorc.C:436:9: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=] printf("check: lower fence .2 destroyed at position: %d\tExpected: %x\tGot: %x\n", i*sizeof(int32)+2,MOC_clowfencemagic[2], *fencecptr); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~ memorc.C:439:9: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=] printf("check: lower fence .3 destroyed at position: %d\tExpected: %x\tGot: %x\n", i*sizeof(int32)+3,MOC_clowfencemagic[3], *fencecptr); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~ memorc.C:500:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] printf("Size: %llu\n", mbI->second.size); ^~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~ memorc.C:501:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64’ {aka ‘long unsigned int’} [-Wformat=] printf("AllocID: %llu\n", mbI->second.allocid); ^~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~ memorc.C: In static member function ‘static void MemORC::printMemBlockInfo(std::map::iterator)’: memorc.C:558:10: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 3 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%p\t%llu\t",mbI->first,mbI->second.size); ^~~~~~~~~~~~ ~~~~~~~~~~~~~~~~ memorc.C:564:10: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64’ {aka ‘long unsigned int’} [-Wformat=] printf("\t%llu\n",mbI->second.allocid); ^~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~ rm -f libmemorc.a g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o main.o main.C ar cru libmemorc.a memorc.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libmemorc.a /bin/bash ../../libtool --tag=CXX --mode=link g++ -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../caf/ -L/usr/lib/x86_64-linux-gnu -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -L/usr/lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib -o main main.o -lmiraerrorhandling -lboost_thread -lboost_regex -lboost_system -lboost_filesystem -lboost_iostreams -lrt -lexpat -lm -lz -lbz2 libtool: link: g++ -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -Wl,-z -Wl,now -o main main.o -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../caf/ -L/usr/lib/x86_64-linux-gnu -L/usr/lib -lmiraerrorhandling -lboost_thread -lboost_regex -lboost_system -lboost_filesystem -lboost_iostreams -lrt -lexpat -lm -lz -lbz2 -fopenmp -pthread make[5]: Leaving directory '/<>/src/memorc' Making all in modules make[5]: Entering directory '/<>/src/modules' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o mod_sigconex.o mod_sigconex.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o mod_scaffold.o mod_scaffold.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o mod_bait.o mod_bait.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o mod_dbgreplay.o mod_dbgreplay.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o mod_diff.o mod_diff.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o mod_mer.o mod_mer.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o mod_mira.o mod_mira.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o mod_convert.o mod_convert.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o mod_memestim.o mod_memestim.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o mod_tagsnp.o mod_tagsnp.C mod_mira.C: In function ‘void miraMain_extractContigs(int, char**)’: mod_mira.C:414:10: warning: ignoring return value of ‘int chdir(const char*)’, declared with attribute warn_unused_result [-Wunused-result] chdir("../.."); ~~~~~^~~~~~~~~ mod_mira.C:439:10: warning: ignoring return value of ‘int chdir(const char*)’, declared with attribute warn_unused_result [-Wunused-result] chdir("../.."); ~~~~~^~~~~~~~~ g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o misc.o misc.C rm -f libmiramodules.a ar cru libmiramodules.a mod_sigconex.o mod_scaffold.o mod_bait.o mod_dbgreplay.o mod_diff.o mod_mer.o mod_mira.o mod_convert.o mod_memestim.o mod_tagsnp.o misc.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libmiramodules.a make[5]: Leaving directory '/<>/src/modules' Making all in support make[5]: Entering directory '/<>/src/support' make[5]: Nothing to be done for 'all'. make[5]: Leaving directory '/<>/src/support' Making all in scripts make[5]: Entering directory '/<>/src/scripts' make[5]: Nothing to be done for 'all'. make[5]: Leaving directory '/<>/src/scripts' Making all in version make[5]: Entering directory '/<>/src/version' make all-am make[6]: Entering directory '/<>/src/version' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o mversion.o mversion.C rm -f libmiraversion.a ar cru libmiraversion.a mversion.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libmiraversion.a make[6]: Leaving directory '/<>/src/version' make[5]: Leaving directory '/<>/src/version' Making all in progs make[5]: Entering directory '/<>/src/progs' Making .C out of .xxd compileinfo.itxt make all-am make[6]: Entering directory '/<>/src/progs' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o mira.o mira.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o quirks.o quirks.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o miratest.o miratest.C Making .C out of .xxd compileinfo.itxt g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o compileinfo.itxt.xxd.o compileinfo.itxt.xxd.C /bin/bash ../../libtool --tag=CXX --mode=link g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -L../version -L../modules -L../debuggersupport -L../memorc -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../caf -L/usr/lib/x86_64-linux-gnu -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -L/usr/lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib -o miratest miratest.o compileinfo.itxt.xxd.o -lmiraversion -lmiramodules -lmiradebuggersupport -lmira -lmiraestass -lmiracaf -lmirautil -lmiradptools -lmirafio -lmiraerrorhandling -lmiradebuggersupport -lmirafmttext -lboost_thread -lboost_regex -lboost_system -lboost_filesystem -lboost_iostreams -lrt -lexpat -lm -lz -lbz2 libtool: link: g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -Wl,-z -Wl,now -o miratest miratest.o compileinfo.itxt.xxd.o -L../version -L../modules -L../debuggersupport -L../memorc -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../caf -L/usr/lib/x86_64-linux-gnu -L/usr/lib -lmiraversion -lmiramodules -lmira -lmiraestass -lmiracaf -lmirautil -lmiradptools -lmirafio -lmiraerrorhandling -lmiradebuggersupport -lmirafmttext -lboost_thread -lboost_regex -lboost_system -lboost_filesystem -lboost_iostreams -lrt -lexpat -lm -lz -lbz2 -fopenmp -pthread /bin/bash ../../libtool --tag=CXX --mode=link g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -L../version -L../modules -L../debuggersupport -L../memorc -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../caf -L/usr/lib/x86_64-linux-gnu -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -L/usr/lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib -o mira mira.o quirks.o compileinfo.itxt.xxd.o -lmiraversion -lmiramodules -lmiradebuggersupport -lmira -lmiraestass -lmiracaf -lmirautil -lmiradptools -lmirafio -lmiraerrorhandling -lmiradebuggersupport -lmirafmttext -lboost_thread -lboost_regex -lboost_system -lboost_filesystem -lboost_iostreams -lrt -lexpat -lm -lz -lbz2 libtool: link: g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -Wl,-z -Wl,now -o mira mira.o quirks.o compileinfo.itxt.xxd.o -L../version -L../modules -L../debuggersupport -L../memorc -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../caf -L/usr/lib/x86_64-linux-gnu -L/usr/lib -lmiraversion -lmiramodules -lmira -lmiraestass -lmiracaf -lmirautil -lmiradptools -lmirafio -lmiraerrorhandling -lmiradebuggersupport -lmirafmttext -lboost_thread -lboost_regex -lboost_system -lboost_filesystem -lboost_iostreams -lrt -lexpat -lm -lz -lbz2 -fopenmp -pthread make[6]: Leaving directory '/<>/src/progs' make[5]: Leaving directory '/<>/src/progs' Making all in other make[5]: Entering directory '/<>/src/other' Making all in sls make[6]: Entering directory '/<>/src/other/sls' Making all in mira-createsls make[7]: Entering directory '/<>/src/other/sls/mira-createsls' Making all in bin make[8]: Entering directory '/<>/src/other/sls/mira-createsls/bin' make[8]: Nothing to be done for 'all'. make[8]: Leaving directory '/<>/src/other/sls/mira-createsls/bin' make[8]: Entering directory '/<>/src/other/sls/mira-createsls' make[8]: Nothing to be done for 'all-am'. make[8]: Leaving directory '/<>/src/other/sls/mira-createsls' make[7]: Leaving directory '/<>/src/other/sls/mira-createsls' make[7]: Entering directory '/<>/src/other/sls' make[7]: Nothing to be done for 'all-am'. make[7]: Leaving directory '/<>/src/other/sls' make[6]: Leaving directory '/<>/src/other/sls' make[6]: Entering directory '/<>/src/other' make[6]: Nothing to be done for 'all-am'. make[6]: Leaving directory '/<>/src/other' make[5]: Leaving directory '/<>/src/other' make[5]: Entering directory '/<>/src' make[5]: Nothing to be done for 'all-am'. make[5]: Leaving directory '/<>/src' make[4]: Leaving directory '/<>/src' make[4]: Entering directory '/<>' make[4]: Nothing to be done for 'all-am'. make[4]: Leaving directory '/<>' make[3]: Leaving directory '/<>' make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' rm -f debian/mira-assembler.debhelper.log debian/rules override_dh_auto_build-indep make[1]: Entering directory '/<>' dh_auto_build --sourcedir=doc cd doc && make -j4 make[2]: Entering directory '/<>/doc' Making all in docbook make[3]: Entering directory '/<>/doc/docbook' Making versionfile Making .html out of _part.xml chap_bitsandpieces_part.html Making .html out of _part.xml chap_mirautils_part.html Making .html out of _part.xml chap_est_part.html Making .html out of _part.xml chap_faq_part.html Making .html out of _part.xml chap_hard_part.html Making .html out of _part.xml chap_logfiles_part.html ERROR: xref linking to chap_dataprep has no generated link text. Error: no ID for constraint linkend: "chap_dataprep". ERROR: xref linking to chap_denovo has no generated link text. Error: no ID for constraint linkend: "chap_denovo". ERROR: xref linking to chap_results has no generated link text. Error: no ID for constraint linkend: "chap_results". ERROR: xref linking to sect_res_looking_at_results has no generated link text. Error: no ID for constraint linkend: "sect_res_looking_at_results". ERROR: xref linking to sect_res_first_look:the_assembly_info has no generated link text. Error: no ID for constraint linkend: "sect_res_first_look:the_assembly_info". ERROR: xref linking to sect_res_converting_results has no generated link text. Error: no ID for constraint linkend: "sect_res_converting_results". ERROR: xref linking to sect_res_filtering_of_results has no generated link text. Error: no ID for constraint linkend: "sect_res_filtering_of_results". ERROR: xref linking to sect_res_places_of_importance_in_a_de_novo_assembly has no generated link text. Error: no ID for constraint linkend: "sect_res_places_of_importance_in_a_de_novo_assembly". ERROR: xref linking to chap_reference has no generated link text. Error: no ID for constraint linkend: "chap_reference". ERROR: xref linking to sect_ref_manifest_basics has no generated link text. Error: no ID for constraint linkend: "sect_ref_manifest_basics". ERROR: xref linking to sect_ref_manifest_readgroups has no generated link text. Error: no ID for constraint linkend: "sect_ref_manifest_readgroups". ERROR: xref linking to sect_ref_manifest_parameters has no generated link text. Error: no ID for constraint linkend: "sect_ref_manifest_parameters". Making .html out of _part.xml chap_maf_part.html Making .html out of _part.xml chap_reference_part.html Making .html out of _part.xml chap_installation_part.html Making .html out of _part.xml chap_intro_part.html Making .html out of _part.xml chap_results_part.html Element emph in namespace '' encountered in note, but no template matches. Making .html out of _part.xml chap_sra_part.html Making .html out of _part.xml chap_seqadvice_part.html Making .html out of _part.xml chap_bonus_part.html Making .html out of _part.xml chap_preface_part.html xsltproc --nonet --xinclude --output DefinitiveGuideToMIRA.html ../../doc/docbook/book.xsl ../../doc/docbook/book_definitiveguide.xml xsltproc --nonet --xinclude --output 3rdparty_MIRA.html ../../doc/docbook/book.xsl ../../doc/docbook/book_3rdparty.xml dblatex --xslt-opts=--nonet --output=DefinitiveGuideToMIRA.pdf ../../doc/docbook/book_definitiveguide.xml Build the book set list... dblatex --xslt-opts=--nonet --output=3rdparty_MIRA.pdf ../../doc/docbook/book_3rdparty.xml Build the book set list... Build the listings... XSLT stylesheets DocBook - LaTeX 2e (0.3.10) =================================================== No template matches copyright in chapterinfo. No template matches year in copyright. No template matches holder in copyright. Build book_3rdparty.pdf '3rdparty_MIRA.pdf' successfully built Element emph in namespace '' encountered in note, but no template matches. Build the listings... XSLT stylesheets DocBook - LaTeX 2e (0.3.10) =================================================== No template matches copyright in chapterinfo. No template matches year in copyright. No template matches holder in copyright. No template matches copyright in chapterinfo. No template matches year in copyright. No template matches holder in copyright. prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen No template matches emph in note. No template matches copyright in chapterinfo. No template matches year in copyright. No template matches holder in copyright. prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen No template matches copyright in chapterinfo. No template matches year in copyright. No template matches holder in copyright. prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen No template matches copyright in chapterinfo. No template matches year in copyright. No template matches holder in copyright. prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen No template matches copyright in chapterinfo. No template matches year in copyright. No template matches holder in copyright. prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen No template matches copyright in chapterinfo. No template matches year in copyright. No template matches holder in copyright. prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen No template matches copyright in chapterinfo. No template matches year in copyright. No template matches holder in copyright. No template matches copyright in chapterinfo. No template matches year in copyright. No template matches holder in copyright. prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen No template matches copyright in chapterinfo. No template matches year in copyright. No template matches holder in copyright. prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen No template matches copyright in chapterinfo. No template matches year in copyright. No template matches holder in copyright. prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen No template matches copyright in chapterinfo. No template matches year in copyright. No template matches holder in copyright. No template matches copyright in chapterinfo. No template matches year in copyright. No template matches holder in copyright. No template matches copyright in chapterinfo. No template matches year in copyright. No template matches holder in copyright. prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen prompt: default template used in programlisting or screen No template matches copyright in chapterinfo. No template matches year in copyright. No template matches holder in copyright. No template matches copyright in chapterinfo. No template matches year in copyright. No template matches holder in copyright. No template matches copyright in chapterinfo. No template matches year in copyright. No template matches holder in copyright. Build book_definitiveguide.pdf 'DefinitiveGuideToMIRA.pdf' successfully built make[3]: Leaving directory '/<>/doc/docbook' make[3]: Entering directory '/<>/doc' make[3]: Nothing to be done for 'all-am'. make[3]: Leaving directory '/<>/doc' make[2]: Leaving directory '/<>/doc' make[1]: Leaving directory '/<>' rm -f debian/mira-doc.debhelper.log debian/mira-rfam-12s-rrna.debhelper.log debian/rules override_dh_auto_test-arch make[1]: Entering directory '/<>' make check make[2]: Entering directory '/<>' make check-recursive make[3]: Entering directory '/<>' Making check in man make[4]: Entering directory '/<>/man' make[4]: Nothing to be done for 'check'. make[4]: Leaving directory '/<>/man' Making check in src make[4]: Entering directory '/<>/src' Making check in debuggersupport make[5]: Entering directory '/<>/src/debuggersupport' make[5]: Nothing to be done for 'check'. make[5]: Leaving directory '/<>/src/debuggersupport' Making check in io make[5]: Entering directory '/<>/src/io' make check-am make[6]: Entering directory '/<>/src/io' make[6]: Nothing to be done for 'check-am'. make[6]: Leaving directory '/<>/src/io' make[5]: Leaving directory '/<>/src/io' Making check in stdinc make[5]: Entering directory '/<>/src/stdinc' make[5]: Nothing to be done for 'check'. make[5]: Leaving directory '/<>/src/stdinc' Making check in errorhandling make[5]: Entering directory '/<>/src/errorhandling' make[5]: Nothing to be done for 'check'. make[5]: Leaving directory '/<>/src/errorhandling' Making check in util make[5]: Entering directory '/<>/src/util' make[5]: Nothing to be done for 'check'. make[5]: Leaving directory '/<>/src/util' Making check in mira make[5]: Entering directory '/<>/src/mira' make check-am make[6]: Entering directory '/<>/src/mira' make[6]: Nothing to be done for 'check-am'. make[6]: Leaving directory '/<>/src/mira' make[5]: Leaving directory '/<>/src/mira' Making check in caf make[5]: Entering directory '/<>/src/caf' make[5]: Nothing to be done for 'check'. make[5]: Leaving directory '/<>/src/caf' Making check in memorc make[5]: Entering directory '/<>/src/memorc' make[5]: Nothing to be done for 'check'. make[5]: Leaving directory '/<>/src/memorc' Making check in modules make[5]: Entering directory '/<>/src/modules' make[5]: Nothing to be done for 'check'. make[5]: Leaving directory '/<>/src/modules' Making check in support make[5]: Entering directory '/<>/src/support' make[5]: Nothing to be done for 'check'. make[5]: Leaving directory '/<>/src/support' Making check in scripts make[5]: Entering directory '/<>/src/scripts' make[5]: Nothing to be done for 'check'. make[5]: Leaving directory '/<>/src/scripts' Making check in version make[5]: Entering directory '/<>/src/version' make check-am make[6]: Entering directory '/<>/src/version' make[6]: Leaving directory '/<>/src/version' make[5]: Leaving directory '/<>/src/version' Making check in progs make[5]: Entering directory '/<>/src/progs' Making .C out of .xxd compileinfo.itxt make check-am make[6]: Entering directory '/<>/src/progs' Making .C out of .xxd compileinfo.itxt g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o compileinfo.itxt.xxd.o compileinfo.itxt.xxd.C /bin/bash ../../libtool --tag=CXX --mode=link g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -L../version -L../modules -L../debuggersupport -L../memorc -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../caf -L/usr/lib/x86_64-linux-gnu -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -L/usr/lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib -o mira mira.o quirks.o compileinfo.itxt.xxd.o -lmiraversion -lmiramodules -lmiradebuggersupport -lmira -lmiraestass -lmiracaf -lmirautil -lmiradptools -lmirafio -lmiraerrorhandling -lmiradebuggersupport -lmirafmttext -lboost_thread -lboost_regex -lboost_system -lboost_filesystem -lboost_iostreams -lrt -lexpat -lm -lz -lbz2 libtool: link: g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -Wl,-z -Wl,now -o mira mira.o quirks.o compileinfo.itxt.xxd.o -L../version -L../modules -L../debuggersupport -L../memorc -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../caf -L/usr/lib/x86_64-linux-gnu -L/usr/lib -lmiraversion -lmiramodules -lmira -lmiraestass -lmiracaf -lmirautil -lmiradptools -lmirafio -lmiraerrorhandling -lmiradebuggersupport -lmirafmttext -lboost_thread -lboost_regex -lboost_system -lboost_filesystem -lboost_iostreams -lrt -lexpat -lm -lz -lbz2 -fopenmp -pthread /bin/bash ../../libtool --tag=CXX --mode=link g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -L../version -L../modules -L../debuggersupport -L../memorc -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../caf -L/usr/lib/x86_64-linux-gnu -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -L/usr/lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib -o miratest miratest.o compileinfo.itxt.xxd.o -lmiraversion -lmiramodules -lmiradebuggersupport -lmira -lmiraestass -lmiracaf -lmirautil -lmiradptools -lmirafio -lmiraerrorhandling -lmiradebuggersupport -lmirafmttext -lboost_thread -lboost_regex -lboost_system -lboost_filesystem -lboost_iostreams -lrt -lexpat -lm -lz -lbz2 libtool: link: g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -Wl,-z -Wl,now -o miratest miratest.o compileinfo.itxt.xxd.o -L../version -L../modules -L../debuggersupport -L../memorc -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../caf -L/usr/lib/x86_64-linux-gnu -L/usr/lib -lmiraversion -lmiramodules -lmira -lmiraestass -lmiracaf -lmirautil -lmiradptools -lmirafio -lmiraerrorhandling -lmiradebuggersupport -lmirafmttext -lboost_thread -lboost_regex -lboost_system -lboost_filesystem -lboost_iostreams -lrt -lexpat -lm -lz -lbz2 -fopenmp -pthread make[6]: Leaving directory '/<>/src/progs' make[5]: Leaving directory '/<>/src/progs' Making check in other make[5]: Entering directory '/<>/src/other' Making check in sls make[6]: Entering directory '/<>/src/other/sls' Making check in mira-createsls make[7]: Entering directory '/<>/src/other/sls/mira-createsls' Making check in bin make[8]: Entering directory '/<>/src/other/sls/mira-createsls/bin' make[8]: Nothing to be done for 'check'. make[8]: Leaving directory '/<>/src/other/sls/mira-createsls/bin' make[8]: Entering directory '/<>/src/other/sls/mira-createsls' make[8]: Nothing to be done for 'check-am'. make[8]: Leaving directory '/<>/src/other/sls/mira-createsls' make[7]: Leaving directory '/<>/src/other/sls/mira-createsls' make[7]: Entering directory '/<>/src/other/sls' make[7]: Nothing to be done for 'check-am'. make[7]: Leaving directory '/<>/src/other/sls' make[6]: Leaving directory '/<>/src/other/sls' make[6]: Entering directory '/<>/src/other' make[6]: Nothing to be done for 'check-am'. make[6]: Leaving directory '/<>/src/other' make[5]: Leaving directory '/<>/src/other' make[5]: Entering directory '/<>/src' make[5]: Nothing to be done for 'check-am'. make[5]: Leaving directory '/<>/src' make[4]: Leaving directory '/<>/src' make[4]: Entering directory '/<>' make[4]: Nothing to be done for 'check-am'. make[4]: Leaving directory '/<>' make[3]: Leaving directory '/<>' make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary --with autoreconf --parallel dh_testroot dh_prep rm -f -- debian/mira-assembler.substvars debian/mira-rfam-12s-rrna.substvars debian/mira-doc.substvars rm -fr -- debian/.debhelper/generated/mira-assembler/ debian/mira-assembler/ debian/tmp/ debian/.debhelper/generated/mira-rfam-12s-rrna/ debian/mira-rfam-12s-rrna/ debian/.debhelper/generated/mira-doc/ debian/mira-doc/ dh_installdirs install -d debian/mira-assembler install -d debian/mira-assembler/usr/bin install -d debian/mira-rfam-12s-rrna install -d debian/mira-doc debian/rules override_dh_auto_install-arch make[1]: Entering directory '/<>' make install DESTDIR=/<>/debian/mira-assembler make[2]: Entering directory '/<>' make install-recursive make[3]: Entering directory '/<>' Making install in man make[4]: Entering directory '/<>/man' make[5]: Entering directory '/<>/man' make[5]: Nothing to be done for 'install-exec-am'. /bin/mkdir -p '/<>/debian/mira-assembler/usr/share/man/man1' /usr/bin/install -c -m 644 mirabait.1 miradiff.1 miramer.1 mira.1 miraconvert.1 miramem.1 '/<>/debian/mira-assembler/usr/share/man/man1' make[5]: Leaving directory '/<>/man' make[4]: Leaving directory '/<>/man' Making install in src make[4]: Entering directory '/<>/src' Making install in debuggersupport make[5]: Entering directory '/<>/src/debuggersupport' make[6]: Entering directory '/<>/src/debuggersupport' make[6]: Nothing to be done for 'install-exec-am'. make[6]: Nothing to be done for 'install-data-am'. make[6]: Leaving directory '/<>/src/debuggersupport' make[5]: Leaving directory '/<>/src/debuggersupport' Making install in io make[5]: Entering directory '/<>/src/io' make install-am make[6]: Entering directory '/<>/src/io' make[7]: Entering directory '/<>/src/io' make[7]: Nothing to be done for 'install-exec-am'. make[7]: Nothing to be done for 'install-data-am'. make[7]: Leaving directory '/<>/src/io' make[6]: Leaving directory '/<>/src/io' make[5]: Leaving directory '/<>/src/io' Making install in stdinc make[5]: Entering directory '/<>/src/stdinc' make[6]: Entering directory '/<>/src/stdinc' make[6]: Nothing to be done for 'install-exec-am'. make[6]: Nothing to be done for 'install-data-am'. make[6]: Leaving directory '/<>/src/stdinc' make[5]: Leaving directory '/<>/src/stdinc' Making install in errorhandling make[5]: Entering directory '/<>/src/errorhandling' make[6]: Entering directory '/<>/src/errorhandling' make[6]: Nothing to be done for 'install-exec-am'. make[6]: Nothing to be done for 'install-data-am'. make[6]: Leaving directory '/<>/src/errorhandling' make[5]: Leaving directory '/<>/src/errorhandling' Making install in util make[5]: Entering directory '/<>/src/util' make[6]: Entering directory '/<>/src/util' make[6]: Nothing to be done for 'install-exec-am'. make[6]: Nothing to be done for 'install-data-am'. make[6]: Leaving directory '/<>/src/util' make[5]: Leaving directory '/<>/src/util' Making install in mira make[5]: Entering directory '/<>/src/mira' make install-am make[6]: Entering directory '/<>/src/mira' make[7]: Entering directory '/<>/src/mira' make[7]: Nothing to be done for 'install-exec-am'. make[7]: Nothing to be done for 'install-data-am'. make[7]: Leaving directory '/<>/src/mira' make[6]: Leaving directory '/<>/src/mira' make[5]: Leaving directory '/<>/src/mira' Making install in caf make[5]: Entering directory '/<>/src/caf' make[6]: Entering directory '/<>/src/caf' make[6]: Nothing to be done for 'install-exec-am'. make[6]: Nothing to be done for 'install-data-am'. make[6]: Leaving directory '/<>/src/caf' make[5]: Leaving directory '/<>/src/caf' Making install in memorc make[5]: Entering directory '/<>/src/memorc' make[6]: Entering directory '/<>/src/memorc' make[6]: Nothing to be done for 'install-exec-am'. make[6]: Nothing to be done for 'install-data-am'. make[6]: Leaving directory '/<>/src/memorc' make[5]: Leaving directory '/<>/src/memorc' Making install in modules make[5]: Entering directory '/<>/src/modules' make[6]: Entering directory '/<>/src/modules' make[6]: Nothing to be done for 'install-exec-am'. make[6]: Nothing to be done for 'install-data-am'. make[6]: Leaving directory '/<>/src/modules' make[5]: Leaving directory '/<>/src/modules' Making install in support make[5]: Entering directory '/<>/src/support' make[6]: Entering directory '/<>/src/support' make[6]: Nothing to be done for 'install-exec-am'. /bin/mkdir -p '/<>/debian/mira-assembler/usr/share/mira/support_3rdparty_tools' /usr/bin/install -c -m 644 consedrc.13.0 consedtaglib.txt GTAGDB README '/<>/debian/mira-assembler/usr/share/mira/support_3rdparty_tools' make[6]: Leaving directory '/<>/src/support' make[5]: Leaving directory '/<>/src/support' Making install in scripts make[5]: Entering directory '/<>/src/scripts' make[6]: Entering directory '/<>/src/scripts' make[6]: Nothing to be done for 'install-exec-am'. make[6]: Nothing to be done for 'install-data-am'. make[6]: Leaving directory '/<>/src/scripts' make[5]: Leaving directory '/<>/src/scripts' Making install in version make[5]: Entering directory '/<>/src/version' make install-am make[6]: Entering directory '/<>/src/version' make[7]: Entering directory '/<>/src/version' make[7]: Nothing to be done for 'install-exec-am'. make[7]: Nothing to be done for 'install-data-am'. make[7]: Leaving directory '/<>/src/version' make[6]: Leaving directory '/<>/src/version' make[5]: Leaving directory '/<>/src/version' Making install in progs make[5]: Entering directory '/<>/src/progs' Making .C out of .xxd compileinfo.itxt make install-am make[6]: Entering directory '/<>/src/progs' Making .C out of .xxd compileinfo.itxt g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -c -o compileinfo.itxt.xxd.o compileinfo.itxt.xxd.C /bin/bash ../../libtool --tag=CXX --mode=link g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -L../version -L../modules -L../debuggersupport -L../memorc -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../caf -L/usr/lib/x86_64-linux-gnu -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -L/usr/lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib -o mira mira.o quirks.o compileinfo.itxt.xxd.o -lmiraversion -lmiramodules -lmiradebuggersupport -lmira -lmiraestass -lmiracaf -lmirautil -lmiradptools -lmirafio -lmiraerrorhandling -lmiradebuggersupport -lmirafmttext -lboost_thread -lboost_regex -lboost_system -lboost_filesystem -lboost_iostreams -lrt -lexpat -lm -lz -lbz2 libtool: link: g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -Wl,-z -Wl,now -o mira mira.o quirks.o compileinfo.itxt.xxd.o -L../version -L../modules -L../debuggersupport -L../memorc -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../caf -L/usr/lib/x86_64-linux-gnu -L/usr/lib -lmiraversion -lmiramodules -lmira -lmiraestass -lmiracaf -lmirautil -lmiradptools -lmirafio -lmiraerrorhandling -lmiradebuggersupport -lmirafmttext -lboost_thread -lboost_regex -lboost_system -lboost_filesystem -lboost_iostreams -lrt -lexpat -lm -lz -lbz2 -fopenmp -pthread /bin/bash ../../libtool --tag=CXX --mode=link g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -L../version -L../modules -L../debuggersupport -L../memorc -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../caf -L/usr/lib/x86_64-linux-gnu -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -L/usr/lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib -o miratest miratest.o compileinfo.itxt.xxd.o -lmiraversion -lmiramodules -lmiradebuggersupport -lmira -lmiraestass -lmiracaf -lmirautil -lmiradptools -lmirafio -lmiraerrorhandling -lmiradebuggersupport -lmirafmttext -lboost_thread -lboost_regex -lboost_system -lboost_filesystem -lboost_iostreams -lrt -lexpat -lm -lz -lbz2 libtool: link: g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -fopenmp -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -Wl,-z -Wl,now -o miratest miratest.o compileinfo.itxt.xxd.o -L../version -L../modules -L../debuggersupport -L../memorc -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../caf -L/usr/lib/x86_64-linux-gnu -L/usr/lib -lmiraversion -lmiramodules -lmira -lmiraestass -lmiracaf -lmirautil -lmiradptools -lmirafio -lmiraerrorhandling -lmiradebuggersupport -lmirafmttext -lboost_thread -lboost_regex -lboost_system -lboost_filesystem -lboost_iostreams -lrt -lexpat -lm -lz -lbz2 -fopenmp -pthread make[7]: Entering directory '/<>/src/progs' Making .C out of .xxd compileinfo.itxt /bin/mkdir -p '/<>/debian/mira-assembler/usr/bin' /bin/bash ../../libtool --mode=install /usr/bin/install -c mira '/<>/debian/mira-assembler/usr/bin' libtool: install: /usr/bin/install -c mira /<>/debian/mira-assembler/usr/bin/mira make install-exec-hook make[8]: Entering directory '/<>/src/progs' cd /<>/debian/mira-assembler/usr/bin && \ rm -f miramem && \ ln -s mira miramem && \ rm -f mirabait && \ ln -s mira mirabait &&\ rm -f miraconvert && \ ln -s mira miraconvert && \ rm -f miramer && \ ln -s mira miramer make[8]: Leaving directory '/<>/src/progs' make[7]: Nothing to be done for 'install-data-am'. make[7]: Leaving directory '/<>/src/progs' make[6]: Leaving directory '/<>/src/progs' make[5]: Leaving directory '/<>/src/progs' Making install in other make[5]: Entering directory '/<>/src/other' Making install in sls make[6]: Entering directory '/<>/src/other/sls' Making install in mira-createsls make[7]: Entering directory '/<>/src/other/sls/mira-createsls' Making install in bin make[8]: Entering directory '/<>/src/other/sls/mira-createsls/bin' make[9]: Entering directory '/<>/src/other/sls/mira-createsls/bin' make[9]: Nothing to be done for 'install-exec-am'. make[9]: Nothing to be done for 'install-data-am'. make[9]: Leaving directory '/<>/src/other/sls/mira-createsls/bin' make[8]: Leaving directory '/<>/src/other/sls/mira-createsls/bin' make[8]: Entering directory '/<>/src/other/sls/mira-createsls' make[9]: Entering directory '/<>/src/other/sls/mira-createsls' make[9]: Nothing to be done for 'install-exec-am'. make[9]: Nothing to be done for 'install-data-am'. make[9]: Leaving directory '/<>/src/other/sls/mira-createsls' make[8]: Leaving directory '/<>/src/other/sls/mira-createsls' make[7]: Leaving directory '/<>/src/other/sls/mira-createsls' make[7]: Entering directory '/<>/src/other/sls' make[8]: Entering directory '/<>/src/other/sls' make[8]: Nothing to be done for 'install-exec-am'. make[8]: Nothing to be done for 'install-data-am'. make[8]: Leaving directory '/<>/src/other/sls' make[7]: Leaving directory '/<>/src/other/sls' make[6]: Leaving directory '/<>/src/other/sls' make[6]: Entering directory '/<>/src/other' make[7]: Entering directory '/<>/src/other' make[7]: Nothing to be done for 'install-exec-am'. make[7]: Nothing to be done for 'install-data-am'. make[7]: Leaving directory '/<>/src/other' make[6]: Leaving directory '/<>/src/other' make[5]: Leaving directory '/<>/src/other' make[5]: Entering directory '/<>/src' make[6]: Entering directory '/<>/src' make[6]: Nothing to be done for 'install-exec-am'. make[6]: Nothing to be done for 'install-data-am'. make[6]: Leaving directory '/<>/src' make[5]: Leaving directory '/<>/src' make[4]: Leaving directory '/<>/src' make[4]: Entering directory '/<>' make[5]: Entering directory '/<>' make[5]: Nothing to be done for 'install-exec-am'. make[5]: Nothing to be done for 'install-data-am'. make[5]: Leaving directory '/<>' make[4]: Leaving directory '/<>' make[3]: Leaving directory '/<>' make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' debian/rules override_dh_auto_install-indep make[1]: Entering directory '/<>' #There is no installation target for the docs mkdir -p /<>/debian/tmp/usr/share/doc/mira-assembler cp -r -t /<>/debian/tmp/usr/share/doc/mira-assembler doc/docbook/bookfigures doc/docbook/images \ doc/docbook/doccss doc/docbook/DefinitiveGuideToMIRA.html || true make[1]: Leaving directory '/<>' dh_install install -d debian/.debhelper/generated/mira-assembler install -d debian/mira-rfam-12s-rrna/usr/share/mira/ cp --reflink=auto -a ./src/other/sls/mira-install-sls-rrna.sh ./src/other/sls/rfam_rrna-21-12.sls.gz debian/mira-rfam-12s-rrna/usr/share/mira// install -d debian/.debhelper/generated/mira-rfam-12s-rrna install -d debian/mira-doc//usr/share cp --reflink=auto -a debian/tmp/usr/share/doc/ debian/mira-doc//usr/share/ install -d debian/.debhelper/generated/mira-doc dh_installdocs install -d debian/mira-assembler/usr/share/doc/mira-assembler cp --reflink=auto -a ./NEWS debian/mira-assembler/usr/share/doc/mira-assembler cp --reflink=auto -a ./README debian/mira-assembler/usr/share/doc/mira-assembler cp --reflink=auto -a ./THANKS debian/mira-assembler/usr/share/doc/mira-assembler cp --reflink=auto -a ./HELP_WANTED debian/mira-assembler/usr/share/doc/mira-assembler cp --reflink=auto -a ./debian/README.test debian/mira-assembler/usr/share/doc/mira-assembler cp --reflink=auto -a ./debian/tests/run-unit-test debian/mira-assembler/usr/share/doc/mira-assembler cp --reflink=auto -a ./debian/tests/est_assembly.conf debian/mira-assembler/usr/share/doc/mira-assembler cp --reflink=auto -a ./debian/tests/solexa1.conf debian/mira-assembler/usr/share/doc/mira-assembler cp --reflink=auto -a ./debian/tests/solexa2.conf debian/mira-assembler/usr/share/doc/mira-assembler cd './debian/tests/test_data//..' && find 'test_data' \( -type f -or -type l \) -and ! -empty -print0 | LC_ALL=C sort -z | xargs -0 -I {} cp --reflink=auto --parents -dp {} /<>/debian/mira-assembler/usr/share/doc/mira-assembler chown -R 0:0 debian/mira-assembler/usr/share/doc chmod -R u\+rw,go=rX debian/mira-assembler/usr/share/doc install -p -m0644 debian/copyright debian/mira-assembler/usr/share/doc/mira-assembler/copyright install -d debian/mira-rfam-12s-rrna/usr/share/doc/mira-rfam-12s-rrna install -p -m0644 debian/copyright debian/mira-rfam-12s-rrna/usr/share/doc/mira-rfam-12s-rrna/copyright install -d debian/mira-doc/usr/share/doc/mira-doc install -p -m0644 debian/mira-doc.README.Debian debian/mira-doc/usr/share/doc/mira-doc/README.Debian install -p -m0644 debian/copyright debian/mira-doc/usr/share/doc/mira-doc/copyright install -d debian/mira-doc/usr/share/doc-base/ install -p -m0644 debian/mira-doc.doc-base debian/mira-doc/usr/share/doc-base/mira-manual debian/rules override_dh_installchangelogs make[1]: Entering directory '/<>' dh_installchangelogs src/mira/CHANGES.txt install -p -m0644 debian/changelog debian/mira-doc/usr/share/doc/mira-doc/changelog.Debian install -p -m0644 src/mira/CHANGES.txt debian/mira-doc/usr/share/doc/mira-doc/changelog install -p -m0644 debian/changelog debian/mira-assembler/usr/share/doc/mira-assembler/changelog.Debian install -p -m0644 src/mira/CHANGES.txt debian/mira-assembler/usr/share/doc/mira-assembler/changelog install -p -m0644 debian/changelog debian/mira-rfam-12s-rrna/usr/share/doc/mira-rfam-12s-rrna/changelog.Debian install -p -m0644 src/mira/CHANGES.txt debian/mira-rfam-12s-rrna/usr/share/doc/mira-rfam-12s-rrna/changelog make[1]: Leaving directory '/<>' dh_installman dh_installman: Cannot find (any matches for) "debian/mans/*.1" (tried in .) man -l --recode UTF-8 ./debian/mira-assembler/usr/share/man/man1/miramem.1 > debian/mira-assembler/usr/share/man/man1/miramem.1.dh-new man -l --recode UTF-8 ./debian/mira-assembler/usr/share/man/man1/miradiff.1 > debian/mira-assembler/usr/share/man/man1/miradiff.1.dh-new man -l --recode UTF-8 ./debian/mira-assembler/usr/share/man/man1/mira.1 > debian/mira-assembler/usr/share/man/man1/mira.1.dh-new mv debian/mira-assembler/usr/share/man/man1/miradiff.1.dh-new debian/mira-assembler/usr/share/man/man1/miradiff.1 man -l --recode UTF-8 ./debian/mira-assembler/usr/share/man/man1/miraconvert.1 > debian/mira-assembler/usr/share/man/man1/miraconvert.1.dh-new mv debian/mira-assembler/usr/share/man/man1/mira.1.dh-new debian/mira-assembler/usr/share/man/man1/mira.1 man -l --recode UTF-8 ./debian/mira-assembler/usr/share/man/man1/mirabait.1 > debian/mira-assembler/usr/share/man/man1/mirabait.1.dh-new mv debian/mira-assembler/usr/share/man/man1/miraconvert.1.dh-new debian/mira-assembler/usr/share/man/man1/miraconvert.1 chmod 0644 -- debian/mira-assembler/usr/share/man/man1/miradiff.1 debian/mira-assembler/usr/share/man/man1/miraconvert.1 mv debian/mira-assembler/usr/share/man/man1/miramem.1.dh-new debian/mira-assembler/usr/share/man/man1/miramem.1 man -l --recode UTF-8 ./debian/mira-assembler/usr/share/man/man1/miramer.1 > debian/mira-assembler/usr/share/man/man1/miramer.1.dh-new mv debian/mira-assembler/usr/share/man/man1/mirabait.1.dh-new debian/mira-assembler/usr/share/man/man1/mirabait.1 chmod 0644 -- debian/mira-assembler/usr/share/man/man1/mira.1 debian/mira-assembler/usr/share/man/man1/mirabait.1 mv debian/mira-assembler/usr/share/man/man1/miramer.1.dh-new debian/mira-assembler/usr/share/man/man1/miramer.1 chmod 0644 -- debian/mira-assembler/usr/share/man/man1/miramem.1 debian/mira-assembler/usr/share/man/man1/miramer.1 dh_lintian install -d debian/mira-assembler/usr/share/lintian/overrides install -p -m0644 debian/mira-assembler.lintian-overrides debian/mira-assembler/usr/share/lintian/overrides/mira-assembler dh_perl dh_link rm -f debian/mira-assembler/usr/bin/miramem ln -s mira debian/mira-assembler/usr/bin/miramem rm -f debian/mira-assembler/usr/bin/miramer ln -s mira debian/mira-assembler/usr/bin/miramer rm -f debian/mira-assembler/usr/bin/mirabait ln -s mira debian/mira-assembler/usr/bin/mirabait rm -f debian/mira-assembler/usr/bin/miraconvert ln -s mira debian/mira-assembler/usr/bin/miraconvert dh_strip_nondeterminism Using 1531832468 as canonical time Normalizing debian/mira-rfam-12s-rrna/usr/share/mira/rfam_rrna-21-12.sls.gz using File::StripNondeterminism::handlers::gzip Using 1531832468 as canonical time Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/sxa_xmastree_lenski1.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/pb_elasticdarkinserts02.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/sxa_unsc_ggcxg1_lenski.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/pb_elasticdarkinserts01.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/sxa_sroc_lenski1.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/sxa_sroc_lenski2.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/pb_c227-11-clcr_res.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/sxa_unsc_ggc2_lenski.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/sxa_mcvc_lenski.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/gcb99_edit.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/454san_stmu_hybdenovo.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/454sxa_stms_hybdenovo.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/sxa_unsc_ggc3_lenski.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/results_mira2other.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/454sxa_hybdenovo.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/454_autoedit1.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/results_miraconvert.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/iontor_indelhpexample.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/haf2_end_nomoredata.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/sxa_gcbias_bias2009.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/srmc_in_454sxahyb_lastpass1.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/ion_dh10bdirdepindel.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/sxa_xmastree_lenski2.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/san_autoedit1.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/haf5_haf2_contigcoverage.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/sxa_cer_reads2.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/sxa_gcbias_nobias2008.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/san_autoedit2.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/pb_elasticdarkinserts03.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/srmc_in_454sxahyb_1stpass.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/sxa_unsc_ggc4_lenski.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/sxa_wrmcsrmc_hiding_lenski1.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/gcb99_replocator.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/haf5_repend_rrna.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/haf_danger_join_notok.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/sxa_unsc_ggcxg2_lenski.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/454_autoedit2.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/haf5_haf2_contigcoverage_ovals.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/ion_dh10bgoodB13.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/srmc_in_454sxahyb_lastpass2.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/haf2_haf5_clearshortrepeat.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/454_stacks_join.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/pb_elasticdarkinserts04.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/haf_danger_join_ok.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/sxa_unsc_ggc1_lenski.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/sxa_cer_reads1.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/bookfigures/sxa_gcbias_comp20082009.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/images/note.png using File::StripNondeterminism::handlers::png Normalizing debian/mira-doc/usr/share/doc/mira-assembler/images/warning.png using File::StripNondeterminism::handlers::png dh_compress cd debian/mira-rfam-12s-rrna cd debian/mira-assembler cd debian/mira-doc chmod a-x usr/share/doc/mira-rfam-12s-rrna/changelog usr/share/doc/mira-rfam-12s-rrna/changelog.Debian gzip -9nf usr/share/doc/mira-rfam-12s-rrna/changelog usr/share/doc/mira-rfam-12s-rrna/changelog.Debian cd '/<>' chmod a-x usr/share/doc/mira-doc/changelog usr/share/doc/mira-doc/changelog.Debian gzip -9nf usr/share/doc/mira-doc/changelog usr/share/doc/mira-doc/changelog.Debian cd '/<>' chmod a-x usr/share/doc/mira-assembler/NEWS usr/share/doc/mira-assembler/changelog usr/share/doc/mira-assembler/changelog.Debian usr/share/doc/mira-assembler/test_data/fasta_estset1/tvc_mini.fasta usr/share/doc/mira-assembler/test_data/fasta_estset1/tvc_mini.fasta.qual usr/share/doc/mira-assembler/test_data/solexa_eco_art/ecoli_backbone_in.gbf usr/share/doc/mira-assembler/test_data/solexa_eco_art/ecoli_in.solexa.fasta usr/share/doc/mira-assembler/test_data/solexa_eco_art/ecoli_in.solexa.fasta.qual usr/share/doc/mira-assembler/test_data/solexa_eco_art/ecoli_straindata_in.txt usr/share/man/man1/mira.1 usr/share/man/man1/mirabait.1 usr/share/man/man1/miraconvert.1 usr/share/man/man1/miradiff.1 usr/share/man/man1/miramem.1 usr/share/man/man1/miramer.1 gzip -9nf usr/share/doc/mira-assembler/NEWS usr/share/doc/mira-assembler/changelog usr/share/doc/mira-assembler/changelog.Debian usr/share/doc/mira-assembler/test_data/fasta_estset1/tvc_mini.fasta usr/share/doc/mira-assembler/test_data/fasta_estset1/tvc_mini.fasta.qual usr/share/doc/mira-assembler/test_data/solexa_eco_art/ecoli_backbone_in.gbf usr/share/doc/mira-assembler/test_data/solexa_eco_art/ecoli_in.solexa.fasta usr/share/doc/mira-assembler/test_data/solexa_eco_art/ecoli_in.solexa.fasta.qual usr/share/doc/mira-assembler/test_data/solexa_eco_art/ecoli_straindata_in.txt usr/share/man/man1/mira.1 usr/share/man/man1/mirabait.1 usr/share/man/man1/miraconvert.1 usr/share/man/man1/miradiff.1 usr/share/man/man1/miramem.1 usr/share/man/man1/miramer.1 cd '/<>' dh_fixperms find debian/mira-rfam-12s-rrna -true -print0 2>/dev/null | xargs -0r chown --no-dereference 0:0 find debian/mira-doc -true -print0 2>/dev/null | xargs -0r chown --no-dereference 0:0 find debian/mira-assembler -true -print0 2>/dev/null | xargs -0r chown --no-dereference 0:0 find debian/mira-rfam-12s-rrna ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/mira-rfam-12s-rrna/usr/share/doc -type f -a -true -a ! -regex 'debian/mira-rfam-12s-rrna/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/mira-assembler ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/mira-doc ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/mira-rfam-12s-rrna/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/mira-rfam-12s-rrna -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/mira-doc/usr/share/doc -type f -a -true -a ! -regex 'debian/mira-doc/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/mira-assembler/usr/share/doc -type f -a -true -a ! -regex 'debian/mira-assembler/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/mira-assembler/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/mira-doc/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/mira-assembler/usr/share/man debian/mira-assembler/usr/share/lintian/overrides -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/mira-doc -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/mira-assembler -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/mira-assembler/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x dh_missing dh_strip install -d debian/.debhelper/mira-assembler/dbgsym-root/usr/lib/debug/.build-id/6a objcopy --only-keep-debug --compress-debug-sections debian/mira-assembler/usr/bin/mira debian/.debhelper/mira-assembler/dbgsym-root/usr/lib/debug/.build-id/6a/fa45bcbef3312f9be10f717707f415085e644f.debug chmod 0644 -- debian/.debhelper/mira-assembler/dbgsym-root/usr/lib/debug/.build-id/6a/fa45bcbef3312f9be10f717707f415085e644f.debug chown 0:0 -- debian/.debhelper/mira-assembler/dbgsym-root/usr/lib/debug/.build-id/6a/fa45bcbef3312f9be10f717707f415085e644f.debug strip --remove-section=.comment --remove-section=.note debian/mira-assembler/usr/bin/mira objcopy --add-gnu-debuglink debian/.debhelper/mira-assembler/dbgsym-root/usr/lib/debug/.build-id/6a/fa45bcbef3312f9be10f717707f415085e644f.debug debian/mira-assembler/usr/bin/mira install -d debian/.debhelper/mira-assembler/dbgsym-root/usr/share/doc ln -s mira-assembler debian/.debhelper/mira-assembler/dbgsym-root/usr/share/doc/mira-assembler-dbgsym dh_makeshlibs rm -f debian/mira-assembler/DEBIAN/shlibs rm -f debian/mira-rfam-12s-rrna/DEBIAN/shlibs rm -f debian/mira-doc/DEBIAN/shlibs dh_shlibdeps install -d debian/mira-assembler/DEBIAN dpkg-shlibdeps -Tdebian/mira-assembler.substvars debian/mira-assembler/usr/bin/mira dh_installdeb install -d debian/mira-rfam-12s-rrna/DEBIAN sed s/\#DEBHELPER\#// debian/mira-rfam-12s-rrna.postinst > debian/mira-rfam-12s-rrna/DEBIAN/postinst chmod 0755 -- debian/mira-rfam-12s-rrna/DEBIAN/postinst chown 0:0 -- debian/mira-rfam-12s-rrna/DEBIAN/postinst sed s/\#DEBHELPER\#// debian/mira-rfam-12s-rrna.postrm > debian/mira-rfam-12s-rrna/DEBIAN/postrm chmod 0755 -- debian/mira-rfam-12s-rrna/DEBIAN/postrm chown 0:0 -- debian/mira-rfam-12s-rrna/DEBIAN/postrm install -d debian/mira-doc/DEBIAN dh_gencontrol echo misc:Depends= >> debian/mira-rfam-12s-rrna.substvars echo misc:Pre-Depends= >> debian/mira-rfam-12s-rrna.substvars dpkg-gencontrol -pmira-rfam-12s-rrna -ldebian/changelog -Tdebian/mira-rfam-12s-rrna.substvars -Pdebian/mira-rfam-12s-rrna -UMulti-Arch echo misc:Depends= >> debian/mira-doc.substvars echo misc:Pre-Depends= >> debian/mira-doc.substvars dpkg-gencontrol -pmira-doc -ldebian/changelog -Tdebian/mira-doc.substvars -Pdebian/mira-doc -UMulti-Arch echo misc:Depends= >> debian/mira-assembler.substvars echo misc:Pre-Depends= >> debian/mira-assembler.substvars install -d debian/.debhelper/mira-assembler/dbgsym-root/DEBIAN dpkg-gencontrol -pmira-assembler -ldebian/changelog -Tdebian/mira-assembler.substvars -Pdebian/.debhelper/mira-assembler/dbgsym-root -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -DAuto-Built-Package=debug-symbols -DPackage=mira-assembler-dbgsym "-DDepends=mira-assembler (= \${binary:Version})" "-DDescription=debug symbols for mira-assembler" -DBuild-Ids=6afa45bcbef3312f9be10f717707f415085e644f -DSection=debug -DPackage-Type=ddeb -UMulti-Arch -UReplaces -UBreaks chmod 0644 -- debian/mira-rfam-12s-rrna/DEBIAN/control chown 0:0 -- debian/mira-rfam-12s-rrna/DEBIAN/control chmod 0644 -- debian/.debhelper/mira-assembler/dbgsym-root/DEBIAN/control chown 0:0 -- debian/.debhelper/mira-assembler/dbgsym-root/DEBIAN/control dpkg-gencontrol -pmira-assembler -ldebian/changelog -Tdebian/mira-assembler.substvars -Pdebian/mira-assembler -UMulti-Arch chmod 0644 -- debian/mira-doc/DEBIAN/control chown 0:0 -- debian/mira-doc/DEBIAN/control chmod 0644 -- debian/mira-assembler/DEBIAN/control chown 0:0 -- debian/mira-assembler/DEBIAN/control dh_md5sums (cd debian/mira-assembler >/dev/null ; find . -type f ! -regex './DEBIAN/.*' -printf '%P\0' | LC_ALL=C sort -z | xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums) >/dev/null (cd debian/mira-doc >/dev/null ; find . -type f ! -regex './DEBIAN/.*' -printf '%P\0' | LC_ALL=C sort -z | xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums) >/dev/null (cd debian/mira-rfam-12s-rrna >/dev/null ; find . -type f ! -regex './DEBIAN/.*' -printf '%P\0' | LC_ALL=C sort -z | xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums) >/dev/null chmod 0644 -- debian/mira-assembler/DEBIAN/md5sums chown 0:0 -- debian/mira-assembler/DEBIAN/md5sums (cd debian/.debhelper/mira-assembler/dbgsym-root >/dev/null ; find . -type f ! -regex './DEBIAN/.*' -printf '%P\0' | LC_ALL=C sort -z | xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums) >/dev/null chmod 0644 -- debian/mira-doc/DEBIAN/md5sums chown 0:0 -- debian/mira-doc/DEBIAN/md5sums chmod 0644 -- debian/mira-rfam-12s-rrna/DEBIAN/md5sums chown 0:0 -- debian/mira-rfam-12s-rrna/DEBIAN/md5sums chmod 0644 -- debian/.debhelper/mira-assembler/dbgsym-root/DEBIAN/md5sums chown 0:0 -- debian/.debhelper/mira-assembler/dbgsym-root/DEBIAN/md5sums rm -f debian/mira-assembler.debhelper.log debian/mira-doc.debhelper.log debian/mira-rfam-12s-rrna.debhelper.log debian/rules override_dh_builddeb make[1]: Entering directory '/<>' dh_builddeb -- -Z xz dpkg-deb -Z xz --build debian/mira-assembler .. dpkg-deb -Z xz --build debian/mira-doc .. dpkg-deb -Z xz --build debian/mira-rfam-12s-rrna .. install -d debian/.debhelper/scratch-space/build-mira-assembler dpkg-deb -Z xz --build debian/.debhelper/mira-assembler/dbgsym-root debian/.debhelper/scratch-space/build-mira-assembler INFO: pkgstriptranslations version 141 INFO: pkgstriptranslations version 141 INFO: pkgstriptranslations version 141 INFO: pkgstriptranslations version 141 pkgstriptranslations: processing mira-assembler (in debian/mira-assembler); do_strip: , oemstrip: pkgstriptranslations: processing mira-doc (in debian/mira-doc); do_strip: , oemstrip: pkgstriptranslations: processing mira-assembler-dbgsym (in debian/.debhelper/mira-assembler/dbgsym-root); do_strip: , oemstrip: pkgstriptranslations: processing mira-rfam-12s-rrna (in debian/mira-rfam-12s-rrna); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/mira-assembler/DEBIAN/control, package mira-assembler, directory debian/mira-assembler .. removing usr/share/doc/mira-assembler/changelog.gz pkgstripfiles: Truncating usr/share/doc/mira-assembler/changelog.Debian.gz to topmost ten records pkgstripfiles: Running PNG optimization (using 4 cpus) for package mira-assembler ... pkgstripfiles: No PNG files. dpkg-deb: building package 'mira-assembler' in '../mira-assembler_4.9.6-3build3_amd64.deb'. pkgstripfiles: processing control file: debian/mira-rfam-12s-rrna/DEBIAN/control, package mira-rfam-12s-rrna, directory debian/mira-rfam-12s-rrna .. removing usr/share/doc/mira-rfam-12s-rrna/changelog.gz pkgstripfiles: Truncating usr/share/doc/mira-rfam-12s-rrna/changelog.Debian.gz to topmost ten records pkgstripfiles: Running PNG optimization (using 4 cpus) for package mira-rfam-12s-rrna ... pkgstripfiles: No PNG files. dpkg-deb: building package 'mira-rfam-12s-rrna' in '../mira-rfam-12s-rrna_4.9.6-3build3_all.deb'. pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/mira-doc/DEBIAN/control, package mira-doc, directory debian/mira-doc .. removing usr/share/doc/mira-doc/changelog.gz pkgstripfiles: Truncating usr/share/doc/mira-doc/changelog.Debian.gz to topmost ten records pkgstripfiles: Disabled PNG optimization for -doc package mira-doc (to save build time) dpkg-deb: building package 'mira-doc' in '../mira-doc_4.9.6-3build3_all.deb'. pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/.debhelper/mira-assembler/dbgsym-root/DEBIAN/control, package mira-assembler-dbgsym, directory debian/.debhelper/mira-assembler/dbgsym-root dpkg-deb: building package 'mira-assembler-dbgsym' in 'debian/.debhelper/scratch-space/build-mira-assembler/mira-assembler-dbgsym_4.9.6-3build3_amd64.deb'. Renaming mira-assembler-dbgsym_4.9.6-3build3_amd64.deb to mira-assembler-dbgsym_4.9.6-3build3_amd64.ddeb mv debian/.debhelper/scratch-space/build-mira-assembler/mira-assembler-dbgsym_4.9.6-3build3_amd64.deb ../mira-assembler-dbgsym_4.9.6-3build3_amd64.ddeb make[1]: Leaving directory '/<>' dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary -mLaunchpad Build Daemon >../mira_4.9.6-3build3_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build mira-4.9.6 dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 20180717-1702 Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ mira_4.9.6-3build3_amd64.changes: --------------------------------- Format: 1.8 Date: Tue, 17 Jul 2018 13:01:08 +0000 Source: mira Binary: mira-assembler mira-rfam-12s-rrna mira-doc Architecture: amd64 all Version: 4.9.6-3build3 Distribution: cosmic-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Matthias Klose Description: mira-assembler - Whole Genome Shotgun and EST Sequence Assembler mira-doc - documentation for the mira assembler mira-rfam-12s-rrna - extract of RFAM 12 rRNA database Changes: mira (4.9.6-3build3) cosmic; urgency=medium . * No-change rebuild for boost soname change. Checksums-Sha1: 28856c12b314f2fa15c614b431401c7e4c4c3c31 35105576 mira-assembler-dbgsym_4.9.6-3build3_amd64.ddeb e767fc1a73c0f1445edeb53bb14d8503b792fa00 2292152 mira-assembler_4.9.6-3build3_amd64.deb 6232b37b0d03b57068dd2dc13c9628f06343ff63 2785484 mira-doc_4.9.6-3build3_all.deb 99788d62ecd23e4d8513a60819befd10607e5842 10427544 mira-rfam-12s-rrna_4.9.6-3build3_all.deb b6afa925acfc0c2b8966fa3e3739023e945dee34 13368 mira_4.9.6-3build3_amd64.buildinfo Checksums-Sha256: 9d5601eda12e9aab71873faed1c8e606fbac2a2784d4b2d805f91ae1a0d7d289 35105576 mira-assembler-dbgsym_4.9.6-3build3_amd64.ddeb be8b4d46ade70eb769cbe8534b80d34299741a44d1bed798060bbab6381f07a0 2292152 mira-assembler_4.9.6-3build3_amd64.deb eb0c108640764b1da2a4efa32bc1826c5e4a1f7854bab83b732393c6e411bcfb 2785484 mira-doc_4.9.6-3build3_all.deb af791e8f06c71b40fbdb31e5c9adb45b800c85c64916caf177b2892da18084fd 10427544 mira-rfam-12s-rrna_4.9.6-3build3_all.deb 0a372ba3a565696edb4a59560b341e50a70a8cafba39fe8d57f3b41b950e8db9 13368 mira_4.9.6-3build3_amd64.buildinfo Files: a377b092a5ec11c73c6184dfcb395877 35105576 debug optional mira-assembler-dbgsym_4.9.6-3build3_amd64.ddeb 48d8d267154caf21fc7d80453f73c51d 2292152 science optional mira-assembler_4.9.6-3build3_amd64.deb 9d7eba58dde8b98c6bbbf0688357ab44 2785484 doc optional mira-doc_4.9.6-3build3_all.deb 88fe995099ffb7108ed2007c2fafb8cb 10427544 science optional mira-rfam-12s-rrna_4.9.6-3build3_all.deb 7a46cdf43af07066bcaef3acbb5f5b6d 13368 science optional mira_4.9.6-3build3_amd64.buildinfo +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ mira-assembler_4.9.6-3build3_amd64.deb -------------------------------------- new debian package, version 2.0. size 2292152 bytes: control archive=2092 bytes. 1719 bytes, 33 lines control 2357 bytes, 29 lines md5sums Package: mira-assembler Source: mira Version: 4.9.6-3build3 Architecture: amd64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 7114 Depends: libboost-filesystem1.67.0, libboost-regex1.67.0, libboost-system1.67.0, libboost-thread1.67.0, libc6 (>= 2.27), libexpat1 (>= 2.0.1), libgcc1 (>= 1:3.0), libgomp1 (>= 4.9), libstdc++6 (>= 5.2), zlib1g (>= 1:1.2.6) Recommends: mira-rfam-12s-rrna Suggests: mira-doc Section: science Priority: optional Homepage: http://chevreux.org/projects_mira.html Description: Whole Genome Shotgun and EST Sequence Assembler The mira genome fragment assembler is a specialised assembler for sequencing projects classified as 'hard' due to high number of similar repeats. For expressed sequence tags (ESTs) transcripts, miraEST is specialised on reconstructing pristine mRNA transcripts while detecting and classifying single nucleotide polymorphisms (SNP) occurring in different variations thereof. . The assembler is routinely used for such various tasks as mutation detection in different cell types, similarity analysis of transcripts between organisms, and pristine assembly of sequences from various sources for oligo design in clinical microarray experiments. . The package provides the following executables: Binaries provided: * mira: for assembly of genome sequences * miramem: estimating memory needed to assemble projects. * mirabait: a "grep" like tool to select reads with kmers up to 256 bases. * miraconvert: is a tool to convert, extract and sometimes recalculate all kinds of data related to sequence assembly files. drwxr-xr-x root/root 0 2018-07-17 13:01 ./ drwxr-xr-x root/root 0 2018-07-17 13:01 ./usr/ drwxr-xr-x root/root 0 2018-07-17 13:01 ./usr/bin/ -rwxr-xr-x root/root 7138784 2018-07-17 13:01 ./usr/bin/mira lrwxrwxrwx root/root 0 2018-07-17 13:01 ./usr/bin/mirabait -> mira lrwxrwxrwx root/root 0 2018-07-17 13:01 ./usr/bin/miraconvert -> mira lrwxrwxrwx root/root 0 2018-07-17 13:01 ./usr/bin/miramem -> mira lrwxrwxrwx root/root 0 2018-07-17 13:01 ./usr/bin/miramer -> mira drwxr-xr-x root/root 0 2018-07-17 13:01 ./usr/share/ drwxr-xr-x root/root 0 2018-07-17 13:01 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-07-17 13:01 ./usr/share/doc/mira-assembler/ -rw-r--r-- root/root 1384 2016-05-01 15:18 ./usr/share/doc/mira-assembler/HELP_WANTED -rw-r--r-- root/root 263 2016-05-01 15:18 ./usr/share/doc/mira-assembler/NEWS.gz -rw-r--r-- root/root 2691 2016-05-01 15:18 ./usr/share/doc/mira-assembler/README -rw-r--r-- root/root 180 2017-06-12 22:29 ./usr/share/doc/mira-assembler/README.test -rw-r--r-- root/root 3929 2016-05-01 15:18 ./usr/share/doc/mira-assembler/THANKS -rw-r--r-- root/root 1146 2018-07-17 13:01 ./usr/share/doc/mira-assembler/changelog.Debian.gz -rw-r--r-- root/root 2400 2017-06-12 22:29 ./usr/share/doc/mira-assembler/copyright -rw-r--r-- root/root 135 2017-06-12 22:29 ./usr/share/doc/mira-assembler/est_assembly.conf -rw-r--r-- root/root 415 2017-06-12 22:29 ./usr/share/doc/mira-assembler/run-unit-test -rw-r--r-- root/root 1533 2017-06-12 22:29 ./usr/share/doc/mira-assembler/solexa1.conf -rw-r--r-- root/root 219 2017-06-12 22:29 ./usr/share/doc/mira-assembler/solexa2.conf drwxr-xr-x root/root 0 2017-06-12 22:29 ./usr/share/doc/mira-assembler/test_data/ drwxr-xr-x root/root 0 2018-07-17 13:01 ./usr/share/doc/mira-assembler/test_data/fasta_estset1/ -rw-r--r-- root/root 1159 2017-06-12 22:29 ./usr/share/doc/mira-assembler/test_data/fasta_estset1/tvc_mini.fasta.gz -rw-r--r-- root/root 3572 2017-06-12 22:29 ./usr/share/doc/mira-assembler/test_data/fasta_estset1/tvc_mini.fasta.qual.gz drwxr-xr-x root/root 0 2018-07-17 13:01 ./usr/share/doc/mira-assembler/test_data/solexa_eco_art/ -rw-r--r-- root/root 4982 2017-06-12 22:29 ./usr/share/doc/mira-assembler/test_data/solexa_eco_art/ecoli_backbone_in.gbf.gz -rw-r--r-- root/root 29260 2017-06-12 22:29 ./usr/share/doc/mira-assembler/test_data/solexa_eco_art/ecoli_in.solexa.fasta.gz -rw-r--r-- root/root 14391 2017-06-12 22:29 ./usr/share/doc/mira-assembler/test_data/solexa_eco_art/ecoli_in.solexa.fasta.qual.gz -rw-r--r-- root/root 11879 2017-06-12 22:29 ./usr/share/doc/mira-assembler/test_data/solexa_eco_art/ecoli_straindata_in.txt.gz drwxr-xr-x root/root 0 2018-07-17 13:01 ./usr/share/lintian/ drwxr-xr-x root/root 0 2018-07-17 13:01 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 147 2017-06-12 22:29 ./usr/share/lintian/overrides/mira-assembler drwxr-xr-x root/root 0 2018-07-17 13:01 ./usr/share/man/ drwxr-xr-x root/root 0 2018-07-17 13:01 ./usr/share/man/man1/ -rw-r--r-- root/root 1140 2018-07-17 13:01 ./usr/share/man/man1/mira.1.gz -rw-r--r-- root/root 2649 2018-07-17 13:01 ./usr/share/man/man1/mirabait.1.gz -rw-r--r-- root/root 3577 2018-07-17 13:01 ./usr/share/man/man1/miraconvert.1.gz -rw-r--r-- root/root 568 2018-07-17 13:01 ./usr/share/man/man1/miradiff.1.gz -rw-r--r-- root/root 761 2018-07-17 13:01 ./usr/share/man/man1/miramem.1.gz -rw-r--r-- root/root 566 2018-07-17 13:01 ./usr/share/man/man1/miramer.1.gz drwxr-xr-x root/root 0 2018-07-17 13:01 ./usr/share/mira/ drwxr-xr-x root/root 0 2018-07-17 13:01 ./usr/share/mira/support_3rdparty_tools/ -rw-r--r-- root/root 2571 2018-07-17 13:01 ./usr/share/mira/support_3rdparty_tools/GTAGDB -rw-r--r-- root/root 735 2018-07-17 13:01 ./usr/share/mira/support_3rdparty_tools/README -rw-r--r-- root/root 58 2018-07-17 13:01 ./usr/share/mira/support_3rdparty_tools/consedrc.13.0 -rw-r--r-- root/root 762 2018-07-17 13:01 ./usr/share/mira/support_3rdparty_tools/consedtaglib.txt mira-doc_4.9.6-3build3_all.deb ------------------------------ new debian package, version 2.0. size 2785484 bytes: control archive=2296 bytes. 622 bytes, 17 lines control 5377 bytes, 56 lines md5sums Package: mira-doc Source: mira Version: 4.9.6-3build3 Architecture: all Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 3831 Suggests: mira-assembler Section: doc Priority: optional Homepage: http://chevreux.org/projects_mira.html Description: documentation for the mira assembler The mira genome fragment assembler is a specialised assembler for sequencing projects classified as 'hard' due to high number of similar repeats. . This package contains an HTML book introducing to mira. drwxr-xr-x root/root 0 2018-07-17 13:01 ./ drwxr-xr-x root/root 0 2018-07-17 13:01 ./usr/ drwxr-xr-x root/root 0 2018-07-17 13:01 ./usr/share/ drwxr-xr-x root/root 0 2018-07-17 13:01 ./usr/share/doc-base/ -rw-r--r-- root/root 320 2017-06-12 22:29 ./usr/share/doc-base/mira-manual drwxr-xr-x root/root 0 2018-07-17 13:01 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-07-17 13:01 ./usr/share/doc/mira-assembler/ -rw-r--r-- root/root 867719 2018-07-17 13:01 ./usr/share/doc/mira-assembler/DefinitiveGuideToMIRA.html drwxr-xr-x root/root 0 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/ -rw-r--r-- root/root 50839 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/454_autoedit1.png -rw-r--r-- root/root 47236 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/454_autoedit2.png -rw-r--r-- root/root 44224 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/454_stacks_join.png -rw-r--r-- root/root 148931 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/454san_stmu_hybdenovo.png -rw-r--r-- root/root 43070 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/454sxa_hybdenovo.png -rw-r--r-- root/root 44562 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/454sxa_stms_hybdenovo.png -rw-r--r-- root/root 76376 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/gcb99_edit.png -rw-r--r-- root/root 115183 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/gcb99_replocator.png -rw-r--r-- root/root 29794 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/haf2_end_nomoredata.png -rw-r--r-- root/root 49602 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/haf2_haf5_clearshortrepeat.png -rw-r--r-- root/root 21150 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/haf5_haf2_contigcoverage.png -rw-r--r-- root/root 21611 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/haf5_haf2_contigcoverage_ovals.png -rw-r--r-- root/root 48961 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/haf5_repend_rrna.png -rw-r--r-- root/root 55878 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/haf_danger_join_notok.png -rw-r--r-- root/root 47555 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/haf_danger_join_ok.png -rw-r--r-- root/root 98082 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/ion_dh10bdirdepindel.png -rw-r--r-- root/root 100920 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/ion_dh10bgoodB13.png -rw-r--r-- root/root 143530 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/iontor_indelhpexample.png -rw-r--r-- root/root 67304 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/pb_c227-11-clcr_res.png -rw-r--r-- root/root 20985 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/pb_elasticdarkinserts01.png -rw-r--r-- root/root 21030 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/pb_elasticdarkinserts02.png -rw-r--r-- root/root 18636 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/pb_elasticdarkinserts03.png -rw-r--r-- root/root 22400 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/pb_elasticdarkinserts04.png -rw-r--r-- root/root 80496 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/results_mira2other.png -rw-r--r-- root/root 60664 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/results_miraconvert.png -rw-r--r-- root/root 30223 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/san_autoedit1.png -rw-r--r-- root/root 29634 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/san_autoedit2.png -rw-r--r-- root/root 52055 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/srmc_in_454sxahyb_1stpass.png -rw-r--r-- root/root 44833 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/srmc_in_454sxahyb_lastpass1.png -rw-r--r-- root/root 46329 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/srmc_in_454sxahyb_lastpass2.png -rw-r--r-- root/root 93548 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/sxa_cer_reads1.png -rw-r--r-- root/root 322771 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/sxa_cer_reads2.png -rw-r--r-- root/root 86120 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/sxa_gcbias_bias2009.png -rw-r--r-- root/root 204136 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/sxa_gcbias_comp20082009.png -rw-r--r-- root/root 68271 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/sxa_gcbias_nobias2008.png -rw-r--r-- root/root 41279 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/sxa_mcvc_lenski.png -rw-r--r-- root/root 42053 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/sxa_sroc_lenski1.png -rw-r--r-- root/root 42520 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/sxa_sroc_lenski2.png -rw-r--r-- root/root 44772 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/sxa_unsc_ggc1_lenski.png -rw-r--r-- root/root 45101 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/sxa_unsc_ggc2_lenski.png -rw-r--r-- root/root 43706 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/sxa_unsc_ggc3_lenski.png -rw-r--r-- root/root 42358 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/sxa_unsc_ggc4_lenski.png -rw-r--r-- root/root 44964 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/sxa_unsc_ggcxg1_lenski.png -rw-r--r-- root/root 42961 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/sxa_unsc_ggcxg2_lenski.png -rw-r--r-- root/root 46216 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/sxa_wrmcsrmc_hiding_lenski1.png -rw-r--r-- root/root 44994 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/sxa_xmastree_lenski1.png -rw-r--r-- root/root 46997 2018-07-17 13:01 ./usr/share/doc/mira-assembler/bookfigures/sxa_xmastree_lenski2.png drwxr-xr-x root/root 0 2018-07-17 13:01 ./usr/share/doc/mira-assembler/doccss/ -rw-r--r-- root/root 431 2018-07-17 13:01 ./usr/share/doc/mira-assembler/doccss/miradocstyle.css drwxr-xr-x root/root 0 2018-07-17 13:01 ./usr/share/doc/mira-assembler/images/ -rw-r--r-- root/root 427 2018-07-17 13:01 ./usr/share/doc/mira-assembler/images/README.txt -rw-r--r-- root/root 4144 2018-07-17 13:01 ./usr/share/doc/mira-assembler/images/note.png -rw-r--r-- root/root 3452 2018-07-17 13:01 ./usr/share/doc/mira-assembler/images/warning.png drwxr-xr-x root/root 0 2018-07-17 13:01 ./usr/share/doc/mira-doc/ -rw-r--r-- root/root 186 2017-06-12 22:29 ./usr/share/doc/mira-doc/README.Debian -rw-r--r-- root/root 1144 2018-07-17 13:01 ./usr/share/doc/mira-doc/changelog.Debian.gz -rw-r--r-- root/root 2400 2017-06-12 22:29 ./usr/share/doc/mira-doc/copyright mira-rfam-12s-rrna_4.9.6-3build3_all.deb ---------------------------------------- new debian package, version 2.0. size 10427544 bytes: control archive=1000 bytes. 740 bytes, 19 lines control 310 bytes, 4 lines md5sums 214 bytes, 10 lines * postinst #!/bin/bash 50 bytes, 7 lines * postrm #!/bin/bash Package: mira-rfam-12s-rrna Source: mira Version: 4.9.6-3build3 Architecture: all Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 10209 Pre-Depends: mira-assembler Suggests: mira-doc Section: science Priority: optional Homepage: http://chevreux.org/projects_mira.html Description: extract of RFAM 12 rRNA database The mira genome fragment assembler is a specialised assembler for sequencing projects classified as 'hard' due to high number of similar repeats. . This package contains data to enable MIRA and MIRABAIT to search for rRNA and rDNA. This data set contains an excerpt of the RFAM database. drwxr-xr-x root/root 0 2018-07-17 13:01 ./ drwxr-xr-x root/root 0 2018-07-17 13:01 ./usr/ drwxr-xr-x root/root 0 2018-07-17 13:01 ./usr/share/ drwxr-xr-x root/root 0 2018-07-17 13:01 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-07-17 13:01 ./usr/share/doc/mira-rfam-12s-rrna/ -rw-r--r-- root/root 1150 2018-07-17 13:01 ./usr/share/doc/mira-rfam-12s-rrna/changelog.Debian.gz -rw-r--r-- root/root 2400 2017-06-12 22:29 ./usr/share/doc/mira-rfam-12s-rrna/copyright drwxr-xr-x root/root 0 2018-07-17 13:01 ./usr/share/mira/ -rwxr-xr-x root/root 2548 2016-05-01 15:18 ./usr/share/mira/mira-install-sls-rrna.sh -rw-r--r-- root/root 10421035 2018-07-17 13:01 ./usr/share/mira/rfam_rrna-21-12.sls.gz +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build-Space: 1115660 Build-Time: 600 Distribution: cosmic-proposed Host Architecture: amd64 Install-Time: 111 Job: mira_4.9.6-3build3.dsc Machine Architecture: amd64 Package: mira Package-Time: 715 Source-Version: 4.9.6-3build3 Space: 1115660 Status: successful Version: 4.9.6-3build3 -------------------------------------------------------------------------------- Finished at 20180717-1702 Build needed 00:11:55, 1115660k disc space RUN: /usr/share/launchpad-buildd/slavebin/in-target scan-for-processes --backend=chroot --series=cosmic --arch=amd64 PACKAGEBUILD-15138244 Scanning for processes to kill in build PACKAGEBUILD-15138244