RUN: /usr/share/launchpad-buildd/slavebin/slave-prep ['slave-prep'] Forking launchpad-buildd slave process... Kernel version: Linux lgw01-58 3.19.0-39-generic #44~14.04.1-Ubuntu SMP Wed Dec 2 10:00:35 UTC 2015 x86_64 Buildd toolchain package versions: launchpad-buildd_135 python-lpbuildd_135 sbuild_0.65.2-1ubuntu2~ubuntu14.04.1~ppa6 bzr-builder_0.7.3+bzr174~ppa13~ubuntu14.04.1 bzr_2.6.0+bzr6593-1ubuntu1.1 dpkg-dev_1.17.5ubuntu5.5 python-debian_0.1.27ubuntu1~ubuntu14.04.1~ppa1. Syncing the system clock with the buildd NTP service... 10 Dec 11:14:07 ntpdate[1646]: adjust time server 10.211.37.1 offset 0.232753 sec RUN: /usr/share/launchpad-buildd/slavebin/unpack-chroot ['unpack-chroot', 'PACKAGEBUILD-8419884', '/home/buildd/filecache-default/8204889cda79fca0b488b979ea0c52fb9d6dbd17'] Unpacking chroot for build PACKAGEBUILD-8419884 RUN: /usr/share/launchpad-buildd/slavebin/mount-chroot ['mount-chroot', 'PACKAGEBUILD-8419884'] Mounting chroot for build PACKAGEBUILD-8419884 RUN: /usr/share/launchpad-buildd/slavebin/override-sources-list ['override-sources-list', 'PACKAGEBUILD-8419884', 'deb http://ftpmaster.internal/ubuntu xenial main universe', 'deb http://ftpmaster.internal/ubuntu xenial-security main universe', 'deb http://ftpmaster.internal/ubuntu xenial-updates main universe', 'deb http://ftpmaster.internal/ubuntu xenial-proposed main universe'] Overriding sources.list in build-PACKAGEBUILD-8419884 RUN: /usr/share/launchpad-buildd/slavebin/update-debian-chroot ['update-debian-chroot', 'PACKAGEBUILD-8419884', 'amd64'] Updating debian chroot for build PACKAGEBUILD-8419884 Get:1 http://ftpmaster.internal xenial InRelease [227 kB] Get:2 http://ftpmaster.internal xenial-security InRelease [73.5 kB] Get:3 http://ftpmaster.internal xenial-updates InRelease [73.5 kB] Get:4 http://ftpmaster.internal xenial-proposed InRelease [227 kB] Get:5 http://ftpmaster.internal xenial/main amd64 Packages [1450 kB] Get:6 http://ftpmaster.internal xenial/universe amd64 Packages [7066 kB] Get:7 http://ftpmaster.internal xenial/main Translation-en [845 kB] Get:8 http://ftpmaster.internal xenial/universe Translation-en [4748 kB] Get:9 http://ftpmaster.internal xenial-security/main amd64 Packages [28 B] Get:10 http://ftpmaster.internal xenial-security/universe amd64 Packages [28 B] Get:11 http://ftpmaster.internal xenial-security/main Translation-en [28 B] Get:12 http://ftpmaster.internal xenial-security/universe Translation-en [28 B] Get:13 http://ftpmaster.internal xenial-updates/main amd64 Packages [28 B] Get:14 http://ftpmaster.internal xenial-updates/universe amd64 Packages [28 B] Get:15 http://ftpmaster.internal xenial-updates/main Translation-en [28 B] Get:16 http://ftpmaster.internal xenial-updates/universe Translation-en [28 B] Get:17 http://ftpmaster.internal xenial-proposed/main amd64 Packages [105 kB] Get:18 http://ftpmaster.internal xenial-proposed/universe amd64 Packages [518 kB] Get:19 http://ftpmaster.internal xenial-proposed/main Translation-en [48.1 kB] Get:20 http://ftpmaster.internal xenial-proposed/universe Translation-en [300 kB] Fetched 15.7 MB in 6s (2393 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: libapt-pkg4.16 libisl13 libprocps3 udev Use 'apt-get autoremove' to remove them. The following NEW packages will be installed: libapt-pkg5.0 libisl15 libprocps4 The following packages will be upgraded: advancecomp apt apt-transport-https base-files binutils bsdutils cpp cpp-5 debconf diffutils dpkg dpkg-dev e2fslibs e2fsprogs findutils g++ g++-5 gcc gcc-5 gcc-5-base gnupg gpgv grep hostname init initscripts libapparmor1 libasan2 libatomic1 libaudit-common libaudit1 libblkid1 libc-bin libc-dev-bin libc6 libc6-dev libcap2 libcap2-bin libcc1-0 libcilkrts5 libcomerr2 libcurl3-gnutls libdbus-1-3 libdebconfclient0 libdpkg-perl libfdisk1 libgcc-5-dev libgcc1 libgcrypt20 libgmp10 libgnutls-deb0-28 libgomp1 libgpg-error0 libgssapi-krb5-2 libidn11 libitm1 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblsan0 libmount1 libmpx0 libncurses5 libncursesw5 libpng12-0 libquadmath0 libselinux1 libsemanage-common libsemanage1 libsepol1 libsmartcols1 libsqlite3-0 libss2 libssl1.0.0 libstdc++-5-dev libstdc++6 libsystemd0 libtasn1-6 libtinfo5 libtsan0 libubsan0 libudev1 libuuid1 linux-libc-dev lsb-base mount multiarch-support ncurses-base ncurses-bin openssl pkg-create-dbgsym pkgbinarymangler procps systemd systemd-sysv sysv-rc sysvinit-utils tar udev util-linux 101 upgraded, 3 newly installed, 0 to remove and 0 not upgraded. Need to get 129 MB of archives. After this operation, 357 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu/ xenial/main base-files amd64 9.4ubuntu3 [62.0 kB] Get:2 http://ftpmaster.internal/ubuntu/ xenial/main bsdutils amd64 1:2.27.1-1ubuntu3 [51.5 kB] Get:3 http://ftpmaster.internal/ubuntu/ xenial/main diffutils amd64 1:3.3-2 [156 kB] Get:4 http://ftpmaster.internal/ubuntu/ xenial/main dpkg amd64 1.18.3ubuntu1 [2081 kB] Get:5 http://ftpmaster.internal/ubuntu/ xenial/main libc6-dev amd64 2.21-0ubuntu5 [1951 kB] Get:6 http://ftpmaster.internal/ubuntu/ xenial/main libc-dev-bin amd64 2.21-0ubuntu5 [68.7 kB] Get:7 http://ftpmaster.internal/ubuntu/ xenial/main linux-libc-dev amd64 4.3.0-2.11 [814 kB] Get:8 http://ftpmaster.internal/ubuntu/ xenial/main libcap2 amd64 1:2.24-12 [12.9 kB] Get:9 http://ftpmaster.internal/ubuntu/ xenial/main libc-bin amd64 2.21-0ubuntu5 [1172 kB] Get:10 http://ftpmaster.internal/ubuntu/ xenial/main libgomp1 amd64 5.3.1-3ubuntu1 [55.0 kB] Get:11 http://ftpmaster.internal/ubuntu/ xenial/main libitm1 amd64 5.3.1-3ubuntu1 [27.4 kB] Get:12 http://ftpmaster.internal/ubuntu/ xenial/main libatomic1 amd64 5.3.1-3ubuntu1 [8886 B] Get:13 http://ftpmaster.internal/ubuntu/ xenial/main libasan2 amd64 5.3.1-3ubuntu1 [269 kB] Get:14 http://ftpmaster.internal/ubuntu/ xenial/main liblsan0 amd64 5.3.1-3ubuntu1 [110 kB] Get:15 http://ftpmaster.internal/ubuntu/ xenial/main libtsan0 amd64 5.3.1-3ubuntu1 [249 kB] Get:16 http://ftpmaster.internal/ubuntu/ xenial/main gcc-5-base amd64 5.3.1-3ubuntu1 [16.4 kB] Get:17 http://ftpmaster.internal/ubuntu/ xenial/main libgcc1 amd64 1:5.3.1-3ubuntu1 [38.8 kB] Get:18 http://ftpmaster.internal/ubuntu/ xenial/main libubsan0 amd64 5.3.1-3ubuntu1 [100 kB] Get:19 http://ftpmaster.internal/ubuntu/ xenial/main libcilkrts5 amd64 5.3.1-3ubuntu1 [40.1 kB] Get:20 http://ftpmaster.internal/ubuntu/ xenial/main libmpx0 amd64 5.3.1-3ubuntu1 [9762 B] Get:21 http://ftpmaster.internal/ubuntu/ xenial/main libquadmath0 amd64 5.3.1-3ubuntu1 [131 kB] Get:22 http://ftpmaster.internal/ubuntu/ xenial/main libisl15 amd64 0.15-3 [514 kB] Get:23 http://ftpmaster.internal/ubuntu/ xenial/main cpp-5 amd64 5.3.1-3ubuntu1 [30.1 MB] Get:24 http://ftpmaster.internal/ubuntu/ xenial/main libcc1-0 amd64 5.3.1-3ubuntu1 [38.9 kB] Get:25 http://ftpmaster.internal/ubuntu/ xenial-proposed/main binutils amd64 2.25.90.20151209-1ubuntu1 [2310 kB] Get:26 http://ftpmaster.internal/ubuntu/ xenial/main g++-5 amd64 5.3.1-3ubuntu1 [32.4 MB] Get:27 http://ftpmaster.internal/ubuntu/ xenial/main gcc-5 amd64 5.3.1-3ubuntu1 [30.4 MB] Get:28 http://ftpmaster.internal/ubuntu/ xenial/main libgcc-5-dev amd64 5.3.1-3ubuntu1 [2231 kB] Get:29 http://ftpmaster.internal/ubuntu/ xenial/main libstdc++-5-dev amd64 5.3.1-3ubuntu1 [1404 kB] Get:30 http://ftpmaster.internal/ubuntu/ xenial/main libstdc++6 amd64 5.3.1-3ubuntu1 [393 kB] Get:31 http://ftpmaster.internal/ubuntu/ xenial/main libgmp10 amd64 2:6.1.0+dfsg-2 [240 kB] Get:32 http://ftpmaster.internal/ubuntu/ xenial/main libc6 amd64 2.21-0ubuntu5 [4789 kB] Get:33 http://ftpmaster.internal/ubuntu/ xenial/main e2fslibs amd64 1.42.13-1ubuntu1 [188 kB] Get:34 http://ftpmaster.internal/ubuntu/ xenial/main e2fsprogs amd64 1.42.13-1ubuntu1 [771 kB] Get:35 http://ftpmaster.internal/ubuntu/ xenial/main findutils amd64 4.4.2-10 [281 kB] Get:36 http://ftpmaster.internal/ubuntu/ xenial-proposed/main grep amd64 2.22-1 [149 kB] Get:37 http://ftpmaster.internal/ubuntu/ xenial/main hostname amd64 3.16ubuntu2 [11.5 kB] Get:38 http://ftpmaster.internal/ubuntu/ xenial/main init amd64 1.24ubuntu2 [3966 B] Get:39 http://ftpmaster.internal/ubuntu/ xenial/main libsmartcols1 amd64 2.27.1-1ubuntu3 [62.3 kB] Get:40 http://ftpmaster.internal/ubuntu/ xenial/main libuuid1 amd64 2.27.1-1ubuntu3 [14.7 kB] Get:41 http://ftpmaster.internal/ubuntu/ xenial/main libblkid1 amd64 2.27.1-1ubuntu3 [107 kB] Get:42 http://ftpmaster.internal/ubuntu/ xenial/main libfdisk1 amd64 2.27.1-1ubuntu3 [139 kB] Get:43 http://ftpmaster.internal/ubuntu/ xenial/main debconf all 1.5.58ubuntu1 [136 kB] Get:44 http://ftpmaster.internal/ubuntu/ xenial/main sysvinit-utils amd64 2.88dsf-59.2ubuntu3 [25.7 kB] Get:45 http://ftpmaster.internal/ubuntu/ xenial/main sysv-rc all 2.88dsf-59.2ubuntu3 [36.1 kB] Get:46 http://ftpmaster.internal/ubuntu/ xenial/main initscripts amd64 2.88dsf-59.2ubuntu3 [24.8 kB] Get:47 http://ftpmaster.internal/ubuntu/ xenial/main util-linux amd64 2.27.1-1ubuntu3 [847 kB] Get:48 http://ftpmaster.internal/ubuntu/ xenial/main libudev1 amd64 228-2ubuntu1 [56.4 kB] Get:49 http://ftpmaster.internal/ubuntu/ xenial/main udev amd64 228-2ubuntu1 [980 kB] Get:50 http://ftpmaster.internal/ubuntu/ xenial/main libsystemd0 amd64 228-2ubuntu1 [203 kB] Get:51 http://ftpmaster.internal/ubuntu/ xenial/main systemd amd64 228-2ubuntu1 [3491 kB] Get:52 http://ftpmaster.internal/ubuntu/ xenial/main libselinux1 amd64 2.4-3 [56.0 kB] Get:53 http://ftpmaster.internal/ubuntu/ xenial/main libtinfo5 amd64 6.0+20151024-2ubuntu1 [77.1 kB] Get:54 http://ftpmaster.internal/ubuntu/ xenial/main libncurses5 amd64 6.0+20151024-2ubuntu1 [93.9 kB] Get:55 http://ftpmaster.internal/ubuntu/ xenial/main libncursesw5 amd64 6.0+20151024-2ubuntu1 [116 kB] Get:56 http://ftpmaster.internal/ubuntu/ xenial/main libprocps4 amd64 2:3.3.10-4ubuntu1 [32.8 kB] Get:57 http://ftpmaster.internal/ubuntu/ xenial/main procps amd64 2:3.3.10-4ubuntu1 [222 kB] Get:58 http://ftpmaster.internal/ubuntu/ xenial/main libapparmor1 amd64 2.10-0ubuntu8 [29.1 kB] Get:59 http://ftpmaster.internal/ubuntu/ xenial/main libaudit-common all 1:2.4.4-4ubuntu1 [3892 B] Get:60 http://ftpmaster.internal/ubuntu/ xenial/main libaudit1 amd64 1:2.4.4-4ubuntu1 [36.3 kB] Get:61 http://ftpmaster.internal/ubuntu/ xenial/main libmount1 amd64 2.27.1-1ubuntu3 [114 kB] Get:62 http://ftpmaster.internal/ubuntu/ xenial/main libcap2-bin amd64 1:2.24-12 [20.2 kB] Get:63 http://ftpmaster.internal/ubuntu/ xenial/main lsb-base all 9.20150917ubuntu1 [13.4 kB] Get:64 http://ftpmaster.internal/ubuntu/ xenial/main mount amd64 2.27.1-1ubuntu3 [121 kB] Get:65 http://ftpmaster.internal/ubuntu/ xenial/main ncurses-bin amd64 6.0+20151024-2ubuntu1 [135 kB] Get:66 http://ftpmaster.internal/ubuntu/ xenial/main tar amd64 1.28-2.1 [209 kB] Get:67 http://ftpmaster.internal/ubuntu/ xenial-proposed/main libapt-pkg5.0 amd64 1.1.4 [676 kB] Get:68 http://ftpmaster.internal/ubuntu/ xenial-proposed/main apt amd64 1.1.4 [961 kB] Get:69 http://ftpmaster.internal/ubuntu/ xenial/main gpgv amd64 1.4.19-6ubuntu1 [165 kB] Get:70 http://ftpmaster.internal/ubuntu/ xenial/main gnupg amd64 1.4.19-6ubuntu1 [626 kB] Get:71 http://ftpmaster.internal/ubuntu/ xenial/main ncurses-base all 6.0+20151024-2ubuntu1 [17.1 kB] Get:72 http://ftpmaster.internal/ubuntu/ xenial/main systemd-sysv amd64 228-2ubuntu1 [14.9 kB] Get:73 http://ftpmaster.internal/ubuntu/ xenial/main libcomerr2 amd64 1.42.13-1ubuntu1 [65.7 kB] Get:74 http://ftpmaster.internal/ubuntu/ xenial/main libdebconfclient0 amd64 0.198ubuntu1 [6368 B] Get:75 http://ftpmaster.internal/ubuntu/ xenial/main libgpg-error0 amd64 1.20-1 [32.8 kB] Get:76 http://ftpmaster.internal/ubuntu/ xenial/main libgcrypt20 amd64 1.6.4-3 [336 kB] Get:77 http://ftpmaster.internal/ubuntu/ xenial/main libsepol1 amd64 2.4-2 [186 kB] Get:78 http://ftpmaster.internal/ubuntu/ xenial-proposed/main libsemanage-common all 2.4-3 [6744 B] Get:79 http://ftpmaster.internal/ubuntu/ xenial-proposed/main libsemanage1 amd64 2.4-3 [79.3 kB] Get:80 http://ftpmaster.internal/ubuntu/ xenial/main libss2 amd64 1.42.13-1ubuntu1 [70.0 kB] Get:81 http://ftpmaster.internal/ubuntu/ xenial/main multiarch-support amd64 2.21-0ubuntu5 [7174 B] Get:82 http://ftpmaster.internal/ubuntu/ xenial/main libtasn1-6 amd64 4.7-2 [43.1 kB] Get:83 http://ftpmaster.internal/ubuntu/ xenial/main libgnutls-deb0-28 amd64 3.3.18-1ubuntu1 [520 kB] Get:84 http://ftpmaster.internal/ubuntu/ xenial/main libpng12-0 amd64 1.2.54-1 [116 kB] Get:85 http://ftpmaster.internal/ubuntu/ xenial/main libsqlite3-0 amd64 3.9.2-1 [395 kB] Get:86 http://ftpmaster.internal/ubuntu/ xenial/main libssl1.0.0 amd64 1.0.2e-1ubuntu1 [1080 kB] Get:87 http://ftpmaster.internal/ubuntu/ xenial/main libgssapi-krb5-2 amd64 1.13.2+dfsg-4 [120 kB] Get:88 http://ftpmaster.internal/ubuntu/ xenial/main libkrb5-3 amd64 1.13.2+dfsg-4 [274 kB] Get:89 http://ftpmaster.internal/ubuntu/ xenial/main libkrb5support0 amd64 1.13.2+dfsg-4 [30.4 kB] Get:90 http://ftpmaster.internal/ubuntu/ xenial/main libk5crypto3 amd64 1.13.2+dfsg-4 [81.3 kB] Get:91 http://ftpmaster.internal/ubuntu/ xenial-proposed/main libkeyutils1 amd64 1.5.9-8 [9824 B] Get:92 http://ftpmaster.internal/ubuntu/ xenial/main libidn11 amd64 1.32-3ubuntu1 [45.5 kB] Get:93 http://ftpmaster.internal/ubuntu/ xenial/main libcurl3-gnutls amd64 7.45.0-1ubuntu1 [183 kB] Get:94 http://ftpmaster.internal/ubuntu/ xenial-proposed/main apt-transport-https amd64 1.1.4 [25.3 kB] Get:95 http://ftpmaster.internal/ubuntu/ xenial-proposed/main libdbus-1-3 amd64 1.10.6-1ubuntu1 [161 kB] Get:96 http://ftpmaster.internal/ubuntu/ xenial/main openssl amd64 1.0.2e-1ubuntu1 [491 kB] Get:97 http://ftpmaster.internal/ubuntu/ xenial/main advancecomp amd64 1.20-1 [160 kB] Get:98 http://ftpmaster.internal/ubuntu/ xenial/main cpp amd64 4:5.2.1-16ubuntu2 [27.6 kB] Get:99 http://ftpmaster.internal/ubuntu/ xenial/main dpkg-dev all 1.18.3ubuntu1 [583 kB] Get:100 http://ftpmaster.internal/ubuntu/ xenial/main libdpkg-perl all 1.18.3ubuntu1 [195 kB] Get:101 http://ftpmaster.internal/ubuntu/ xenial/main gcc amd64 4:5.2.1-16ubuntu2 [5208 B] Get:102 http://ftpmaster.internal/ubuntu/ xenial/main g++ amd64 4:5.2.1-16ubuntu2 [1506 B] Get:103 http://ftpmaster.internal/ubuntu/ xenial/main pkg-create-dbgsym all 0.70 [9046 B] Get:104 http://ftpmaster.internal/ubuntu/ xenial/main pkgbinarymangler all 125 [41.9 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 129 MB in 17s (7182 kB/s) (Reading database ... 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Processing triggers for libc-bin (2.21-0ubuntu5) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11698 files and directories currently installed.) Preparing to unpack .../libncurses5_6.0+20151024-2ubuntu1_amd64.deb ... Unpacking libncurses5:amd64 (6.0+20151024-2ubuntu1) over (5.9+20150516-2ubuntu1) ... Processing triggers for libc-bin (2.21-0ubuntu5) ... Setting up libncurses5:amd64 (6.0+20151024-2ubuntu1) ... Processing triggers for libc-bin (2.21-0ubuntu5) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11698 files and directories currently installed.) Preparing to unpack .../libncursesw5_6.0+20151024-2ubuntu1_amd64.deb ... Unpacking libncursesw5:amd64 (6.0+20151024-2ubuntu1) over (5.9+20150516-2ubuntu1) ... Processing triggers for libc-bin (2.21-0ubuntu5) ... Setting up libncursesw5:amd64 (6.0+20151024-2ubuntu1) ... Processing triggers for libc-bin (2.21-0ubuntu5) ... Selecting previously unselected package libprocps4:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11698 files and directories currently installed.) Preparing to unpack .../libprocps4_2%3a3.3.10-4ubuntu1_amd64.deb ... Unpacking libprocps4:amd64 (2:3.3.10-4ubuntu1) ... Preparing to unpack .../procps_2%3a3.3.10-4ubuntu1_amd64.deb ... Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of stop. Unpacking procps (2:3.3.10-4ubuntu1) over (1:3.3.9-1ubuntu8) ... 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Preparing to unpack .../libaudit-common_1%3a2.4.4-4ubuntu1_all.deb ... Unpacking libaudit-common (1:2.4.4-4ubuntu1) over (1:2.4.2-1ubuntu1) ... Setting up libaudit-common (1:2.4.4-4ubuntu1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11707 files and directories currently installed.) Preparing to unpack .../libaudit1_1%3a2.4.4-4ubuntu1_amd64.deb ... Unpacking libaudit1:amd64 (1:2.4.4-4ubuntu1) over (1:2.4.2-1ubuntu1) ... Processing triggers for libc-bin (2.21-0ubuntu5) ... Setting up libaudit1:amd64 (1:2.4.4-4ubuntu1) ... Processing triggers for libc-bin (2.21-0ubuntu5) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11707 files and directories currently installed.) Preparing to unpack .../libmount1_2.27.1-1ubuntu3_amd64.deb ... Unpacking libmount1:amd64 (2.27.1-1ubuntu3) over (2.26.2-6ubuntu3) ... Processing triggers for libc-bin (2.21-0ubuntu5) ... Setting up libmount1:amd64 (2.27.1-1ubuntu3) ... Processing triggers for libc-bin (2.21-0ubuntu5) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11707 files and directories currently installed.) Preparing to unpack .../libcap2-bin_1%3a2.24-12_amd64.deb ... Unpacking libcap2-bin (1:2.24-12) over (1:2.24-9) ... Setting up libcap2-bin (1:2.24-12) ... (Reading database ... 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Processing triggers for libc-bin (2.21-0ubuntu5) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11731 files and directories currently installed.) Preparing to unpack .../gpgv_1.4.19-6ubuntu1_amd64.deb ... Unpacking gpgv (1.4.19-6ubuntu1) over (1.4.18-7ubuntu1) ... Setting up gpgv (1.4.19-6ubuntu1) ... (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11731 files and directories currently installed.) Preparing to unpack .../multiarch-support_2.21-0ubuntu5_amd64.deb ... Unpacking multiarch-support (2.21-0ubuntu5) over (2.21-0ubuntu4) ... Setting up multiarch-support (2.21-0ubuntu5) ... (Reading database ... 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Unpacking libidn11:amd64 (1.32-3ubuntu1) over (1.28-1ubuntu2) ... Preparing to unpack .../libcurl3-gnutls_7.45.0-1ubuntu1_amd64.deb ... Unpacking libcurl3-gnutls:amd64 (7.45.0-1ubuntu1) over (7.43.0-1ubuntu2) ... Preparing to unpack .../apt-transport-https_1.1.4_amd64.deb ... Unpacking apt-transport-https (1.1.4) over (1.0.10.2ubuntu1) ... Preparing to unpack .../libdbus-1-3_1.10.6-1ubuntu1_amd64.deb ... Unpacking libdbus-1-3:amd64 (1.10.6-1ubuntu1) over (1.10.0-1ubuntu1) ... Preparing to unpack .../openssl_1.0.2e-1ubuntu1_amd64.deb ... Unpacking openssl (1.0.2e-1ubuntu1) over (1.0.2d-0ubuntu1) ... Preparing to unpack .../advancecomp_1.20-1_amd64.deb ... Unpacking advancecomp (1.20-1) over (1.19-1) ... Preparing to unpack .../cpp_4%3a5.2.1-16ubuntu2_amd64.deb ... Unpacking cpp (4:5.2.1-16ubuntu2) over (4:5.2.1-3ubuntu1) ... Preparing to unpack .../dpkg-dev_1.18.3ubuntu1_all.deb ... Unpacking dpkg-dev (1.18.3ubuntu1) over (1.18.2ubuntu5) ... Preparing to unpack .../libdpkg-perl_1.18.3ubuntu1_all.deb ... Unpacking libdpkg-perl (1.18.3ubuntu1) over (1.18.2ubuntu5) ... Preparing to unpack .../gcc_4%3a5.2.1-16ubuntu2_amd64.deb ... Removing old gcc doc directory. Unpacking gcc (4:5.2.1-16ubuntu2) over (4:5.2.1-3ubuntu1) ... Preparing to unpack .../g++_4%3a5.2.1-16ubuntu2_amd64.deb ... Unpacking g++ (4:5.2.1-16ubuntu2) over (4:5.2.1-3ubuntu1) ... Preparing to unpack .../pkg-create-dbgsym_0.70_all.deb ... Unpacking pkg-create-dbgsym (0.70) over (0.69) ... Preparing to unpack .../pkgbinarymangler_125_all.deb ... Unpacking pkgbinarymangler (125) over (122) ... Processing triggers for libc-bin (2.21-0ubuntu5) ... Setting up libc-dev-bin (2.21-0ubuntu5) ... Setting up linux-libc-dev:amd64 (4.3.0-2.11) ... Setting up libc6-dev:amd64 (2.21-0ubuntu5) ... Setting up libgomp1:amd64 (5.3.1-3ubuntu1) ... Setting up libitm1:amd64 (5.3.1-3ubuntu1) ... Setting up libatomic1:amd64 (5.3.1-3ubuntu1) ... Setting up libasan2:amd64 (5.3.1-3ubuntu1) ... Setting up liblsan0:amd64 (5.3.1-3ubuntu1) ... Setting up libtsan0:amd64 (5.3.1-3ubuntu1) ... Setting up libubsan0:amd64 (5.3.1-3ubuntu1) ... Setting up libcilkrts5:amd64 (5.3.1-3ubuntu1) ... Setting up libmpx0:amd64 (5.3.1-3ubuntu1) ... Setting up libquadmath0:amd64 (5.3.1-3ubuntu1) ... Setting up libgmp10:amd64 (2:6.1.0+dfsg-2) ... Setting up libisl15:amd64 (0.15-3) ... Setting up cpp-5 (5.3.1-3ubuntu1) ... Setting up libcc1-0:amd64 (5.3.1-3ubuntu1) ... Setting up binutils (2.25.90.20151209-1ubuntu1) ... Setting up libgcc-5-dev:amd64 (5.3.1-3ubuntu1) ... Setting up gcc-5 (5.3.1-3ubuntu1) ... Setting up libstdc++-5-dev:amd64 (5.3.1-3ubuntu1) ... Setting up g++-5 (5.3.1-3ubuntu1) ... Setting up libprocps4:amd64 (2:3.3.10-4ubuntu1) ... Setting up procps (2:3.3.10-4ubuntu1) ... 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 udev (228-2ubuntu1) ... Installing new version of config file /etc/init.d/udev ... addgroup: The group `input' already exists as a system group. Exiting. virtio network devices detected, disabling predictable interface names in /etc/systemd/network/50-virtio-kernel-names.link Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of restart. Setting up apt (1.1.4) ... Installing new version of config file /etc/apt/apt.conf.d/01-vendor-ubuntu ... Installing new version of config file /etc/apt/apt.conf.d/01autoremove ... Installing new version of config file /etc/cron.daily/apt ... Installing new version of config file /etc/kernel/postinst.d/apt-auto-removal ... usermod: no changes Setting up libtasn1-6:amd64 (4.7-2) ... Setting up libgnutls-deb0-28:amd64 (3.3.18-1ubuntu1) ... Setting up libpng12-0:amd64 (1.2.54-1) ... Setting up libsqlite3-0:amd64 (3.9.2-1) ... Setting up libssl1.0.0:amd64 (1.0.2e-1ubuntu1) ... Setting up libkrb5support0:amd64 (1.13.2+dfsg-4) ... Setting up libk5crypto3:amd64 (1.13.2+dfsg-4) ... Setting up libkeyutils1:amd64 (1.5.9-8) ... Setting up libkrb5-3:amd64 (1.13.2+dfsg-4) ... Setting up libgssapi-krb5-2:amd64 (1.13.2+dfsg-4) ... Setting up libidn11:amd64 (1.32-3ubuntu1) ... Setting up libcurl3-gnutls:amd64 (7.45.0-1ubuntu1) ... Setting up apt-transport-https (1.1.4) ... Setting up libdbus-1-3:amd64 (1.10.6-1ubuntu1) ... Setting up openssl (1.0.2e-1ubuntu1) ... Setting up advancecomp (1.20-1) ... Setting up cpp (4:5.2.1-16ubuntu2) ... Setting up libdpkg-perl (1.18.3ubuntu1) ... Setting up dpkg-dev (1.18.3ubuntu1) ... Setting up gcc (4:5.2.1-16ubuntu2) ... Setting up g++ (4:5.2.1-16ubuntu2) ... Setting up pkg-create-dbgsym (0.70) ... Setting up pkgbinarymangler (125) ... Processing triggers for libc-bin (2.21-0ubuntu5) ... Processing triggers for systemd (228-2ubuntu1) ... RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package ['sbuild-package', 'PACKAGEBUILD-8419884', 'amd64', 'xenial-proposed', '-c', 'chroot:autobuild', '--arch=amd64', '--dist=xenial-proposed', '--purge=never', '--nolog', '-A', 'ncbi-tools6_6.1.20120620-10.dsc'] Initiating build PACKAGEBUILD-8419884 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 3.19.0-39-generic #44~14.04.1-Ubuntu SMP Wed Dec 2 10:00:35 UTC 2015 x86_64 sbuild (Debian sbuild) 0.65.2 (24 Mar 2015) on lgw01-58.buildd ╔══════════════════════════════════════════════════════════════════════════════╗ ║ ncbi-tools6 6.1.20120620-10 (amd64) 10 Dec 2015 11:15 ║ ╚══════════════════════════════════════════════════════════════════════════════╝ Package: ncbi-tools6 Version: 6.1.20120620-10 Source Version: 6.1.20120620-10 Distribution: xenial-proposed Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 I: NOTICE: Log filtering will replace 'build/ncbi-tools6-UvDUY1/ncbi-tools6-6.1.20120620' with '«PKGBUILDDIR»' I: NOTICE: Log filtering will replace 'build/ncbi-tools6-UvDUY1' with '«BUILDDIR»' I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-8419884/chroot-autobuild' with '«CHROOT»' ┌──────────────────────────────────────────────────────────────────────────────┐ │ Fetch source files │ └──────────────────────────────────────────────────────────────────────────────┘ Local sources ───────────── ncbi-tools6_6.1.20120620-10.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 '/«BUILDDIR»/resolver-0RJYbQ/apt_archive/sbuild-build-depends-core-dummy.deb'. Get:1 file:/«BUILDDIR»/resolver-0RJYbQ/apt_archive ./ InRelease Ign:1 file:/«BUILDDIR»/resolver-0RJYbQ/apt_archive ./ InRelease Get:2 file:/«BUILDDIR»/resolver-0RJYbQ/apt_archive ./ Release [2119 B] Get:2 file:/«BUILDDIR»/resolver-0RJYbQ/apt_archive ./ Release [2119 B] Get:3 file:/«BUILDDIR»/resolver-0RJYbQ/apt_archive ./ Release.gpg Ign:3 file:/«BUILDDIR»/resolver-0RJYbQ/apt_archive ./ Release.gpg Get:4 file:/«BUILDDIR»/resolver-0RJYbQ/apt_archive ./ Sources [208 B] Get:5 file:/«BUILDDIR»/resolver-0RJYbQ/apt_archive ./ Packages [526 B] Ign:4 file:/«BUILDDIR»/resolver-0RJYbQ/apt_archive ./ Sources Ign:5 file:/«BUILDDIR»/resolver-0RJYbQ/apt_archive ./ Packages Get:4 file:/«BUILDDIR»/resolver-0RJYbQ/apt_archive ./ Sources [208 B] Get:5 file:/«BUILDDIR»/resolver-0RJYbQ/apt_archive ./ Packages [526 B] Reading package lists... W: The repository 'file:/«BUILDDIR»/resolver-0RJYbQ/apt_archive ./ Release' is not signed. 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: libapt-pkg4.16 libisl13 libprocps3 udev Use 'sudo 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 0 B/772 B of archives. After this operation, 0 B of additional disk space will be used. WARNING: The following packages cannot be authenticated! sbuild-build-depends-core-dummy Authentication warning overridden. Get:1 file:/«BUILDDIR»/resolver-0RJYbQ/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [772 B] debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11727 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy.deb ... Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... Merged Build-Depends: base-files, base-passwd, bash, bsdutils, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, init, libc-bin, login, mount, ncurses-base, ncurses-bin, perl-base, sed, tar, util-linux, libc6-dev | libc-dev, gcc (>= 4:5.2), g++ (>= 4:5.2), make, dpkg-dev (>= 1.17.11), debhelper (>= 9), csh | c-shell, libglu1-mesa-dev | libglu-dev, libmotif-dev, libpcre3-dev, libpng-dev, libxmu-dev, dpkg-dev (>= 1.16.2~), icoutils, imagemagick Filtered Build-Depends: base-files, base-passwd, bash, bsdutils, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, init, libc-bin, login, mount, ncurses-base, ncurses-bin, perl-base, sed, tar, util-linux, libc6-dev | libc-dev, gcc (>= 4:5.2), g++ (>= 4:5.2), make, dpkg-dev (>= 1.17.11), debhelper (>= 9), csh | c-shell, libglu1-mesa-dev | libglu-dev, libmotif-dev, libpcre3-dev, libpng-dev, libxmu-dev, dpkg-dev (>= 1.16.2~), icoutils, imagemagick dpkg-deb: building package 'sbuild-build-depends-ncbi-tools6-dummy' in '/«BUILDDIR»/resolver-6jaI75/apt_archive/sbuild-build-depends-ncbi-tools6-dummy.deb'. Get:1 file:/«BUILDDIR»/resolver-6jaI75/apt_archive ./ InRelease Ign:1 file:/«BUILDDIR»/resolver-6jaI75/apt_archive ./ InRelease Get:2 file:/«BUILDDIR»/resolver-6jaI75/apt_archive ./ Release [2119 B] Get:2 file:/«BUILDDIR»/resolver-6jaI75/apt_archive ./ Release [2119 B] Get:3 file:/«BUILDDIR»/resolver-6jaI75/apt_archive ./ Release.gpg Ign:3 file:/«BUILDDIR»/resolver-6jaI75/apt_archive ./ Release.gpg Get:4 file:/«BUILDDIR»/resolver-6jaI75/apt_archive ./ Sources [496 B] Ign:4 file:/«BUILDDIR»/resolver-6jaI75/apt_archive ./ Sources Get:5 file:/«BUILDDIR»/resolver-6jaI75/apt_archive ./ Packages [748 B] Ign:5 file:/«BUILDDIR»/resolver-6jaI75/apt_archive ./ Packages Get:4 file:/«BUILDDIR»/resolver-6jaI75/apt_archive ./ Sources [496 B] Get:5 file:/«BUILDDIR»/resolver-6jaI75/apt_archive ./ Packages [748 B] Reading package lists... W: The repository 'file:/«BUILDDIR»/resolver-6jaI75/apt_archive ./ Release' is not signed. Reading package lists... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Install ncbi-tools6 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: libapt-pkg4.16 libisl13 libprocps3 udev Use 'sudo apt autoremove' to remove them. The following additional packages will be installed: bsdmainutils csh debhelper dh-strip-nondeterminism file fontconfig-config fonts-dejavu-core gettext gettext-base groff-base hicolor-icon-theme icoutils imagemagick imagemagick-6.q16 imagemagick-common intltool-debian libarchive-zip-perl libasprintf0v5 libbsd0 libcroco3 libdrm-amdgpu1 libdrm-dev libdrm-intel1 libdrm-nouveau2 libdrm-radeon1 libdrm2 libedit2 libelf1 libencode-locale-perl libexpat1 libfftw3-double3 libfile-listing-perl libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libgl1-mesa-dev libgl1-mesa-dri libgl1-mesa-glx libglapi-mesa libglib2.0-0 libglu1-mesa libglu1-mesa-dev libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl libhttp-cookies-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libice-dev libice6 libicu55 libio-html-perl libio-socket-ssl-perl libjbig0 libjpeg-turbo8 libjpeg8 liblcms2-2 libllvm3.6v5 liblqr-1-0 libltdl7 liblwp-mediatypes-perl liblwp-protocol-https-perl libmagic1 libmagickcore-6.q16-2 libmagickwand-6.q16-2 libmotif-common libmotif-dev libmrm4 libnet-http-perl libnet-ssleay-perl libpciaccess0 libpcre16-3 libpcre3-dev libpcre32-3 libpcrecpp0v5 libpipeline1 libpng12-dev libpthread-stubs0-dev libsm-dev libsm6 libtiff5 libtimedate-perl libuil4 libunistring0 liburi-perl libwww-perl libwww-robotrules-perl libx11-6 libx11-data libx11-dev libx11-xcb-dev libx11-xcb1 libxau-dev libxau6 libxcb-dri2-0 libxcb-dri2-0-dev libxcb-dri3-0 libxcb-dri3-dev libxcb-glx0 libxcb-glx0-dev libxcb-present-dev libxcb-present0 libxcb-randr0 libxcb-randr0-dev libxcb-render0 libxcb-render0-dev libxcb-shape0 libxcb-shape0-dev libxcb-sync-dev libxcb-sync1 libxcb-xfixes0 libxcb-xfixes0-dev libxcb1 libxcb1-dev libxdamage-dev libxdamage1 libxdmcp-dev libxdmcp6 libxext-dev libxext6 libxfixes-dev libxfixes3 libxft2 libxm4 libxml2 libxmu-dev libxmu-headers libxmu6 libxrender1 libxshmfence-dev libxshmfence1 libxt-dev libxt6 libxxf86vm-dev libxxf86vm1 man-db mesa-common-dev netbase po-debconf ucf uil x11-common x11proto-core-dev x11proto-damage-dev x11proto-dri2-dev x11proto-fixes-dev x11proto-gl-dev x11proto-input-dev x11proto-kb-dev x11proto-xext-dev x11proto-xf86vidmode-dev xorg-sgml-doctools xtrans-dev zlib1g-dev Suggested packages: wamerican | wordlist whois vacation dh-make gettext-doc groff libterm-readline-gnu-perl | libterm-readline-perl-perl imagemagick-doc autotrace cups-bsd | lpr | lprng curl enscript ffmpeg gimp gnuplot grads graphviz hp2xx html2ps libwmf-bin mplayer povray radiance sane-utils texlive-base-bin transfig ufraw-batch xdg-utils libfftw3-bin libfftw3-dev libdata-dump-perl libice-doc liblcms2-utils libcrypt-ssleay-perl libmagickcore-6.q16-2-extra pciutils libsm-doc libauthen-ntlm-perl libxcb-doc libxext-doc libxt-doc less www-browser libmail-box-perl Recommended packages: curl | wget | lynx-cur libasprintf-dev libgettextpo-dev libmagickcore-6.q16-2-extra ghostscript netpbm libtxc-dxtn-s2tc0 | libtxc-dxtn0 libglib2.0-data shared-mime-info xdg-user-dirs libhtml-format-perl gsfonts libhtml-form-perl libhttp-daemon-perl libmailtools-perl libx11-doc xml-core ifupdown libmail-sendmail-perl The following NEW packages will be installed: bsdmainutils csh debhelper dh-strip-nondeterminism file fontconfig-config fonts-dejavu-core gettext gettext-base groff-base hicolor-icon-theme icoutils imagemagick imagemagick-6.q16 imagemagick-common intltool-debian libarchive-zip-perl libasprintf0v5 libbsd0 libcroco3 libdrm-amdgpu1 libdrm-dev libdrm-intel1 libdrm-nouveau2 libdrm-radeon1 libdrm2 libedit2 libelf1 libencode-locale-perl libexpat1 libfftw3-double3 libfile-listing-perl libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libgl1-mesa-dev libgl1-mesa-dri libgl1-mesa-glx libglapi-mesa libglib2.0-0 libglu1-mesa libglu1-mesa-dev libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl libhttp-cookies-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libice-dev libice6 libicu55 libio-html-perl libio-socket-ssl-perl libjbig0 libjpeg-turbo8 libjpeg8 liblcms2-2 libllvm3.6v5 liblqr-1-0 libltdl7 liblwp-mediatypes-perl liblwp-protocol-https-perl libmagic1 libmagickcore-6.q16-2 libmagickwand-6.q16-2 libmotif-common libmotif-dev libmrm4 libnet-http-perl libnet-ssleay-perl libpciaccess0 libpcre16-3 libpcre3-dev libpcre32-3 libpcrecpp0v5 libpipeline1 libpng12-dev libpthread-stubs0-dev libsm-dev libsm6 libtiff5 libtimedate-perl libuil4 libunistring0 liburi-perl libwww-perl libwww-robotrules-perl libx11-6 libx11-data libx11-dev libx11-xcb-dev libx11-xcb1 libxau-dev libxau6 libxcb-dri2-0 libxcb-dri2-0-dev libxcb-dri3-0 libxcb-dri3-dev libxcb-glx0 libxcb-glx0-dev libxcb-present-dev libxcb-present0 libxcb-randr0 libxcb-randr0-dev libxcb-render0 libxcb-render0-dev libxcb-shape0 libxcb-shape0-dev libxcb-sync-dev libxcb-sync1 libxcb-xfixes0 libxcb-xfixes0-dev libxcb1 libxcb1-dev libxdamage-dev libxdamage1 libxdmcp-dev libxdmcp6 libxext-dev libxext6 libxfixes-dev libxfixes3 libxft2 libxm4 libxml2 libxmu-dev libxmu-headers libxmu6 libxrender1 libxshmfence-dev libxshmfence1 libxt-dev libxt6 libxxf86vm-dev libxxf86vm1 man-db mesa-common-dev netbase po-debconf sbuild-build-depends-ncbi-tools6-dummy ucf uil x11-common x11proto-core-dev x11proto-damage-dev x11proto-dri2-dev x11proto-fixes-dev x11proto-gl-dev x11proto-input-dev x11proto-kb-dev x11proto-xext-dev x11proto-xf86vidmode-dev xorg-sgml-doctools xtrans-dev zlib1g-dev 0 upgraded, 156 newly installed, 0 to remove and 0 not upgraded. Need to get 43.9 MB/43.9 MB of archives. After this operation, 248 MB of additional disk space will be used. WARNING: The following packages cannot be authenticated! sbuild-build-depends-ncbi-tools6-dummy Authentication warning overridden. Get:1 file:/«BUILDDIR»/resolver-6jaI75/apt_archive ./ sbuild-build-depends-ncbi-tools6-dummy 0.invalid.0 [992 B] Get:2 http://ftpmaster.internal/ubuntu xenial/main amd64 libasprintf0v5 amd64 0.19.4-1ubuntu3 [6676 B] Get:3 http://ftpmaster.internal/ubuntu xenial/main amd64 libxau6 amd64 1:1.0.8-1 [8376 B] Get:4 http://ftpmaster.internal/ubuntu xenial/main amd64 libxdmcp6 amd64 1:1.1.2-1.1 [11.0 kB] Get:5 http://ftpmaster.internal/ubuntu xenial/main amd64 libxcb1 amd64 1.11.1-1ubuntu1 [40.0 kB] Get:6 http://ftpmaster.internal/ubuntu xenial/main amd64 libx11-data all 2:1.6.3-1ubuntu2 [113 kB] Get:7 http://ftpmaster.internal/ubuntu xenial/main amd64 libx11-6 amd64 2:1.6.3-1ubuntu2 [571 kB] Get:8 http://ftpmaster.internal/ubuntu xenial/main amd64 libxext6 amd64 2:1.3.3-1 [29.4 kB] Get:9 http://ftpmaster.internal/ubuntu xenial/main amd64 groff-base amd64 1.22.3-4 [1143 kB] Get:10 http://ftpmaster.internal/ubuntu xenial/main amd64 bsdmainutils amd64 9.0.6ubuntu1 [175 kB] Get:11 http://ftpmaster.internal/ubuntu xenial/main amd64 libpipeline1 amd64 1.4.1-1 [24.9 kB] Get:12 http://ftpmaster.internal/ubuntu xenial/main amd64 man-db amd64 2.7.5-1 [854 kB] Get:13 http://ftpmaster.internal/ubuntu xenial/main amd64 imagemagick-common all 8:6.8.9.9-6 [42.5 kB] Get:14 http://ftpmaster.internal/ubuntu xenial/main amd64 libfftw3-double3 amd64 3.3.4-2ubuntu1 [718 kB] Get:15 http://ftpmaster.internal/ubuntu xenial/main amd64 fonts-dejavu-core all 2.35-1 [1039 kB] Get:16 http://ftpmaster.internal/ubuntu xenial/main amd64 ucf all 3.0031 [52.7 kB] Get:17 http://ftpmaster.internal/ubuntu xenial/main amd64 fontconfig-config all 2.11.1-0ubuntu6 [48.7 kB] Get:18 http://ftpmaster.internal/ubuntu xenial/main amd64 libexpat1 amd64 2.1.0-7 [71.4 kB] Get:19 http://ftpmaster.internal/ubuntu xenial/main amd64 libfreetype6 amd64 2.5.2-4ubuntu2 [312 kB] Get:20 http://ftpmaster.internal/ubuntu xenial/main amd64 libfontconfig1 amd64 2.11.1-0ubuntu6 [127 kB] Get:21 http://ftpmaster.internal/ubuntu xenial/main amd64 x11-common all 1:7.7+12ubuntu1 [22.4 kB] Get:22 http://ftpmaster.internal/ubuntu xenial/main amd64 libice6 amd64 2:1.0.9-1 [39.2 kB] Get:23 http://ftpmaster.internal/ubuntu xenial/main amd64 libjpeg-turbo8 amd64 1.3.0-0ubuntu2 [104 kB] Get:24 http://ftpmaster.internal/ubuntu xenial/main amd64 liblcms2-2 amd64 2.6-3ubuntu2 [137 kB] Get:25 http://ftpmaster.internal/ubuntu xenial/main amd64 libglib2.0-0 amd64 2.47.3-3 [1114 kB] Get:26 http://ftpmaster.internal/ubuntu xenial/main amd64 liblqr-1-0 amd64 0.4.2-2 [23.6 kB] Get:27 http://ftpmaster.internal/ubuntu xenial/main amd64 libltdl7 amd64 2.4.2-1.11 [35.3 kB] Get:28 http://ftpmaster.internal/ubuntu xenial/main amd64 libjbig0 amd64 2.1-3.1 [26.6 kB] Get:29 http://ftpmaster.internal/ubuntu xenial/main amd64 libjpeg8 amd64 8c-2ubuntu8 [2194 B] Get:30 http://ftpmaster.internal/ubuntu xenial/main amd64 libtiff5 amd64 4.0.5-1 [144 kB] Get:31 http://ftpmaster.internal/ubuntu xenial/main amd64 libicu55 amd64 55.1-6ubuntu1 [7643 kB] Get:32 http://ftpmaster.internal/ubuntu xenial-proposed/main amd64 libxml2 amd64 2.9.2+zdfsg1-4ubuntu2 [696 kB] Get:33 http://ftpmaster.internal/ubuntu xenial/main amd64 libmagickcore-6.q16-2 amd64 8:6.8.9.9-6 [1571 kB] Get:34 http://ftpmaster.internal/ubuntu xenial/main amd64 libmagickwand-6.q16-2 amd64 8:6.8.9.9-6 [289 kB] Get:35 http://ftpmaster.internal/ubuntu xenial/universe amd64 libmotif-common all 2.3.4-8ubuntu1 [11.7 kB] Get:36 http://ftpmaster.internal/ubuntu xenial/main amd64 libxrender1 amd64 1:0.9.9-0ubuntu1 [18.5 kB] Get:37 http://ftpmaster.internal/ubuntu xenial/main amd64 libxft2 amd64 2.3.2-1 [36.1 kB] Get:38 http://ftpmaster.internal/ubuntu xenial/main amd64 libsm6 amd64 2:1.2.2-1 [15.8 kB] Get:39 http://ftpmaster.internal/ubuntu xenial/main amd64 libxt6 amd64 1:1.1.5-0ubuntu1 [160 kB] Get:40 http://ftpmaster.internal/ubuntu xenial/main amd64 libxmu6 amd64 2:1.1.2-1ubuntu1 [46.0 kB] Get:41 http://ftpmaster.internal/ubuntu xenial/universe amd64 libxm4 amd64 2.3.4-8ubuntu1 [1007 kB] Get:42 http://ftpmaster.internal/ubuntu xenial/universe amd64 libmrm4 amd64 2.3.4-8ubuntu1 [57.9 kB] Get:43 http://ftpmaster.internal/ubuntu xenial/main amd64 libpcrecpp0v5 amd64 2:8.35-7.1ubuntu1 [15.4 kB] Get:44 http://ftpmaster.internal/ubuntu xenial/universe amd64 libuil4 amd64 2.3.4-8ubuntu1 [128 kB] Get:45 http://ftpmaster.internal/ubuntu xenial/main amd64 libunistring0 amd64 0.9.3-5.2ubuntu1 [279 kB] Get:46 http://ftpmaster.internal/ubuntu xenial/main amd64 libxdamage1 amd64 1:1.1.4-2 [6946 B] Get:47 http://ftpmaster.internal/ubuntu xenial/main amd64 libxfixes3 amd64 1:5.0.1-2 [11.1 kB] Get:48 http://ftpmaster.internal/ubuntu xenial/main amd64 libxshmfence1 amd64 1.2-1 [5042 B] Get:49 http://ftpmaster.internal/ubuntu xenial/main amd64 libxxf86vm1 amd64 1:1.1.4-1 [10.6 kB] Get:50 http://ftpmaster.internal/ubuntu xenial/main amd64 libmagic1 amd64 1:5.25-2ubuntu1 [216 kB] Get:51 http://ftpmaster.internal/ubuntu xenial/main amd64 file amd64 1:5.25-2ubuntu1 [21.2 kB] Get:52 http://ftpmaster.internal/ubuntu xenial/main amd64 libbsd0 amd64 0.8.0-2 [42.1 kB] Get:53 http://ftpmaster.internal/ubuntu xenial/main amd64 netbase all 5.3 [12.9 kB] Get:54 http://ftpmaster.internal/ubuntu xenial/main amd64 gettext-base amd64 0.19.4-1ubuntu3 [48.3 kB] Get:55 http://ftpmaster.internal/ubuntu xenial/main amd64 libdrm2 amd64 2.4.65-3 [27.6 kB] Get:56 http://ftpmaster.internal/ubuntu xenial/main amd64 libedit2 amd64 3.1-20150325-1ubuntu1 [76.6 kB] Get:57 http://ftpmaster.internal/ubuntu xenial/main amd64 libelf1 amd64 0.163-5.1 [39.3 kB] Get:58 http://ftpmaster.internal/ubuntu xenial/universe amd64 csh amd64 20110502-2.1ubuntu1 [235 kB] Get:59 http://ftpmaster.internal/ubuntu xenial/main amd64 libcroco3 amd64 0.6.9-1 [82.0 kB] Get:60 http://ftpmaster.internal/ubuntu xenial/main amd64 gettext amd64 0.19.4-1ubuntu3 [857 kB] Get:61 http://ftpmaster.internal/ubuntu xenial/main amd64 intltool-debian all 0.35.0+20060710.4 [24.9 kB] Get:62 http://ftpmaster.internal/ubuntu xenial/main amd64 po-debconf all 1.0.18 [234 kB] Get:63 http://ftpmaster.internal/ubuntu xenial/main amd64 libarchive-zip-perl all 1.53-1 [87.0 kB] Get:64 http://ftpmaster.internal/ubuntu xenial/main amd64 libfile-stripnondeterminism-perl all 0.014-1 [10.1 kB] Get:65 http://ftpmaster.internal/ubuntu xenial/main amd64 libtimedate-perl all 2.3000-2 [37.5 kB] Get:66 http://ftpmaster.internal/ubuntu xenial/main amd64 dh-strip-nondeterminism all 0.014-1 [5596 B] Get:67 http://ftpmaster.internal/ubuntu xenial/main amd64 debhelper all 9.20151126ubuntu1 [741 kB] Get:68 http://ftpmaster.internal/ubuntu xenial/main amd64 hicolor-icon-theme all 0.15-0ubuntu1 [7750 B] Get:69 http://ftpmaster.internal/ubuntu xenial/main amd64 libencode-locale-perl all 1.05-1 [12.3 kB] Get:70 http://ftpmaster.internal/ubuntu xenial/main amd64 libhttp-date-perl all 6.02-1 [10.4 kB] Get:71 http://ftpmaster.internal/ubuntu xenial/main amd64 libfile-listing-perl all 6.04-1 [9774 B] Get:72 http://ftpmaster.internal/ubuntu xenial/main amd64 libhtml-tagset-perl all 3.20-2 [13.5 kB] Get:73 http://ftpmaster.internal/ubuntu xenial/main amd64 liburi-perl all 1.69-1 [84.5 kB] Get:74 http://ftpmaster.internal/ubuntu xenial/main amd64 libhtml-parser-perl amd64 3.71-2 [90.4 kB] Get:75 http://ftpmaster.internal/ubuntu xenial/main amd64 libhtml-tree-perl all 5.03-2 [197 kB] Get:76 http://ftpmaster.internal/ubuntu xenial/main amd64 libio-html-perl all 1.001-1 [14.9 kB] Get:77 http://ftpmaster.internal/ubuntu xenial/main amd64 liblwp-mediatypes-perl all 6.02-1 [21.7 kB] Get:78 http://ftpmaster.internal/ubuntu xenial/main amd64 libhttp-message-perl all 6.11-1 [74.3 kB] Get:79 http://ftpmaster.internal/ubuntu xenial/main amd64 libhttp-cookies-perl all 6.01-1 [17.2 kB] Get:80 http://ftpmaster.internal/ubuntu xenial/main amd64 libhttp-negotiate-perl all 6.00-2 [13.4 kB] Get:81 http://ftpmaster.internal/ubuntu xenial/main amd64 libnet-ssleay-perl amd64 1.72-1 [262 kB] Get:82 http://ftpmaster.internal/ubuntu xenial/main amd64 libio-socket-ssl-perl all 2.021-1 [161 kB] Get:83 http://ftpmaster.internal/ubuntu xenial/main amd64 libnet-http-perl all 6.09-1 [24.0 kB] Get:84 http://ftpmaster.internal/ubuntu xenial/main amd64 liblwp-protocol-https-perl all 6.06-2 [8682 B] Get:85 http://ftpmaster.internal/ubuntu xenial/main amd64 libwww-robotrules-perl all 6.01-1 [14.1 kB] Get:86 http://ftpmaster.internal/ubuntu xenial/main amd64 libwww-perl all 6.15-1 [146 kB] Get:87 http://ftpmaster.internal/ubuntu xenial/universe amd64 icoutils amd64 0.31.0-2 [56.1 kB] Get:88 http://ftpmaster.internal/ubuntu xenial/main amd64 imagemagick-6.q16 amd64 8:6.8.9.9-6 [390 kB] Get:89 http://ftpmaster.internal/ubuntu xenial/main amd64 imagemagick amd64 8:6.8.9.9-6 [44.9 kB] Get:90 http://ftpmaster.internal/ubuntu xenial/main amd64 libdrm-amdgpu1 amd64 2.4.65-3 [15.4 kB] Get:91 http://ftpmaster.internal/ubuntu xenial/main amd64 libpciaccess0 amd64 0.13.4-1 [18.1 kB] Get:92 http://ftpmaster.internal/ubuntu xenial/main amd64 libdrm-intel1 amd64 2.4.65-3 [55.4 kB] Get:93 http://ftpmaster.internal/ubuntu xenial/main amd64 libdrm-radeon1 amd64 2.4.65-3 [21.6 kB] Get:94 http://ftpmaster.internal/ubuntu xenial/main amd64 libdrm-nouveau2 amd64 2.4.65-3 [14.2 kB] Get:95 http://ftpmaster.internal/ubuntu xenial/main amd64 libdrm-dev amd64 2.4.65-3 [197 kB] Get:96 http://ftpmaster.internal/ubuntu xenial/main amd64 libllvm3.6v5 amd64 1:3.6.2-3build1 [8086 kB] Get:97 http://ftpmaster.internal/ubuntu xenial/main amd64 libgl1-mesa-dri amd64 11.0.6-1ubuntu1 [4303 kB] Get:98 http://ftpmaster.internal/ubuntu xenial/main amd64 libglapi-mesa amd64 11.0.6-1ubuntu1 [23.2 kB] Get:99 http://ftpmaster.internal/ubuntu xenial/main amd64 libx11-xcb1 amd64 2:1.6.3-1ubuntu2 [8956 B] Get:100 http://ftpmaster.internal/ubuntu xenial/main amd64 libxcb-dri2-0 amd64 1.11.1-1ubuntu1 [6882 B] Get:101 http://ftpmaster.internal/ubuntu xenial/main amd64 libxcb-dri3-0 amd64 1.11.1-1ubuntu1 [5218 B] Get:102 http://ftpmaster.internal/ubuntu xenial/main amd64 libxcb-glx0 amd64 1.11.1-1ubuntu1 [20.9 kB] Get:103 http://ftpmaster.internal/ubuntu xenial/main amd64 libxcb-present0 amd64 1.11.1-1ubuntu1 [5218 B] Get:104 http://ftpmaster.internal/ubuntu xenial/main amd64 libxcb-sync1 amd64 1.11.1-1ubuntu1 [8324 B] Get:105 http://ftpmaster.internal/ubuntu xenial/main amd64 libgl1-mesa-glx amd64 11.0.6-1ubuntu1 [145 kB] Get:106 http://ftpmaster.internal/ubuntu xenial/main amd64 libglu1-mesa amd64 9.0.0-2.1 [168 kB] Get:107 http://ftpmaster.internal/ubuntu xenial/main amd64 xorg-sgml-doctools all 1:1.11-1 [12.9 kB] Get:108 http://ftpmaster.internal/ubuntu xenial/main amd64 x11proto-core-dev all 7.0.28-0ubuntu1 [699 kB] Get:109 http://ftpmaster.internal/ubuntu xenial/main amd64 libxau-dev amd64 1:1.0.8-1 [11.1 kB] Get:110 http://ftpmaster.internal/ubuntu xenial/main amd64 libxdmcp-dev amd64 1:1.1.2-1.1 [25.1 kB] Get:111 http://ftpmaster.internal/ubuntu xenial/main amd64 x11proto-input-dev all 2.3.1-1 [118 kB] Get:112 http://ftpmaster.internal/ubuntu xenial/main amd64 x11proto-kb-dev all 1.0.7-0ubuntu1 [224 kB] Get:113 http://ftpmaster.internal/ubuntu xenial/main amd64 xtrans-dev all 1.3.5-1 [70.5 kB] Get:114 http://ftpmaster.internal/ubuntu xenial/main amd64 libpthread-stubs0-dev amd64 0.3-4 [4068 B] Get:115 http://ftpmaster.internal/ubuntu xenial/main amd64 libxcb1-dev amd64 1.11.1-1ubuntu1 [74.2 kB] Get:116 http://ftpmaster.internal/ubuntu xenial/main amd64 libx11-dev amd64 2:1.6.3-1ubuntu2 [642 kB] Get:117 http://ftpmaster.internal/ubuntu xenial/main amd64 mesa-common-dev amd64 11.0.6-1ubuntu1 [449 kB] Get:118 http://ftpmaster.internal/ubuntu xenial/main amd64 libx11-xcb-dev amd64 2:1.6.3-1ubuntu2 [9730 B] Get:119 http://ftpmaster.internal/ubuntu xenial/main amd64 libxcb-dri3-dev amd64 1.11.1-1ubuntu1 [5752 B] Get:120 http://ftpmaster.internal/ubuntu xenial/main amd64 libxcb-randr0 amd64 1.11.1-1ubuntu1 [14.4 kB] Get:121 http://ftpmaster.internal/ubuntu xenial/main amd64 libxcb-render0 amd64 1.11.1-1ubuntu1 [11.4 kB] Get:122 http://ftpmaster.internal/ubuntu xenial/main amd64 libxcb-render0-dev amd64 1.11.1-1ubuntu1 [15.3 kB] Get:123 http://ftpmaster.internal/ubuntu xenial/main amd64 libxcb-randr0-dev amd64 1.11.1-1ubuntu1 [18.2 kB] Get:124 http://ftpmaster.internal/ubuntu xenial/main amd64 libxcb-xfixes0 amd64 1.11.1-1ubuntu1 [8840 B] Get:125 http://ftpmaster.internal/ubuntu xenial/main amd64 libxcb-shape0 amd64 1.11.1-1ubuntu1 [5756 B] Get:126 http://ftpmaster.internal/ubuntu xenial/main amd64 libxcb-shape0-dev amd64 1.11.1-1ubuntu1 [6900 B] Get:127 http://ftpmaster.internal/ubuntu xenial/main amd64 libxcb-xfixes0-dev amd64 1.11.1-1ubuntu1 [11.2 kB] Get:128 http://ftpmaster.internal/ubuntu xenial/main amd64 libxcb-sync-dev amd64 1.11.1-1ubuntu1 [10.1 kB] Get:129 http://ftpmaster.internal/ubuntu xenial/main amd64 libxcb-present-dev amd64 1.11.1-1ubuntu1 [6618 B] Get:130 http://ftpmaster.internal/ubuntu xenial/main amd64 libxshmfence-dev amd64 1.2-1 [3676 B] Get:131 http://ftpmaster.internal/ubuntu xenial/main amd64 libxcb-dri2-0-dev amd64 1.11.1-1ubuntu1 [8384 B] Get:132 http://ftpmaster.internal/ubuntu xenial/main amd64 libxcb-glx0-dev amd64 1.11.1-1ubuntu1 [26.9 kB] Get:133 http://ftpmaster.internal/ubuntu xenial/main amd64 x11proto-xext-dev all 7.3.0-1 [212 kB] Get:134 http://ftpmaster.internal/ubuntu xenial/main amd64 x11proto-fixes-dev all 1:5.0-2ubuntu2 [14.2 kB] Get:135 http://ftpmaster.internal/ubuntu xenial/main amd64 libxfixes-dev amd64 1:5.0.1-2 [10.9 kB] Get:136 http://ftpmaster.internal/ubuntu xenial/main amd64 x11proto-damage-dev all 1:1.2.1-2 [8286 B] Get:137 http://ftpmaster.internal/ubuntu xenial/main amd64 libxdamage-dev amd64 1:1.1.4-2 [5028 B] Get:138 http://ftpmaster.internal/ubuntu xenial/main amd64 libxext-dev amd64 2:1.3.3-1 [82.1 kB] Get:139 http://ftpmaster.internal/ubuntu xenial/main amd64 x11proto-xf86vidmode-dev all 2.3.1-2 [6116 B] Get:140 http://ftpmaster.internal/ubuntu xenial/main amd64 libxxf86vm-dev amd64 1:1.1.4-1 [13.3 kB] Get:141 http://ftpmaster.internal/ubuntu xenial/main amd64 x11proto-dri2-dev all 2.8-2 [12.6 kB] Get:142 http://ftpmaster.internal/ubuntu xenial/main amd64 x11proto-gl-dev all 1.4.17-1 [17.9 kB] Get:143 http://ftpmaster.internal/ubuntu xenial/main amd64 libgl1-mesa-dev amd64 11.0.6-1ubuntu1 [5232 B] Get:144 http://ftpmaster.internal/ubuntu xenial/main amd64 libglu1-mesa-dev amd64 9.0.0-2.1 [202 kB] Get:145 http://ftpmaster.internal/ubuntu xenial/main amd64 libice-dev amd64 2:1.0.9-1 [44.9 kB] Get:146 http://ftpmaster.internal/ubuntu xenial/main amd64 libpcre16-3 amd64 2:8.35-7.1ubuntu1 [141 kB] Get:147 http://ftpmaster.internal/ubuntu xenial/main amd64 libpcre32-3 amd64 2:8.35-7.1ubuntu1 [133 kB] Get:148 http://ftpmaster.internal/ubuntu xenial/main amd64 libpcre3-dev amd64 2:8.35-7.1ubuntu1 [520 kB] Get:149 http://ftpmaster.internal/ubuntu xenial/main amd64 zlib1g-dev amd64 1:1.2.8.dfsg-2ubuntu4 [168 kB] Get:150 http://ftpmaster.internal/ubuntu xenial/main amd64 libpng12-dev amd64 1.2.54-1 [183 kB] Get:151 http://ftpmaster.internal/ubuntu xenial/main amd64 libsm-dev amd64 2:1.2.2-1 [16.2 kB] Get:152 http://ftpmaster.internal/ubuntu xenial/main amd64 libxt-dev amd64 1:1.1.5-0ubuntu1 [394 kB] Get:153 http://ftpmaster.internal/ubuntu xenial/main amd64 libxmu-headers all 2:1.1.2-1ubuntu1 [54.2 kB] Get:154 http://ftpmaster.internal/ubuntu xenial/main amd64 libxmu-dev amd64 2:1.1.2-1ubuntu1 [49.0 kB] Get:155 http://ftpmaster.internal/ubuntu xenial/universe amd64 uil amd64 2.3.4-8ubuntu1 [7398 B] Get:156 http://ftpmaster.internal/ubuntu xenial/universe amd64 libmotif-dev amd64 2.3.4-8ubuntu1 [2444 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 43.9 MB in 3s (13.6 MB/s) Selecting previously unselected package libasprintf0v5:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11727 files and directories currently installed.) Preparing to unpack .../libasprintf0v5_0.19.4-1ubuntu3_amd64.deb ... Unpacking libasprintf0v5:amd64 (0.19.4-1ubuntu3) ... Selecting previously unselected package libxau6:amd64. Preparing to unpack .../libxau6_1%3a1.0.8-1_amd64.deb ... Unpacking libxau6:amd64 (1:1.0.8-1) ... Selecting previously unselected package libxdmcp6:amd64. Preparing to unpack .../libxdmcp6_1%3a1.1.2-1.1_amd64.deb ... Unpacking libxdmcp6:amd64 (1:1.1.2-1.1) ... Selecting previously unselected package libxcb1:amd64. Preparing to unpack .../libxcb1_1.11.1-1ubuntu1_amd64.deb ... Unpacking libxcb1:amd64 (1.11.1-1ubuntu1) ... Selecting previously unselected package libx11-data. Preparing to unpack .../libx11-data_2%3a1.6.3-1ubuntu2_all.deb ... Unpacking libx11-data (2:1.6.3-1ubuntu2) ... Selecting previously unselected package libx11-6:amd64. Preparing to unpack .../libx11-6_2%3a1.6.3-1ubuntu2_amd64.deb ... Unpacking libx11-6:amd64 (2:1.6.3-1ubuntu2) ... Selecting previously unselected package libxext6:amd64. Preparing to unpack .../libxext6_2%3a1.3.3-1_amd64.deb ... Unpacking libxext6:amd64 (2:1.3.3-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../groff-base_1.22.3-4_amd64.deb ... Unpacking groff-base (1.22.3-4) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../bsdmainutils_9.0.6ubuntu1_amd64.deb ... Unpacking bsdmainutils (9.0.6ubuntu1) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../libpipeline1_1.4.1-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.4.1-1) ... Selecting previously unselected package man-db. Preparing to unpack .../man-db_2.7.5-1_amd64.deb ... Unpacking man-db (2.7.5-1) ... Selecting previously unselected package imagemagick-common. Preparing to unpack .../imagemagick-common_8%3a6.8.9.9-6_all.deb ... Unpacking imagemagick-common (8:6.8.9.9-6) ... Selecting previously unselected package libfftw3-double3:amd64. Preparing to unpack .../libfftw3-double3_3.3.4-2ubuntu1_amd64.deb ... Unpacking libfftw3-double3:amd64 (3.3.4-2ubuntu1) ... Selecting previously unselected package fonts-dejavu-core. Preparing to unpack .../fonts-dejavu-core_2.35-1_all.deb ... Unpacking fonts-dejavu-core (2.35-1) ... Selecting previously unselected package ucf. Preparing to unpack .../archives/ucf_3.0031_all.deb ... Moving old data out of the way Unpacking ucf (3.0031) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../fontconfig-config_2.11.1-0ubuntu6_all.deb ... Unpacking fontconfig-config (2.11.1-0ubuntu6) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../libexpat1_2.1.0-7_amd64.deb ... Unpacking libexpat1:amd64 (2.1.0-7) ... Selecting previously unselected package libfreetype6:amd64. Preparing to unpack .../libfreetype6_2.5.2-4ubuntu2_amd64.deb ... Unpacking libfreetype6:amd64 (2.5.2-4ubuntu2) ... Selecting previously unselected package libfontconfig1:amd64. Preparing to unpack .../libfontconfig1_2.11.1-0ubuntu6_amd64.deb ... Unpacking libfontconfig1:amd64 (2.11.1-0ubuntu6) ... Selecting previously unselected package x11-common. Preparing to unpack .../x11-common_1%3a7.7+12ubuntu1_all.deb ... Unpacking x11-common (1:7.7+12ubuntu1) ... Selecting previously unselected package libice6:amd64. Preparing to unpack .../libice6_2%3a1.0.9-1_amd64.deb ... Unpacking libice6:amd64 (2:1.0.9-1) ... Selecting previously unselected package libjpeg-turbo8:amd64. Preparing to unpack .../libjpeg-turbo8_1.3.0-0ubuntu2_amd64.deb ... Unpacking libjpeg-turbo8:amd64 (1.3.0-0ubuntu2) ... Selecting previously unselected package liblcms2-2:amd64. Preparing to unpack .../liblcms2-2_2.6-3ubuntu2_amd64.deb ... Unpacking liblcms2-2:amd64 (2.6-3ubuntu2) ... Selecting previously unselected package libglib2.0-0:amd64. Preparing to unpack .../libglib2.0-0_2.47.3-3_amd64.deb ... Unpacking libglib2.0-0:amd64 (2.47.3-3) ... Selecting previously unselected package liblqr-1-0:amd64. Preparing to unpack .../liblqr-1-0_0.4.2-2_amd64.deb ... Unpacking liblqr-1-0:amd64 (0.4.2-2) ... Selecting previously unselected package libltdl7:amd64. Preparing to unpack .../libltdl7_2.4.2-1.11_amd64.deb ... Unpacking libltdl7:amd64 (2.4.2-1.11) ... Selecting previously unselected package libjbig0:amd64. Preparing to unpack .../libjbig0_2.1-3.1_amd64.deb ... Unpacking libjbig0:amd64 (2.1-3.1) ... Selecting previously unselected package libjpeg8:amd64. Preparing to unpack .../libjpeg8_8c-2ubuntu8_amd64.deb ... Unpacking libjpeg8:amd64 (8c-2ubuntu8) ... Selecting previously unselected package libtiff5:amd64. Preparing to unpack .../libtiff5_4.0.5-1_amd64.deb ... Unpacking libtiff5:amd64 (4.0.5-1) ... Selecting previously unselected package libicu55:amd64. Preparing to unpack .../libicu55_55.1-6ubuntu1_amd64.deb ... Unpacking libicu55:amd64 (55.1-6ubuntu1) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../libxml2_2.9.2+zdfsg1-4ubuntu2_amd64.deb ... Unpacking libxml2:amd64 (2.9.2+zdfsg1-4ubuntu2) ... Selecting previously unselected package libmagickcore-6.q16-2:amd64. Preparing to unpack .../libmagickcore-6.q16-2_8%3a6.8.9.9-6_amd64.deb ... Unpacking libmagickcore-6.q16-2:amd64 (8:6.8.9.9-6) ... Selecting previously unselected package libmagickwand-6.q16-2:amd64. Preparing to unpack .../libmagickwand-6.q16-2_8%3a6.8.9.9-6_amd64.deb ... Unpacking libmagickwand-6.q16-2:amd64 (8:6.8.9.9-6) ... Processing triggers for libc-bin (2.21-0ubuntu5) ... Processing triggers for systemd (228-2ubuntu1) ... Setting up x11-common (1:7.7+12ubuntu1) ... 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. Processing triggers for systemd (228-2ubuntu1) ... Selecting previously unselected package libmotif-common. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 13067 files and directories currently installed.) Preparing to unpack .../libmotif-common_2.3.4-8ubuntu1_all.deb ... Unpacking libmotif-common (2.3.4-8ubuntu1) ... Selecting previously unselected package libxrender1:amd64. Preparing to unpack .../libxrender1_1%3a0.9.9-0ubuntu1_amd64.deb ... Unpacking libxrender1:amd64 (1:0.9.9-0ubuntu1) ... Selecting previously unselected package libxft2:amd64. Preparing to unpack .../libxft2_2.3.2-1_amd64.deb ... 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Preparing to unpack .../libsm-dev_2%3a1.2.2-1_amd64.deb ... Unpacking libsm-dev:amd64 (2:1.2.2-1) ... Selecting previously unselected package libxt-dev:amd64. Preparing to unpack .../libxt-dev_1%3a1.1.5-0ubuntu1_amd64.deb ... Unpacking libxt-dev:amd64 (1:1.1.5-0ubuntu1) ... Selecting previously unselected package libxmu-headers. Preparing to unpack .../libxmu-headers_2%3a1.1.2-1ubuntu1_all.deb ... Unpacking libxmu-headers (2:1.1.2-1ubuntu1) ... Selecting previously unselected package libxmu-dev:amd64. Preparing to unpack .../libxmu-dev_2%3a1.1.2-1ubuntu1_amd64.deb ... Unpacking libxmu-dev:amd64 (2:1.1.2-1ubuntu1) ... Selecting previously unselected package uil. Preparing to unpack .../uil_2.3.4-8ubuntu1_amd64.deb ... Unpacking uil (2.3.4-8ubuntu1) ... Selecting previously unselected package libmotif-dev:amd64. Preparing to unpack .../libmotif-dev_2.3.4-8ubuntu1_amd64.deb ... Unpacking libmotif-dev:amd64 (2.3.4-8ubuntu1) ... Selecting previously unselected package sbuild-build-depends-ncbi-tools6-dummy. Preparing to unpack .../sbuild-build-depends-ncbi-tools6-dummy.deb ... Unpacking sbuild-build-depends-ncbi-tools6-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.21-0ubuntu5) ... Setting up libasprintf0v5:amd64 (0.19.4-1ubuntu3) ... Setting up libxau6:amd64 (1:1.0.8-1) ... Setting up libxdmcp6:amd64 (1:1.1.2-1.1) ... Setting up libxcb1:amd64 (1.11.1-1ubuntu1) ... Setting up libx11-data (2:1.6.3-1ubuntu2) ... Setting up libx11-6:amd64 (2:1.6.3-1ubuntu2) ... Setting up libxext6:amd64 (2:1.3.3-1) ... Setting up groff-base (1.22.3-4) ... Setting up bsdmainutils (9.0.6ubuntu1) ... 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 libpipeline1:amd64 (1.4.1-1) ... Setting up man-db (2.7.5-1) ... Not building database; man-db/auto-update is not 'true'. Setting up imagemagick-common (8:6.8.9.9-6) ... Setting up libfftw3-double3:amd64 (3.3.4-2ubuntu1) ... Setting up fonts-dejavu-core (2.35-1) ... Setting up ucf (3.0031) ... Setting up fontconfig-config (2.11.1-0ubuntu6) ... Setting up libexpat1:amd64 (2.1.0-7) ... Setting up libfreetype6:amd64 (2.5.2-4ubuntu2) ... Setting up libfontconfig1:amd64 (2.11.1-0ubuntu6) ... Setting up libice6:amd64 (2:1.0.9-1) ... Setting up libjpeg-turbo8:amd64 (1.3.0-0ubuntu2) ... Setting up liblcms2-2:amd64 (2.6-3ubuntu2) ... Setting up libglib2.0-0:amd64 (2.47.3-3) ... No schema files found: doing nothing. Setting up liblqr-1-0:amd64 (0.4.2-2) ... Setting up libltdl7:amd64 (2.4.2-1.11) ... Setting up libjbig0:amd64 (2.1-3.1) ... Setting up libjpeg8:amd64 (8c-2ubuntu8) ... Setting up libtiff5:amd64 (4.0.5-1) ... Setting up libicu55:amd64 (55.1-6ubuntu1) ... Setting up libxml2:amd64 (2.9.2+zdfsg1-4ubuntu2) ... Setting up libmagickcore-6.q16-2:amd64 (8:6.8.9.9-6) ... Setting up libmagickwand-6.q16-2:amd64 (8:6.8.9.9-6) ... Setting up libmotif-common (2.3.4-8ubuntu1) ... Setting up libxrender1:amd64 (1:0.9.9-0ubuntu1) ... Setting up libxft2:amd64 (2.3.2-1) ... Setting up libsm6:amd64 (2:1.2.2-1) ... Setting up libxt6:amd64 (1:1.1.5-0ubuntu1) ... Setting up libxmu6:amd64 (2:1.1.2-1ubuntu1) ... Setting up libxm4:amd64 (2.3.4-8ubuntu1) ... Setting up libmrm4:amd64 (2.3.4-8ubuntu1) ... Setting up libpcrecpp0v5:amd64 (2:8.35-7.1ubuntu1) ... Setting up libuil4:amd64 (2.3.4-8ubuntu1) ... Setting up libunistring0:amd64 (0.9.3-5.2ubuntu1) ... Setting up libxdamage1:amd64 (1:1.1.4-2) ... Setting up libxfixes3:amd64 (1:5.0.1-2) ... Setting up libxshmfence1:amd64 (1.2-1) ... Setting up libxxf86vm1:amd64 (1:1.1.4-1) ... Setting up libmagic1:amd64 (1:5.25-2ubuntu1) ... Setting up file (1:5.25-2ubuntu1) ... Setting up libbsd0:amd64 (0.8.0-2) ... Setting up netbase (5.3) ... Setting up gettext-base (0.19.4-1ubuntu3) ... Setting up libdrm2:amd64 (2.4.65-3) ... Setting up libedit2:amd64 (3.1-20150325-1ubuntu1) ... Setting up libelf1:amd64 (0.163-5.1) ... Setting up csh (20110502-2.1ubuntu1) ... update-alternatives: using /bin/bsd-csh to provide /bin/csh (csh) in auto mode Setting up libcroco3:amd64 (0.6.9-1) ... Setting up gettext (0.19.4-1ubuntu3) ... Setting up intltool-debian (0.35.0+20060710.4) ... Setting up po-debconf (1.0.18) ... Setting up libarchive-zip-perl (1.53-1) ... Setting up libfile-stripnondeterminism-perl (0.014-1) ... Setting up libtimedate-perl (2.3000-2) ... Setting up hicolor-icon-theme (0.15-0ubuntu1) ... Setting up libencode-locale-perl (1.05-1) ... Setting up libhttp-date-perl (6.02-1) ... Setting up libfile-listing-perl (6.04-1) ... Setting up libhtml-tagset-perl (3.20-2) ... Setting up liburi-perl (1.69-1) ... Setting up libhtml-parser-perl (3.71-2) ... Setting up libhtml-tree-perl (5.03-2) ... Setting up libio-html-perl (1.001-1) ... Setting up liblwp-mediatypes-perl (6.02-1) ... Setting up libhttp-message-perl (6.11-1) ... Setting up libhttp-cookies-perl (6.01-1) ... Setting up libhttp-negotiate-perl (6.00-2) ... Setting up libnet-ssleay-perl (1.72-1) ... Setting up libio-socket-ssl-perl (2.021-1) ... Setting up libnet-http-perl (6.09-1) ... Setting up libwww-robotrules-perl (6.01-1) ... Setting up imagemagick-6.q16 (8:6.8.9.9-6) ... Setting up imagemagick (8:6.8.9.9-6) ... update-alternatives: using /usr/bin/compare-im6 to provide /usr/bin/compare (compare) in auto mode update-alternatives: using /usr/bin/animate-im6 to provide /usr/bin/animate (animate) in auto mode update-alternatives: using /usr/bin/convert-im6 to provide /usr/bin/convert (convert) in auto mode update-alternatives: using /usr/bin/composite-im6 to provide /usr/bin/composite (composite) in auto mode update-alternatives: using /usr/bin/conjure-im6 to provide /usr/bin/conjure (conjure) in auto mode update-alternatives: using /usr/bin/import-im6 to provide /usr/bin/import (import) in auto mode update-alternatives: using /usr/bin/identify-im6 to provide /usr/bin/identify (identify) in auto mode update-alternatives: using /usr/bin/stream-im6 to provide /usr/bin/stream (stream) in auto mode update-alternatives: using /usr/bin/display-im6 to provide /usr/bin/display (display) in auto mode update-alternatives: using /usr/bin/montage-im6 to provide /usr/bin/montage (montage) in auto mode update-alternatives: using /usr/bin/mogrify-im6 to provide /usr/bin/mogrify (mogrify) in auto mode Setting up libdrm-amdgpu1:amd64 (2.4.65-3) ... Setting up libpciaccess0:amd64 (0.13.4-1) ... Setting up libdrm-intel1:amd64 (2.4.65-3) ... Setting up libdrm-radeon1:amd64 (2.4.65-3) ... Setting up libdrm-nouveau2:amd64 (2.4.65-3) ... Setting up libdrm-dev:amd64 (2.4.65-3) ... Setting up libllvm3.6v5:amd64 (1:3.6.2-3build1) ... Setting up libgl1-mesa-dri:amd64 (11.0.6-1ubuntu1) ... Setting up libglapi-mesa:amd64 (11.0.6-1ubuntu1) ... Setting up libx11-xcb1:amd64 (2:1.6.3-1ubuntu2) ... Setting up libxcb-dri2-0:amd64 (1.11.1-1ubuntu1) ... Setting up libxcb-dri3-0:amd64 (1.11.1-1ubuntu1) ... Setting up libxcb-glx0:amd64 (1.11.1-1ubuntu1) ... Setting up libxcb-present0:amd64 (1.11.1-1ubuntu1) ... Setting up libxcb-sync1:amd64 (1.11.1-1ubuntu1) ... Setting up libgl1-mesa-glx:amd64 (11.0.6-1ubuntu1) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/mesa/ld.so.conf to provide /etc/ld.so.conf.d/x86_64-linux-gnu_GL.conf (x86_64-linux-gnu_gl_conf) in auto mode Setting up libglu1-mesa:amd64 (9.0.0-2.1) ... Setting up xorg-sgml-doctools (1:1.11-1) ... Setting up x11proto-core-dev (7.0.28-0ubuntu1) ... Setting up libxau-dev:amd64 (1:1.0.8-1) ... Setting up libxdmcp-dev:amd64 (1:1.1.2-1.1) ... Setting up x11proto-input-dev (2.3.1-1) ... Setting up x11proto-kb-dev (1.0.7-0ubuntu1) ... Setting up xtrans-dev (1.3.5-1) ... Setting up libpthread-stubs0-dev:amd64 (0.3-4) ... Setting up libxcb1-dev:amd64 (1.11.1-1ubuntu1) ... Setting up libx11-dev:amd64 (2:1.6.3-1ubuntu2) ... Setting up mesa-common-dev:amd64 (11.0.6-1ubuntu1) ... Setting up libx11-xcb-dev:amd64 (2:1.6.3-1ubuntu2) ... Setting up libxcb-dri3-dev:amd64 (1.11.1-1ubuntu1) ... Setting up libxcb-randr0:amd64 (1.11.1-1ubuntu1) ... Setting up libxcb-render0:amd64 (1.11.1-1ubuntu1) ... Setting up libxcb-render0-dev:amd64 (1.11.1-1ubuntu1) ... Setting up libxcb-randr0-dev:amd64 (1.11.1-1ubuntu1) ... Setting up libxcb-xfixes0:amd64 (1.11.1-1ubuntu1) ... Setting up libxcb-shape0:amd64 (1.11.1-1ubuntu1) ... Setting up libxcb-shape0-dev:amd64 (1.11.1-1ubuntu1) ... Setting up libxcb-xfixes0-dev:amd64 (1.11.1-1ubuntu1) ... Setting up libxcb-sync-dev:amd64 (1.11.1-1ubuntu1) ... Setting up libxcb-present-dev:amd64 (1.11.1-1ubuntu1) ... Setting up libxshmfence-dev:amd64 (1.2-1) ... Setting up libxcb-dri2-0-dev:amd64 (1.11.1-1ubuntu1) ... Setting up libxcb-glx0-dev:amd64 (1.11.1-1ubuntu1) ... Setting up x11proto-xext-dev (7.3.0-1) ... Setting up x11proto-fixes-dev (1:5.0-2ubuntu2) ... Setting up libxfixes-dev:amd64 (1:5.0.1-2) ... Setting up x11proto-damage-dev (1:1.2.1-2) ... Setting up libxdamage-dev:amd64 (1:1.1.4-2) ... Setting up libxext-dev:amd64 (2:1.3.3-1) ... Setting up x11proto-xf86vidmode-dev (2.3.1-2) ... Setting up libxxf86vm-dev:amd64 (1:1.1.4-1) ... Setting up x11proto-dri2-dev (2.8-2) ... Setting up x11proto-gl-dev (1.4.17-1) ... Setting up libgl1-mesa-dev:amd64 (11.0.6-1ubuntu1) ... Setting up libglu1-mesa-dev:amd64 (9.0.0-2.1) ... Setting up libice-dev:amd64 (2:1.0.9-1) ... Setting up libpcre16-3:amd64 (2:8.35-7.1ubuntu1) ... Setting up libpcre32-3:amd64 (2:8.35-7.1ubuntu1) ... Setting up libpcre3-dev:amd64 (2:8.35-7.1ubuntu1) ... Setting up zlib1g-dev:amd64 (1:1.2.8.dfsg-2ubuntu4) ... Setting up libpng12-dev:amd64 (1.2.54-1) ... Setting up libsm-dev:amd64 (2:1.2.2-1) ... Setting up libxt-dev:amd64 (1:1.1.5-0ubuntu1) ... Setting up libxmu-headers (2:1.1.2-1ubuntu1) ... Setting up libxmu-dev:amd64 (2:1.1.2-1ubuntu1) ... Setting up uil (2.3.4-8ubuntu1) ... Setting up libmotif-dev:amd64 (2.3.4-8ubuntu1) ... Setting up debhelper (9.20151126ubuntu1) ... Setting up libwww-perl (6.15-1) ... Setting up icoutils (0.31.0-2) ... Setting up sbuild-build-depends-ncbi-tools6-dummy (0.invalid.0) ... Setting up dh-strip-nondeterminism (0.014-1) ... Setting up liblwp-protocol-https-perl (6.06-2) ... Processing triggers for libc-bin (2.21-0ubuntu5) ... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Build environment │ └──────────────────────────────────────────────────────────────────────────────┘ Kernel: Linux 3.19.0-39-generic amd64 (x86_64) Toolchain package versions: binutils_2.25.90.20151209-1ubuntu1 dpkg-dev_1.18.3ubuntu1 g++-5_5.3.1-3ubuntu1 gcc-5_5.3.1-3ubuntu1 libc6-dev_2.21-0ubuntu5 libstdc++-5-dev_5.3.1-3ubuntu1 libstdc++6_5.3.1-3ubuntu1 linux-libc-dev_4.3.0-2.11 Package versions: adduser_3.113+nmu3ubuntu4 advancecomp_1.20-1 apt_1.1.4 apt-transport-https_1.1.4 base-files_9.4ubuntu3 base-passwd_3.5.38 bash_4.3-14ubuntu1 binutils_2.25.90.20151209-1ubuntu1 bsdmainutils_9.0.6ubuntu1 bsdutils_1:2.27.1-1ubuntu3 build-essential_12.1ubuntu2 bzip2_1.0.6-8 ca-certificates_20150426ubuntu1 coreutils_8.23-4ubuntu2 cpp_4:5.2.1-16ubuntu2 cpp-5_5.3.1-3ubuntu1 csh_20110502-2.1ubuntu1 dash_0.5.7-4ubuntu2 debconf_1.5.58ubuntu1 debhelper_9.20151126ubuntu1 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libhx509-5-heimdal_1.6~rc2+dfsg-10ubuntu1 libice-dev_2:1.0.9-1 libice6_2:1.0.9-1 libicu55_55.1-6ubuntu1 libidn11_1.32-3ubuntu1 libio-html-perl_1.001-1 libio-socket-ssl-perl_2.021-1 libisl13_0.14-2 libisl15_0.15-3 libitm1_5.3.1-3ubuntu1 libjbig0_2.1-3.1 libjpeg-turbo8_1.3.0-0ubuntu2 libjpeg8_8c-2ubuntu8 libk5crypto3_1.13.2+dfsg-4 libkeyutils1_1.5.9-8 libkmod2_21-1ubuntu1 libkrb5-26-heimdal_1.6~rc2+dfsg-10ubuntu1 libkrb5-3_1.13.2+dfsg-4 libkrb5support0_1.13.2+dfsg-4 liblcms2-2_2.6-3ubuntu2 libldap-2.4-2_2.4.41+dfsg-1ubuntu2 libllvm3.6v5_1:3.6.2-3build1 liblockfile-bin_1.09-6ubuntu1 liblockfile1_1.09-6ubuntu1 liblqr-1-0_0.4.2-2 liblsan0_5.3.1-3ubuntu1 libltdl7_2.4.2-1.11 liblwp-mediatypes-perl_6.02-1 liblwp-protocol-https-perl_6.06-2 liblzma5_5.1.1alpha+20120614-2ubuntu2 libmagic1_1:5.25-2ubuntu1 libmagickcore-6.q16-2_8:6.8.9.9-6 libmagickwand-6.q16-2_8:6.8.9.9-6 libmotif-common_2.3.4-8ubuntu1 libmotif-dev_2.3.4-8ubuntu1 libmount1_2.27.1-1ubuntu3 libmpc3_1.0.3-1 libmpfr4_3.1.3-1 libmpx0_5.3.1-3ubuntu1 libmrm4_2.3.4-8ubuntu1 libncurses5_6.0+20151024-2ubuntu1 libncursesw5_6.0+20151024-2ubuntu1 libnet-http-perl_6.09-1 libnet-ssleay-perl_1.72-1 libnettle6_3.1.1-4 libnih-dbus1_1.0.3-4ubuntu27 libnih1_1.0.3-4ubuntu27 libp11-kit0_0.23.1-3 libpam-modules_1.1.8-3.1ubuntu3 libpam-modules-bin_1.1.8-3.1ubuntu3 libpam-runtime_1.1.8-3.1ubuntu3 libpam0g_1.1.8-3.1ubuntu3 libpciaccess0_0.13.4-1 libpcre16-3_2:8.35-7.1ubuntu1 libpcre3_2:8.35-7.1ubuntu1 libpcre3-dev_2:8.35-7.1ubuntu1 libpcre32-3_2:8.35-7.1ubuntu1 libpcrecpp0v5_2:8.35-7.1ubuntu1 libpipeline1_1.4.1-1 libpng12-0_1.2.54-1 libpng12-dev_1.2.54-1 libprocps3_1:3.3.9-1ubuntu8 libprocps4_2:3.3.10-4ubuntu1 libpthread-stubs0-dev_0.3-4 libquadmath0_5.3.1-3ubuntu1 libreadline6_6.3-8ubuntu1 libroken18-heimdal_1.6~rc2+dfsg-10ubuntu1 librtmp1_2.4+20150115.gita107cef-1build1 libsasl2-2_2.1.26.dfsg1-14 libsasl2-modules-db_2.1.26.dfsg1-14 libseccomp2_2.2.3-2ubuntu1 libselinux1_2.4-3 libsemanage-common_2.4-3 libsemanage1_2.4-3 libsepol1_2.4-2 libslang2_2.3.0-2ubuntu1 libsm-dev_2:1.2.2-1 libsm6_2:1.2.2-1 libsmartcols1_2.27.1-1ubuntu3 libsqlite3-0_3.9.2-1 libss2_1.42.13-1ubuntu1 libssl1.0.0_1.0.2e-1ubuntu1 libstdc++-5-dev_5.3.1-3ubuntu1 libstdc++6_5.3.1-3ubuntu1 libsystemd0_228-2ubuntu1 libtasn1-6_4.7-2 libtiff5_4.0.5-1 libtimedate-perl_2.3000-2 libtinfo5_6.0+20151024-2ubuntu1 libtsan0_5.3.1-3ubuntu1 libubsan0_5.3.1-3ubuntu1 libudev1_228-2ubuntu1 libuil4_2.3.4-8ubuntu1 libunistring0_0.9.3-5.2ubuntu1 liburi-perl_1.69-1 libusb-0.1-4_2:0.1.12-27 libustr-1.0-1_1.0.4-5 libuuid1_2.27.1-1ubuntu3 libwind0-heimdal_1.6~rc2+dfsg-10ubuntu1 libwww-perl_6.15-1 libwww-robotrules-perl_6.01-1 libx11-6_2:1.6.3-1ubuntu2 libx11-data_2:1.6.3-1ubuntu2 libx11-dev_2:1.6.3-1ubuntu2 libx11-xcb-dev_2:1.6.3-1ubuntu2 libx11-xcb1_2:1.6.3-1ubuntu2 libxau-dev_1:1.0.8-1 libxau6_1:1.0.8-1 libxcb-dri2-0_1.11.1-1ubuntu1 libxcb-dri2-0-dev_1.11.1-1ubuntu1 libxcb-dri3-0_1.11.1-1ubuntu1 libxcb-dri3-dev_1.11.1-1ubuntu1 libxcb-glx0_1.11.1-1ubuntu1 libxcb-glx0-dev_1.11.1-1ubuntu1 libxcb-present-dev_1.11.1-1ubuntu1 libxcb-present0_1.11.1-1ubuntu1 libxcb-randr0_1.11.1-1ubuntu1 libxcb-randr0-dev_1.11.1-1ubuntu1 libxcb-render0_1.11.1-1ubuntu1 libxcb-render0-dev_1.11.1-1ubuntu1 libxcb-shape0_1.11.1-1ubuntu1 libxcb-shape0-dev_1.11.1-1ubuntu1 libxcb-sync-dev_1.11.1-1ubuntu1 libxcb-sync1_1.11.1-1ubuntu1 libxcb-xfixes0_1.11.1-1ubuntu1 libxcb-xfixes0-dev_1.11.1-1ubuntu1 libxcb1_1.11.1-1ubuntu1 libxcb1-dev_1.11.1-1ubuntu1 libxdamage-dev_1:1.1.4-2 libxdamage1_1:1.1.4-2 libxdmcp-dev_1:1.1.2-1.1 libxdmcp6_1:1.1.2-1.1 libxext-dev_2:1.3.3-1 libxext6_2:1.3.3-1 libxfixes-dev_1:5.0.1-2 libxfixes3_1:5.0.1-2 libxft2_2.3.2-1 libxm4_2.3.4-8ubuntu1 libxml2_2.9.2+zdfsg1-4ubuntu2 libxmu-dev_2:1.1.2-1ubuntu1 libxmu-headers_2:1.1.2-1ubuntu1 libxmu6_2:1.1.2-1ubuntu1 libxrender1_1:0.9.9-0ubuntu1 libxshmfence-dev_1.2-1 libxshmfence1_1.2-1 libxt-dev_1:1.1.5-0ubuntu1 libxt6_1:1.1.5-0ubuntu1 libxxf86vm-dev_1:1.1.4-1 libxxf86vm1_1:1.1.4-1 linux-libc-dev_4.3.0-2.11 lockfile-progs_0.1.17 login_1:4.1.5.1-1.1ubuntu7 lsb-base_9.20150917ubuntu1 make_4.0-8.2 man-db_2.7.5-1 mawk_1.3.3-17ubuntu2 mesa-common-dev_11.0.6-1ubuntu1 mount_2.27.1-1ubuntu3 multiarch-support_2.21-0ubuntu5 ncurses-base_6.0+20151024-2ubuntu1 ncurses-bin_6.0+20151024-2ubuntu1 netbase_5.3 openssl_1.0.2e-1ubuntu1 optipng_0.7.5-1 passwd_1:4.1.5.1-1.1ubuntu7 patch_2.7.5-1 perl_5.20.2-6 perl-base_5.20.2-6 perl-modules_5.20.2-6 pkg-create-dbgsym_0.70 pkgbinarymangler_125 po-debconf_1.0.18 policyrcd-script-zg2_0.1-2 procps_2:3.3.10-4ubuntu1 readline-common_6.3-8ubuntu1 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-ncbi-tools6-dummy_0.invalid.0 sed_4.2.2-6.1 sensible-utils_0.0.9 systemd_228-2ubuntu1 systemd-sysv_228-2ubuntu1 sysv-rc_2.88dsf-59.2ubuntu3 sysvinit-utils_2.88dsf-59.2ubuntu3 tar_1.28-2.1 tzdata_2015g-1 ubuntu-keyring_2012.05.19 ucf_3.0031 udev_228-2ubuntu1 uil_2.3.4-8ubuntu1 util-linux_2.27.1-1ubuntu3 x11-common_1:7.7+12ubuntu1 x11proto-core-dev_7.0.28-0ubuntu1 x11proto-damage-dev_1:1.2.1-2 x11proto-dri2-dev_2.8-2 x11proto-fixes-dev_1:5.0-2ubuntu2 x11proto-gl-dev_1.4.17-1 x11proto-input-dev_2.3.1-1 x11proto-kb-dev_1.0.7-0ubuntu1 x11proto-xext-dev_7.3.0-1 x11proto-xf86vidmode-dev_2.3.1-2 xorg-sgml-doctools_1:1.11-1 xtrans-dev_1.3.5-1 xz-utils_5.1.1alpha+20120614-2ubuntu2 zlib1g_1:1.2.8.dfsg-2ubuntu4 zlib1g-dev_1:1.2.8.dfsg-2ubuntu4 ┌──────────────────────────────────────────────────────────────────────────────┐ │ Build │ └──────────────────────────────────────────────────────────────────────────────┘ Unpack source ───────────── gpgv: Signature made Thu Dec 10 06:22:51 2015 UTC using RSA key ID F14A64A2 gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./ncbi-tools6_6.1.20120620-10.dsc dpkg-source: info: extracting ncbi-tools6 in ncbi-tools6-6.1.20120620 dpkg-source: info: unpacking ncbi-tools6_6.1.20120620.orig.tar.gz dpkg-source: info: applying ncbi-tools6_6.1.20120620-10.diff.gz dpkg-source: info: upstream files that have been modified: ncbi-tools6-6.1.20120620/.gitignore ncbi-tools6-6.1.20120620/api/alignmgr2.c ncbi-tools6-6.1.20120620/api/aliread.c ncbi-tools6-6.1.20120620/api/pgppop.c ncbi-tools6-6.1.20120620/api/txalign.c ncbi-tools6-6.1.20120620/corelib/ncbienv.c ncbi-tools6-6.1.20120620/corelib/ncbimain.c ncbi-tools6-6.1.20120620/corelib/ncbimisc.c ncbi-tools6-6.1.20120620/demo/dotmain.c ncbi-tools6-6.1.20120620/demo/ingenmain.c ncbi-tools6-6.1.20120620/demo/makeset.c ncbi-tools6-6.1.20120620/demo/tbl2asn.c ncbi-tools6-6.1.20120620/desktop/bspview.c ncbi-tools6-6.1.20120620/desktop/ingenwin.c ncbi-tools6-6.1.20120620/desktop/seqpanel.c ncbi-tools6-6.1.20120620/doc/firewall.html ncbi-tools6-6.1.20120620/doc/fwd_check.sh ncbi-tools6-6.1.20120620/doc/man/Psequin.1 ncbi-tools6-6.1.20120620/doc/man/asn2all.1 ncbi-tools6-6.1.20120620/doc/man/asn2fsa.1 ncbi-tools6-6.1.20120620/doc/man/asn2gb.1 ncbi-tools6-6.1.20120620/doc/man/asndisc.1 ncbi-tools6-6.1.20120620/doc/man/asnmacro.1 ncbi-tools6-6.1.20120620/doc/man/asntool.1 ncbi-tools6-6.1.20120620/doc/man/asnval.1 ncbi-tools6-6.1.20120620/doc/man/blast.1 ncbi-tools6-6.1.20120620/doc/man/blast2.1 ncbi-tools6-6.1.20120620/doc/man/cleanasn.1 ncbi-tools6-6.1.20120620/doc/man/idfetch.1 ncbi-tools6-6.1.20120620/doc/man/nps2gps.1 ncbi-tools6-6.1.20120620/doc/man/sbtedit.1 ncbi-tools6-6.1.20120620/doc/man/tbl2asn.1 ncbi-tools6-6.1.20120620/make/makeall.unx ncbi-tools6-6.1.20120620/make/makedemo.unx ncbi-tools6-6.1.20120620/make/makenet.unx ncbi-tools6-6.1.20120620/make/makeshlb.unx ncbi-tools6-6.1.20120620/sequin/sbtedit.c ncbi-tools6-6.1.20120620/sequin/sequin1.c ncbi-tools6-6.1.20120620/sequin/sequin7.c ncbi-tools6-6.1.20120620/sequin/streamer.c ncbi-tools6-6.1.20120620/tools/readdb.c ncbi-tools6-6.1.20120620/tools/spidey.c ncbi-tools6-6.1.20120620/vibrant/netscape.c ncbi-tools6-6.1.20120620/vibrant/shim3d.c ncbi-tools6-6.1.20120620/vibrant/vibmain.c ncbi-tools6-6.1.20120620/vibrant/vibwndws.c Check disc space ──────────────── Sufficient free space for build User Environment ──────────────── DEB_BUILD_OPTIONS=parallel=4 HOME=/home/buildd LANG=C LOGNAME=buildd MAIL=/var/mail/buildd OLDPWD=/ PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games PWD=/«PKGBUILDDIR» SHELL=/bin/sh SUDO_COMMAND=/usr/sbin/chroot /«CHROOT» su buildd -s /bin/sh -c cd '/«PKGBUILDDIR»' && 'env' SUDO_GID=2501 SUDO_UID=2001 SUDO_USER=buildd TERM=unknown USER=buildd USERNAME=root dpkg-buildpackage ───────────────── dpkg-buildpackage: source package ncbi-tools6 dpkg-buildpackage: source version 6.1.20120620-10 dpkg-buildpackage: source distribution unstable dpkg-source --before-build ncbi-tools6-6.1.20120620 dpkg-buildpackage: host architecture amd64 fakeroot debian/rules clean dh clean dh_testdir debian/rules override_dh_auto_clean make[1]: Entering directory '/«PKGBUILDDIR»' rm -rf build/* bin/* include/* lib/* shlib mkdir -p build bin include lib rm -f debian/*.menu debian/asntool.xpm debian/ncbilogo.xpm chmod -x debian/makemenu debian/installman make[1]: Leaving directory '/«PKGBUILDDIR»' dh_clean debian/rules build dh build dh_testdir dh_auto_configure debian/rules override_dh_auto_build-arch make[1]: Entering directory '/«PKGBUILDDIR»' cd build && ln -s ../make/*.unx . ln -s ../make/ln-if-absent build mv build/makeall.unx build/makefile /usr/bin/make -C build all LCL=lnx CC="gcc " LDFLAGS1="-g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='\"Dec 10 2015\"' -DBUILD_TIME='\"06:19:59\"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now" RAN="ranlib" OTHERLIBS="-lm" VIBLIBS="-lXm -lXmu -lXt -lX11 " VIBFLAG="-DWIN_MOTIF" NCBI_LINKINGLIBDIR="../shlib" \ CFLAGS1="-c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='\"Dec 10 2015\"' -DBUILD_TIME='\"06:19:59\"' -fPIC -D_PNG" \ LIB4=libvibrant.a LIB20=libncbidesk.a LIB28=libvibgif.a \ LIB30=libncbicn3d.a LIB45=libddvlib.a LIB400=libvibrantOGL.a LIB3000=libncbicn3dOGL.a make[2]: Entering directory '/«PKGBUILDDIR»/build' chmod -R ug+rw,o+r . ../include ./ln-if-absent ../corelib/tsprintf.h ../include ./ln-if-absent ../corelib/gifgen.h ../include ./ln-if-absent ../corelib/ncbi*.h ../include ./ln-if-absent ../corelib/tree*.h ../include ./ln-if-absent ../corelib/regex.h ../include ./ln-if-absent ../corelib/matrix.h ../include ./ln-if-absent ../corelib/binary.h ../include ./ln-if-absent ../corelib/morefile/*.h ../include ./ln-if-absent ../corelib/morefile/*.c . ./ln-if-absent ../link/macmet/MoreCarbonAccessors.h ../include ./ln-if-absent ../corelib/ncbilcl.lnx ../include/ncbilcl.h ./ln-if-absent ../corelib/*.c . ./ln-if-absent ../corelib/core*.h . ./ln-if-absent ../asnlib/*.h . rm -f ../include/asn.h mv asn.h ../include ./ln-if-absent ../asnlib/*.c . ./ln-if-absent ../connect/*.c . ./ln-if-absent ../connect/ncbi_ansi_ext.h . ./ln-if-absent ../connect/ncbi_assert.h . ./ln-if-absent ../connect/ncbi_priv.h . ./ln-if-absent ../connect/ncbi_comm.h . ./ln-if-absent ../connect/ncbi_config.h . ./ln-if-absent ../connect/ncbi_connssl.h . ./ln-if-absent ../connect/ncbi_lbsm.h . makefile:679: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../connect/ncbi_lbsm_ipc.h . makefile:679: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../connect/ncbi_host_infop.h . ./ln-if-absent ../connect/ncbi_server_infop.h . ./ln-if-absent ../connect/ncbi_servicep.h . ./ln-if-absent ../connect/ncbi_socketp.h . ./ln-if-absent ../connect/ncbi_dispd.h . ./ln-if-absent ../connect/ncbi_lbsmd.h . ./ln-if-absent ../connect/ncbi_local.h . ./ln-if-absent ../connect/ncbi_lb.h . ./ln-if-absent ../connect/ncbi_version.h . ./ln-if-absent ../connect/ncbi_base64.h . ./ln-if-absent ../connect/urlquery.h ../include mkdir ../include/connect chmod ug+rw,o+r ../include/connect cp -fp ../connect/ncbi_*.h ../connect/connect_export.h ../include/connect ./ln-if-absent ../util/tables/*.c . mkdir -p ../include/util/tables cp -fp ../util/tables/*.h ../include/util/tables ./ln-if-absent ../util/creaders/*.c . mkdir -p ../include/util/creaders cp -fp ../util/creaders/*.h ../include/util/creaders ./ln-if-absent ../ctools/*.c . ./ln-if-absent ../ctools/*.h . mkdir ../include/ctools chmod ug+rw,o+r ../include/ctools cp -fp ../ctools/*.h ../include/ctools ./ln-if-absent ../object/*.c . ./ln-if-absent ../object/*.h ../include ./ln-if-absent ../access/*.c . ./ln-if-absent ../access/*.h ../include ./ln-if-absent ../asnstat/*.h ../include ./ln-if-absent ../api/*.h ../include ./ln-if-absent ../api/*.c . ./ln-if-absent ../api/*.inc . ./ln-if-absent ../cdromlib/*.h ../include ./ln-if-absent ../cdromlib/*.c . ./ln-if-absent ../vibrant/*.h ../include ./ln-if-absent ../vibrant/*.c . ./ln-if-absent ../desktop/*.h ../include ./ln-if-absent ../desktop/*.c . ./ln-if-absent ../biostruc/*.h ../include ./ln-if-absent ../biostruc/*.c . ./ln-if-absent ../biostruc/cdd/*.h ../include ./ln-if-absent ../biostruc/cdd/*.c . ./ln-if-absent ../biostruc/cn3d/*.h ../include ./ln-if-absent ../biostruc/cn3d/*.c . ./ln-if-absent ../tools/*.h ../include ./ln-if-absent ../tools/*.c . ./ln-if-absent ../cn3d/*.h ../include ./ln-if-absent ../cn3d/*.c . ./ln-if-absent ../gif/*.c . ./ln-if-absent ../gif/*.h ../include ./ln-if-absent ../ddv/*.h ../include ./ln-if-absent ../ddv/*.c . ./ln-if-absent ../regexp/*.c . ./ln-if-absent ../regexp/*.h ../include ./ln-if-absent ../internal/compr/*.c . set: No match. makefile:679: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/compr/*.h ../include set: No match. makefile:679: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/libindx/*.c . set: No match. makefile:679: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/libindx/*.h ../include set: No match. makefile:679: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/libpars/*.c . set: No match. makefile:679: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/libpars/*.h ../include set: No match. makefile:679: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/ideogram/*.c . set: No match. makefile:679: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/ideogram/*.dat . set: No match. makefile:679: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/ideogram/ideochr*.h ../include set: No match. makefile:679: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/ideogram/ideoorgs.h . makefile:679: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/ccap/*.c . set: No match. makefile:679: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/ccap/*.dat . set: No match. makefile:679: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/ccap/*.h ../include set: No match. makefile:679: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ncbidraw.c ncbidrwg.c ./ln-if-absent ncbithr.c ncbithrs.c ./ln-if-absent ../network/nsclilib/*.h ../include ./ln-if-absent ../network/blast3/client/*.h ../include ./ln-if-absent ../network/id1arch/*.h ../include ./ln-if-absent ../network/id2arch/*.h ../include mkdir -p ../include/algo/blast/core ./ln-if-absent ../algo/blast/core/*.c . ./ln-if-absent ../algo/blast/core/*.h . ./ln-if-absent ../algo/blast/core/*.inl . cp -fp ../algo/blast/core/*.h ../include/algo/blast/core mkdir -p ../include/algo/blast/composition_adjustment ./ln-if-absent ../algo/blast/composition_adjustment/*.c . cp -fp ../algo/blast/composition_adjustment/*.h \ ../include/algo/blast/composition_adjustment mkdir -p ../include/algo/blast/api ./ln-if-absent ../algo/blast/api/*.c . cp -fp ../algo/blast/api/*.h ../include/algo/blast/api chmod -R ug+rw,o+r . echo Waiting...go Waiting...go gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbithr.c ncbithr.c: In function 's_TlsDestroyAll': ncbithr.c:2529:11: warning: variable 'err_code' set but not used [-Wunused-but-set-variable] int err_code = 0; ^ cp -p ncbithr.o ../lib gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbimain.c ncbimain.c:82:1: warning: return type defaults to 'int' [-Wimplicit-int] main(int argc, char *argv[]) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbibs.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF wwwutils.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbierr.c In file included from /usr/include/string.h:639:0, from ../include/ncbilcl.h:156, from ../include/ncbi.h:57, from corepriv.h:85, from ncbierr.c:235: In function 'strncat', inlined from 'ErrMsgRoot_fopen.isra.1' at ncbierr.c:955:13: /usr/include/x86_64-linux-gnu/bits/string3.h:156:10: warning: call to __builtin___strncat_chk might overflow destination buffer return __builtin___strncat_chk (__dest, __src, __len, __bos (__dest)); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbienv.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbifile.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbiprop.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbimath.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbimem.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbimisc.c ncbimisc.c: In function 'Nlm_MD5Final': ncbimisc.c:2250:26: warning: argument to 'sizeof' in 'memset' call is the same expression as the destination; did you mean to dereference it? [-Wsizeof-pointer-memaccess] memset(ctx, 0, sizeof(ctx)); /* In case it's sensitive */ ^ ncbimisc.c: In function 'XmlPathSuffixIs': ncbimisc.c:2947:58: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if (StringHasNoText (parentFilter) || parent != NULL && StringICmp (parent->name, parentFilter) == 0) { ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbimsg.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbistr.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbisgml.c In file included from /usr/include/string.h:639:0, from ../include/ncbilcl.h:156, from ../include/ncbi.h:57, from ncbisgml.c:80: In function 'strncat', inlined from 'Nlm_Sgml2Ascii' at ncbisgml.c:284:5: /usr/include/x86_64-linux-gnu/bits/string3.h:156:10: warning: call to __builtin___strncat_chk might overflow destination buffer return __builtin___strncat_chk (__dest, __src, __len, __bos (__dest)); ^ In function 'strncat', inlined from 'Nlm_Sgml2Ascii' at ncbisgml.c:265:5: /usr/include/x86_64-linux-gnu/bits/string3.h:156:10: warning: call to __builtin___strncat_chk might overflow destination buffer return __builtin___strncat_chk (__dest, __src, __len, __bos (__dest)); ^ In function 'strncat', inlined from 'Nlm_Sgml2AsciiLen' at ncbisgml.c:354:5: /usr/include/x86_64-linux-gnu/bits/string3.h:156:10: warning: call to __builtin___strncat_chk might overflow destination buffer return __builtin___strncat_chk (__dest, __src, __len, __bos (__dest)); ^ In function 'strncat', inlined from 'Nlm_Sgml2AsciiLen' at ncbisgml.c:340:5: /usr/include/x86_64-linux-gnu/bits/string3.h:156:10: warning: call to __builtin___strncat_chk might overflow destination buffer return __builtin___strncat_chk (__dest, __src, __len, __bos (__dest)); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbitime.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbilang.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF asnbufo.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF asndebin.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF asnenbin.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF asngen.c asngen.c: In function 'AsnFindNthPieceOfObject': asngen.c:540:16: warning: variable 'aeop' set but not used [-Wunused-but-set-variable] AsnExpOptPtr aeop; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF asnio.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF asnlex.c asnlex.c:1322:13: warning: 'AsnLexWordUTF8' defined but not used [-Wunused-function] static Int2 AsnLexWordUTF8 (AsnIoPtr aip) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF asnlext.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF asnout.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF asnprint.c asnprint.c: In function 'GetXMLModuleName': asnprint.c:102:2: warning: statement with no effect [-Wunused-value] for (currmod; currmod != NULL; currmod = currmod->next) ^ asnprint.c: In function 'AsnPrintCloseStruct': asnprint.c:1771:7: warning: variable 'isa' set but not used [-Wunused-but-set-variable] Int2 isa; ^ asnprint.c: In function 'AsnPrintModuleXMLInc': asnprint.c:2092:10: warning: variable 'ptr' set but not used [-Wunused-but-set-variable] CharPtr ptr; ^ asnprint.c: In function 'AsnPrintTreeType': asnprint.c:2572:8: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] ptr = (Uint4)(atp); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF asntypes.c asntypes.c: In function 'AsnTreeLoad': asntypes.c:1274:5: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fp, "%d %d %d", &numval, &numtype, &nummod); ^ asntypes.c:1288:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fp, "%d %s %ld %lf %d", &isa, name, &intvalue, &realvalue, &next); ^ asntypes.c:1301:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fp, "%d %s %d %d %d %d %d %d %d %d %d %d %d", ^ asntypes.c:1333:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fp, "%s %s %d %d", name, fname, &type, &next); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF asngenob.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF gifgen.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF togif.c togif.c: In function 'gdImageCreateFromGif': togif.c:961:12: warning: variable 'AspectRatio' set but not used [-Wunused-but-set-variable] int AspectRatio; ^ togif.c:960:12: warning: variable 'Background' set but not used [-Wunused-but-set-variable] int Background; ^ togif.c:959:12: warning: variable 'ColorResolution' set but not used [-Wunused-but-set-variable] int ColorResolution; ^ gcc -DNCBI_NOTHREADS_AVAIL -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbithrs.c ncbithrs.c: In function 's_TlsDestroyAll': ncbithrs.c:2529:11: warning: unused variable 'err_code' [-Wunused-variable] int err_code = 0; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -DHAVE_STRING_H -DREGEX_MALLOC regex.c regex.c: In function 're_match_2': regex.c:3762:31: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] if ((int) old_regend[r] >= (int) regstart[r]) ^ regex.c:3762:54: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] if ((int) old_regend[r] >= (int) regstart[r]) ^ regex.c:2342:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item ^ regex.c:2421:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' PUSH_FAILURE_ITEM (lowest_active_reg); \ ^ regex.c:3768:19: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (p1 + mcnt, d, -2); ^ regex.c:2342:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item ^ regex.c:2424:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' PUSH_FAILURE_ITEM (highest_active_reg); \ ^ regex.c:3768:19: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (p1 + mcnt, d, -2); ^ regex.c:2368:11: warning: unused variable 'destination' [-Wunused-variable] char *destination; \ ^ regex.c:3768:19: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (p1 + mcnt, d, -2); ^ regex.c:2342:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item ^ regex.c:2421:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' PUSH_FAILURE_ITEM (lowest_active_reg); \ ^ regex.c:3915:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (p + mcnt, NULL, -2); ^ regex.c:2342:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item ^ regex.c:2424:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' PUSH_FAILURE_ITEM (highest_active_reg); \ ^ regex.c:3915:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (p + mcnt, NULL, -2); ^ regex.c:2368:11: warning: unused variable 'destination' [-Wunused-variable] char *destination; \ ^ regex.c:3915:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (p + mcnt, NULL, -2); ^ regex.c:2342:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item ^ regex.c:2421:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' PUSH_FAILURE_ITEM (lowest_active_reg); \ ^ regex.c:3968:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (p + mcnt, d, -2); ^ regex.c:2342:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item ^ regex.c:2424:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' PUSH_FAILURE_ITEM (highest_active_reg); \ ^ regex.c:3968:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (p + mcnt, d, -2); ^ regex.c:2368:11: warning: unused variable 'destination' [-Wunused-variable] char *destination; \ ^ regex.c:3968:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (p + mcnt, d, -2); ^ regex.c:2509:14: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] high_reg = (unsigned) POP_FAILURE_ITEM (); \ ^ regex.c:4074:13: note: in expansion of macro 'POP_FAILURE_POINT' POP_FAILURE_POINT (sdummy, pdummy, ^ regex.c:2512:13: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] low_reg = (unsigned) POP_FAILURE_ITEM (); \ ^ regex.c:4074:13: note: in expansion of macro 'POP_FAILURE_POINT' POP_FAILURE_POINT (sdummy, pdummy, ^ regex.c:4071:25: warning: variable 'sdummy' set but not used [-Wunused-but-set-variable] const char *sdummy; ^ regex.c:4070:28: warning: variable 'pdummy' set but not used [-Wunused-but-set-variable] unsigned char *pdummy; ^ regex.c:2342:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item ^ regex.c:2421:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' PUSH_FAILURE_ITEM (lowest_active_reg); \ ^ regex.c:4107:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (0, 0, -2); ^ regex.c:2342:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item ^ regex.c:2424:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' PUSH_FAILURE_ITEM (highest_active_reg); \ ^ regex.c:4107:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (0, 0, -2); ^ regex.c:2368:11: warning: unused variable 'destination' [-Wunused-variable] char *destination; \ ^ regex.c:4107:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (0, 0, -2); ^ regex.c:2342:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item ^ regex.c:2421:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' PUSH_FAILURE_ITEM (lowest_active_reg); \ ^ regex.c:4120:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (0, 0, -2); ^ regex.c:2342:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item ^ regex.c:2424:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' PUSH_FAILURE_ITEM (highest_active_reg); \ ^ regex.c:4120:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (0, 0, -2); ^ regex.c:2368:11: warning: unused variable 'destination' [-Wunused-variable] char *destination; \ ^ regex.c:4120:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (0, 0, -2); ^ regex.c:2509:14: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] high_reg = (unsigned) POP_FAILURE_ITEM (); \ ^ regex.c:4288:11: note: in expansion of macro 'POP_FAILURE_POINT' POP_FAILURE_POINT (d, p, ^ regex.c:2512:13: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] low_reg = (unsigned) POP_FAILURE_ITEM (); \ ^ regex.c:4288:11: note: in expansion of macro 'POP_FAILURE_POINT' POP_FAILURE_POINT (d, p, ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF tsprintf.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbiargs.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF tree.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF matrix.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_socket.c ncbi_socket.c: In function 's_GetLocalPort': ncbi_socket.c:386:50: warning: pointer targets in passing argument 3 of 'getsockname' differ in signedness [-Wpointer-sign] if (getsockname(fd, (struct sockaddr*) &sin, &sinlen) == 0 ^ In file included from ncbi_socketp.h:53:0, from ncbi_connssl.h:37, from ncbi_socket.c:38: /usr/include/x86_64-linux-gnu/sys/socket.h:127:12: note: expected 'socklen_t * restrict {aka unsigned int * restrict}' but argument is of type 'TSOCK_socklen_t * {aka int *}' extern int getsockname (int __fd, __SOCKADDR_ARG __addr, ^ ncbi_socket.c: In function 's_IsConnected': ncbi_socket.c:2435:73: warning: pointer targets in passing argument 5 of 'getsockopt' differ in signedness [-Wpointer-sign] if (getsockopt(sock->sock, SOL_SOCKET, SO_ERROR, (void*) error, &len) ^ In file included from ncbi_socketp.h:53:0, from ncbi_connssl.h:37, from ncbi_socket.c:38: /usr/include/x86_64-linux-gnu/sys/socket.h:219:12: note: expected 'socklen_t * restrict {aka unsigned int * restrict}' but argument is of type 'TSOCK_socklen_t * {aka int *}' extern int getsockopt (int __fd, int __level, int __optname, ^ ncbi_socket.c: In function 'TRIGGER_Create': ncbi_socket.c:4002:18: warning: unused variable 'x_id' [-Wunused-variable] unsigned int x_id = ++s_ID_Counter; ^ ncbi_socket.c: In function 's_CreateListening': ncbi_socket.c:4454:50: warning: pointer targets in passing argument 3 of 'getsockname' differ in signedness [-Wpointer-sign] x_error = getsockname(x_lsock, &addr.sa, &addrlen) != 0 ^ In file included from ncbi_socketp.h:53:0, from ncbi_connssl.h:37, from ncbi_socket.c:38: /usr/include/x86_64-linux-gnu/sys/socket.h:127:12: note: expected 'socklen_t * restrict {aka unsigned int * restrict}' but argument is of type 'TSOCK_socklen_t * {aka int *}' extern int getsockname (int __fd, __SOCKADDR_ARG __addr, ^ ncbi_socket.c: In function 's_Accept': ncbi_socket.c:4722:49: warning: pointer targets in passing argument 3 of 'accept' differ in signedness [-Wpointer-sign] if ((x_sock = accept(lsock->sock, &addr.sa, &addrlen)) == SOCK_INVALID) { ^ In file included from ncbi_socketp.h:53:0, from ncbi_connssl.h:37, from ncbi_socket.c:38: /usr/include/x86_64-linux-gnu/sys/socket.h:243:12: note: expected 'socklen_t * restrict {aka unsigned int * restrict}' but argument is of type 'TSOCK_socklen_t * {aka int *}' extern int accept (int __fd, __SOCKADDR_ARG __addr, ^ ncbi_socket.c: In function 's_CreateOnTop': ncbi_socket.c:5174:35: warning: pointer targets in passing argument 3 of 'getpeername' differ in signedness [-Wpointer-sign] if (getpeername(fd, &peer.sa, &peerlen) != 0) { ^ In file included from ncbi_socketp.h:53:0, from ncbi_connssl.h:37, from ncbi_socket.c:38: /usr/include/x86_64-linux-gnu/sys/socket.h:141:12: note: expected 'socklen_t * restrict {aka unsigned int * restrict}' but argument is of type 'TSOCK_socklen_t * {aka int *}' extern int getpeername (int __fd, __SOCKADDR_ARG __addr, ^ ncbi_socket.c:5210:43: warning: pointer targets in passing argument 3 of 'getsockname' differ in signedness [-Wpointer-sign] if (getsockname(fd, &peer.sa, &peerlen) != 0) ^ In file included from ncbi_socketp.h:53:0, from ncbi_connssl.h:37, from ncbi_socket.c:38: /usr/include/x86_64-linux-gnu/sys/socket.h:127:12: note: expected 'socklen_t * restrict {aka unsigned int * restrict}' but argument is of type 'TSOCK_socklen_t * {aka int *}' extern int getsockname (int __fd, __SOCKADDR_ARG __addr, ^ ncbi_socket.c: In function 'DSOCK_Bind': ncbi_socket.c:6609:53: warning: pointer targets in passing argument 3 of 'getsockname' differ in signedness [-Wpointer-sign] x_error = getsockname(sock->sock, &addr.sa, &addrlen) != 0 ^ In file included from ncbi_socketp.h:53:0, from ncbi_connssl.h:37, from ncbi_socket.c:38: /usr/include/x86_64-linux-gnu/sys/socket.h:127:12: note: expected 'socklen_t * restrict {aka unsigned int * restrict}' but argument is of type 'TSOCK_socklen_t * {aka int *}' extern int getsockname (int __fd, __SOCKADDR_ARG __addr, ^ ncbi_socket.c: In function 'DSOCK_RecvMsg': ncbi_socket.c:7002:52: warning: pointer targets in passing argument 6 of 'recvfrom' differ in signedness [-Wpointer-sign] (struct sockaddr*) &sin, &sinlen); ^ In file included from /usr/include/x86_64-linux-gnu/sys/socket.h:280:0, from ncbi_socketp.h:53, from ncbi_connssl.h:37, from ncbi_socket.c:38: /usr/include/x86_64-linux-gnu/bits/socket2.h:64:1: note: expected 'socklen_t * restrict {aka unsigned int * restrict}' but argument is of type 'TSOCK_socklen_t * {aka int *}' recvfrom (int __fd, void *__restrict __buf, size_t __n, int __flags, ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_buffer.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_types.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_core.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_core_c.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_util.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_priv.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_ansi_ext.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_connection.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_connector.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_connutil.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_file_connector.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_heapmgr.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_http_connector.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_memory_connector.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_lbsmd_stub.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_host_info.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_server_info.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_service.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_version.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_service_connector.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_ftp_connector.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_dispd.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_lb.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_local.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_socket_connector.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF urlquery.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF binary.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_sendmail.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_base64.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF asn_connection.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF raw_scoremat.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF drwnflpt.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF drwnfspc.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF drwnmfls.c rm -f libncbi.a ar cru libncbi.a ncbimain.o ncbibs.o wwwutils.o ncbierr.o ncbienv.o ncbifile.o ncbiprop.o ncbimath.o ncbimem.o ncbimisc.o ncbimsg.o ncbistr.o ncbisgml.o ncbitime.o ncbilang.o asnbufo.o asndebin.o asnenbin.o asngen.o asnio.o asnlex.o asnlext.o asnout.o asnprint.o asntypes.o asngenob.o gifgen.o togif.o ncbithrs.o regex.o tsprintf.o ncbiargs.o tree.o matrix.o ncbi_socket.o ncbi_buffer.o ncbi_types.o ncbi_core.o ncbi_core_c.o ncbi_util.o ncbi_priv.o ncbi_ansi_ext.o ncbi_connection.o ncbi_connector.o ncbi_connutil.o ncbi_file_connector.o ncbi_heapmgr.o ncbi_http_connector.o ncbi_memory_connector.o ncbi_lbsmd_stub.o ncbi_host_info.o ncbi_server_info.o ncbi_service.o ncbi_version.o ncbi_service_connector.o ncbi_ftp_connector.o ncbi_dispd.o ncbi_lb.o ncbi_local.o ncbi_socket_connector.o urlquery.o binary.o ncbi_sendmail.o ncbi_base64.o asn_connection.o raw_scoremat.o drwnflpt.o drwnfspc.o drwnmfls.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libncbi.a ../lib ranlib ../lib/libncbi.a gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objacces.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objalign.c objalign.c: In function 'CommonSeqAlignLabelFunc': objalign.c:135:27: warning: variable 'tmp' set but not used [-Wunused-but-set-variable] CharPtr curr, typelabel, tmp; ^ objalign.c: In function 'SplicedSegAsnRead': objalign.c:2169:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalign.c: In function 'SparseSegAsnRead': objalign.c:2409:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalign.c: In function 'SplicedExonAsnRead': objalign.c:2600:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalign.c: In function 'SplicedSegModifierFree': objalign.c:2858:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objalign.c: In function 'ProductPosFree': objalign.c:3031:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objalign.c: In function 'SplicedExonChunkFree': objalign.c:3204:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objalign.c: In function 'SpliceSiteAsnRead': objalign.c:3446:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalign.c: In function 'ProtPosAsnRead': objalign.c:3600:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalign.c: In function 'SparseAlignAsnRead': objalign.c:3769:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalign.c: In function 'SparseSegExtAsnRead': objalign.c:3988:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalign.c: In function 'SplicedSegModifierAsnRead': objalign.c:2938:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objalign.c: In function 'SplicedExonChunkAsnRead': objalign.c:3305:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objall.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objbibli.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objfeat.c objfeat.c: In function 'ModelEvidenceSupportAsnRead': objfeat.c:1494:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'ExperimentSupportAsnRead': objfeat.c:1739:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'ProgramIdAsnRead': objfeat.c:1921:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'EvidenceBasisAsnRead': objfeat.c:2088:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'InferenceSupportAsnRead': objfeat.c:2252:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'ModelEvidenceItemAsnRead': objfeat.c:2465:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'SeqFeatSupportAsnRead': objfeat.c:2667:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'RNAQualAsnRead': objfeat.c:4192:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'RNAQualSetAsnRead': objfeat.c:4341:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'RNAGenAsnRead': objfeat.c:4469:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'GeneNomenclatureAsnRead': objfeat.c:4649:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'PCRPrimerAsnRead': objfeat.c:8191:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'PCRPrimerSetAsnRead': objfeat.c:8333:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'PCRReactionAsnRead': objfeat.c:8454:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'PCRReactionSetAsnRead': objfeat.c:8597:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'CloneRefAsnRead': objfeat.c:8724:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'CloneSeqSetAsnRead': objfeat.c:8914:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'CloneSeqAsnRead': objfeat.c:9044:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'SomaticOriginAsnRead': objfeat.c:9393:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'SomaticOriginConditionAsnRead': objfeat.c:9472:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'VariationRefAsnRead': objfeat.c:9551:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'ConsequenceAsnWrite': objfeat.c:10112:12: warning: variable 'av' set but not used [-Wunused-but-set-variable] DataVal av; ^ objfeat.c: In function 'Consequence_loss_of_heterozygosityAsnRead': objfeat.c:10572:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'Consequence_frameshiftAsnRead': objfeat.c:10650:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'VarRefDataFree': objfeat.c:10750:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objfeat.c: In function 'VarRefDataSetAsnRead': objfeat.c:10803:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'Consequence_elementFree': objfeat.c:10997:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objfeat.c: In function 'VariationInstAsnRead': objfeat.c:11126:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: At top level: objfeat.c:11275:1: warning: "/*" within comment [-Wcomment] /************************************************** ^ objfeat.c: In function 'VariantPropertiesAsnRead': objfeat.c:11304:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'PhenotypeAsnRead': objfeat.c:11625:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'PopulationDataAsnRead': objfeat.c:11821:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'ExtLocAsnRead': objfeat.c:12034:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'Seq_seqFree': objfeat.c:12199:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objfeat.c: In function 'DeltaItemAsnRead': objfeat.c:12232:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'Consequence_elementAsnRead': objfeat.c:10539:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objfeat.c: In function 'CodeBreakAsnWrite': objfeat.c:3647:11: warning: 'tmp' may be used uninitialized in this function [-Wmaybe-uninitialized] if (! AsnWrite(aip, tmp, &av)) goto erret; ^ objfeat.c: In function 'VarRefDataAsnRead': objfeat.c:10965:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objgen.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objloc.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objmedli.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objpub.c objpub.c: In function 'PubLabelUnique': objpub.c:1353:17: warning: unused variable 'pmid' [-Wunused-variable] Int4 muid = 0, pmid = 0; ^ objpub.c:1353:7: warning: unused variable 'muid' [-Wunused-variable] Int4 muid = 0, pmid = 0; ^ objpub.c: In function 'PubSetAsnRead': objpub.c:869:13: warning: 'func' may be used uninitialized in this function [-Wmaybe-uninitialized] pnt = (* func)(aip, atp); ^ objpub.c:880:25: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] cit->choice = choice; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objres.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objscoremat.c objscoremat.c: In function 'PssmAsnRead': objscoremat.c:93:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objscoremat.c: In function 'PssmIntermediateDataAsnRead': objscoremat.c:336:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objscoremat.c: In function 'PssmFinalDataAsnRead': objscoremat.c:544:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objscoremat.c: In function 'PssmParametersAsnRead': objscoremat.c:759:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objscoremat.c: In function 'PssmWithParametersAsnRead': objscoremat.c:936:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objscoremat.c: In function 'BlockPropertyAsnRead': objscoremat.c:1102:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objscoremat.c: In function 'CoreBlockAsnRead': objscoremat.c:1275:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objscoremat.c: In function 'LoopConstraintAsnRead': objscoremat.c:1463:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objscoremat.c: In function 'CoreDefAsnRead': objscoremat.c:1626:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objscoremat.c: In function 'FormatRpsDbParametersAsnRead': objscoremat.c:1794:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objseq.c objseq.c: In function 'LinkageEvidenceAsnRead': objseq.c:1603:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objseq.c: In function 'SeqGapAsnRead': objseq.c:1755:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objseq.c: In function 'SeqDescrAsnWriteExtra': objseq.c:2023:48: warning: variable 'had_anp' set but not used [-Wunused-but-set-variable] Boolean retval = FALSE, had_extra = FALSE, had_anp = FALSE; ^ objseq.c: In function 'BioseqAsnRead': objseq.c:977:21: warning: 'osp' may be used uninitialized in this function [-Wmaybe-uninitialized] else if (osp->load_by_id) /* don't load it */ ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objblock.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objcode.c objcode.c:45:51: warning: "/*" within comment [-Wcomment] * environment variables to allow reading from data/*.val, replaced tabs in source code with spaces ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objsset.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objsub.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objprt.c objprt.c: In function 'PrintFormEnumAsnRead': objprt.c:992:5: warning: 'ptr' may be used uninitialized in this function [-Wmaybe-uninitialized] ptr=PrintFormEnumFree(ptr); ^ objprt.c: In function 'PrintFormTextAsnRead': objprt.c:1100:5: warning: 'ptr' may be used uninitialized in this function [-Wmaybe-uninitialized] ptr=PrintFormTextFree(ptr); ^ objprt.c: In function 'PrintFormBooleanAsnRead': objprt.c:877:5: warning: 'ptr' may be used uninitialized in this function [-Wmaybe-uninitialized] ptr=PrintFormBooleanFree(ptr); ^ objprt.c: In function 'PrintFormAsnRead': objprt.c:591:6: warning: 'vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] vnp = PrintFormFree(vnp); ^ objprt.c: In function 'PrintFormatAsnRead': objprt.c:429:5: warning: 'ptr' may be used uninitialized in this function [-Wmaybe-uninitialized] ptr=PrintFormatFree(ptr); ^ objprt.c: In function 'PrintTemplateAsnRead': objprt.c:247:5: warning: 'ptr' may be used uninitialized in this function [-Wmaybe-uninitialized] ptr=PrintTemplateFree(ptr); ^ objprt.c: In function 'PrintFormBlockAsnRead': objprt.c:755:5: warning: 'ptr' may be used uninitialized in this function [-Wmaybe-uninitialized] ptr=PrintFormBlockFree(ptr); ^ objprt.c: In function 'UserFormatAsnRead': objprt.c:1209:5: warning: 'ptr' may be used uninitialized in this function [-Wmaybe-uninitialized] ptr=UserFormatFree(ptr); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objfdef.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objalignloc.c objalignloc.c: In function 'AlignLocSetAsnRead': objalignloc.c:69:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalignloc.c: In function 'Loc_locFree': objalignloc.c:196:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objalignloc.c: In function 'AlignLocAsnRead': objalignloc.c:233:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalignloc.c:232:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objalignloc.c: In function 'Loc_locAsnRead': objalignloc.c:313:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objalignloc.c: In function 'AlignIdFree': objalignloc.c:525:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objalignloc.c: In function 'AlignIdAsnRead': objalignloc.c:557:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objalignloc.c: In function 'AlignBoxAsnRead': objalignloc.c:746:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalignloc.c:745:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objalignloc.c: In function 'AlignRowsAsnRead': objalignloc.c:925:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalignloc.c:924:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objalignloc.c: In function 'AlignColumnsAsnRead': objalignloc.c:1086:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalignloc.c:1085:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objalignloc.c: In function 'AlignIdAsnRead': objalignloc.c:613:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objtable.c objtable.c: In function 'SeqTableColumnInfoAsnRead': objtable.c:87:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtable.c:86:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objtable.c: In function 'SeqTableColumnAsnRead': objtable.c:268:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtable.c:267:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objtable.c: In function 'SeqTableColumnAsnWrite': objtable.c:364:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objtable.c: In function 'SeqTableAsnRead': objtable.c:472:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtable.c: In function 'CommonStringTableAsnRead': objtable.c:654:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtable.c: In function 'CommonStringTableAsnWrite': objtable.c:729:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objtable.c: In function 'CommonBytesTableAsnRead': objtable.c:815:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtable.c: In function 'CommonBytesTableAsnWrite': objtable.c:890:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objtable.c: In function 'SeqTableSingleDataFree': objtable.c:1220:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objtable.c: In function 'SeqTableSingleDataAsnRead': objtable.c:1264:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objtable.c: In function 'SeqTableMultiDataAsnRead': objtable.c:1106:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objtable.c: In function 'SeqTableSingleDataAsnRead': objtable.c:1349:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objtable.c: In function 'SeqTableSparseIndexAsnRead': objtable.c:1554:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objpubme.c objpubme.c: In function 'PubmedEntryAsnRead': objpubme.c:89:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objpubme.c: In function 'PubmedUrlAsnRead': objpubme.c:285:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objpubme.c:284:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objmdrs.c objmdrs.c: In function 'MedlarsEntryAsnRead': objmdrs.c:85:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmdrs.c: In function 'MedlarsRecordAsnRead': objmdrs.c:256:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmdrs.c:255:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objproj.c objproj.c: In function 'ProjectAsnRead': objproj.c:116:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objproj.c:115:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objproj.c: In function 'ProjectDescrAsnRead': objproj.c:718:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objproj.c: In function 'ProjdescFree': objproj.c:852:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objproj.c: In function 'ProjdescAsnRead': objproj.c:893:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/mmdbapi.h:92, from ../include/mapproj.h:45, from objproj.c:5: objproj.c: At top level: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/mmdbapi.h:92, from ../include/mapproj.h:45, from objproj.c:5: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from ../include/mmdbapi1.h:234, from ../include/mmdbapi.h:92, from ../include/mapproj.h:45, from objproj.c:5: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from ../include/mmdbapi1.h:234, from ../include/mmdbapi.h:92, from ../include/mapproj.h:45, from objproj.c:5: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ objproj.c: In function 'ProjdescAsnRead': objproj.c:953:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objproj.c: In function 'ProjectItemAsnRead': objproj.c:536:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objgbseq.c objgbseq.c: In function 'GBSetAsnRead': objgbseq.c:68:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBSeqAsnRead': objgbseq.c:229:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBReferenceAsnRead': objgbseq.c:725:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBCommentAsnRead': objgbseq.c:963:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBStrucCommentAsnRead': objgbseq.c:1127:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBFeatureAsnRead': objgbseq.c:1295:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBFeatureSetAsnRead': objgbseq.c:1519:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBAltSeqDataAsnRead': objgbseq.c:1683:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBXrefAsnRead': objgbseq.c:1846:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBCommentParagraphAsnRead': objgbseq.c:2012:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBCommentItemAsnRead': objgbseq.c:2163:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBStrucCommentItemAsnRead': objgbseq.c:2330:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBIntervalAsnRead': objgbseq.c:2506:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBQualifierAsnRead': objgbseq.c:2716:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBAltSeqItemAsnRead': objgbseq.c:2887:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objtseq.c objtseq.c: In function 'TSeqAsnRead': objtseq.c:89:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtseq.c: In function 'TSeqSetAsnRead': objtseq.c:322:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtseq.c: In function 'BioseqToTSeq': objtseq.c:448:8: warning: variable 'seqcode' set but not used [-Wunused-but-set-variable] Uint1 seqcode; ^ objtseq.c: In function 'BioseqToMiniTSeq': objtseq.c:560:8: warning: variable 'seqcode' set but not used [-Wunused-but-set-variable] Uint1 seqcode; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objinsdseq.c objinsdseq.c: In function 'INSDSetAsnRead': objinsdseq.c:68:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDSeqAsnRead': objinsdseq.c:229:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDReferenceAsnRead': objinsdseq.c:725:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDCommentAsnRead': objinsdseq.c:963:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDStrucCommentAsnRead': objinsdseq.c:1127:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDFeatureAsnRead': objinsdseq.c:1295:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDFeatureSetAsnRead': objinsdseq.c:1519:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDAltSeqDataAsnRead': objinsdseq.c:1683:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDXrefAsnRead': objinsdseq.c:1846:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDCommentParagraphAsnRead': objinsdseq.c:2012:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDCommentItemAsnRead': objinsdseq.c:2163:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDStrucCommentItemAsnRead': objinsdseq.c:2330:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDIntervalAsnRead': objinsdseq.c:2506:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDQualifierAsnRead': objinsdseq.c:2716:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDAltSeqItemAsnRead': objinsdseq.c:2887:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objmacro.c objmacro.c: In function 'AECRActionAsnRead': objmacro.c:87:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:86:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ParseActionAsnRead': objmacro.c:269:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:268:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MacroActionListAsnRead': objmacro.c:472:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:469:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'MacroActionListAsnWrite': objmacro.c:525:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'SuspectRuleSetAsnRead': objmacro.c:586:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:583:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'SuspectRuleSetAsnWrite': objmacro.c:639:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'WordSubstitutionAsnRead': objmacro.c:719:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c: In function 'WordSubstitutionSetAsnRead': objmacro.c:884:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:881:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'WordSubstitutionSetAsnWrite': objmacro.c:937:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'StringConstraintAsnRead': objmacro.c:1025:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:1024:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'StringConstraintSetAsnRead': objmacro.c:1266:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:1263:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'StringConstraintSetAsnWrite': objmacro.c:1319:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'LocationPosConstraintFree': objmacro.c:1359:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'LocationPosConstraintAsnRead': objmacro.c:1388:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'LocationConstraintAsnRead': objmacro.c:1587:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:1586:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FeatQualLegalValAsnRead': objmacro.c:1800:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:1799:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FeatQualLegalValChoiceFree': objmacro.c:1927:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'FeatQualLegalValChoiceAsnRead': objmacro.c:1959:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FeatQualLegalSetAsnRead': objmacro.c:2111:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:2108:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'FeatQualLegalSetAsnWrite': objmacro.c:2164:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'FeatQualChoiceFree': objmacro.c:2204:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'FeatQualChoiceAsnRead': objmacro.c:2236:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FeatureFieldAsnRead': objmacro.c:2415:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:2414:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FeatureFieldLegalAsnRead': objmacro.c:2579:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:2578:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FeatureFieldPairAsnRead': objmacro.c:2742:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:2741:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RnaFeatTypeFree': objmacro.c:2882:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'RnaFeatTypeAsnRead': objmacro.c:2914:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RnaQualAsnRead': objmacro.c:3162:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:3161:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RnaQualPairAsnRead': objmacro.c:3327:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:3326:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SourceQualPairAsnRead': objmacro.c:3500:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:3499:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SourceQualChoiceFree': objmacro.c:3625:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'SourceQualChoiceAsnRead': objmacro.c:3654:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SourceQualTextValAsnRead': objmacro.c:3869:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:3868:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SourceQualValChoiceFree': objmacro.c:3996:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'SourceQualValChoiceAsnRead': objmacro.c:4028:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SourceQualValSetAsnRead': objmacro.c:4224:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:4221:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'SourceQualValSetAsnWrite': objmacro.c:4277:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'CDSGeneProtFieldPairAsnRead': objmacro.c:4353:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:4352:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoFieldFree': objmacro.c:4478:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'MolinfoFieldAsnRead': objmacro.c:4507:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoMoleculePairAsnRead': objmacro.c:4732:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:4731:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoTechniquePairAsnRead': objmacro.c:4893:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:4892:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoCompletednessPairAsnRead': objmacro.c:5054:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:5053:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoMolClassPairAsnRead': objmacro.c:5215:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:5214:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoTopologyPairAsnRead': objmacro.c:5376:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:5375:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoStrandPairAsnRead': objmacro.c:5537:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:5536:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoFieldPairFree': objmacro.c:5662:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'MolinfoFieldPairAsnRead': objmacro.c:5709:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoFieldListAsnRead': objmacro.c:5901:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:5898:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'MolinfoFieldListAsnWrite': objmacro.c:5954:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'MolinfoFieldConstraintAsnRead': objmacro.c:6032:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:6031:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'StructuredCommentFieldFree': objmacro.c:6160:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'StructuredCommentFieldAsnRead': objmacro.c:6192:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'StructuredCommentFieldPairAsnRead': objmacro.c:6386:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:6385:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'StructuredCommentFieldPairAsnWrite': objmacro.c:6461:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'DBLinkFieldPairAsnRead': objmacro.c:6553:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:6552:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'PubFieldConstraintAsnRead': objmacro.c:6715:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:6714:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'PubFieldSpecialConstraintTypeFree': objmacro.c:6843:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'PubFieldSpecialConstraintTypeAsnRead': objmacro.c:6872:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'PubFieldSpecialConstraintAsnRead': objmacro.c:7087:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:7086:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'PublicationConstraintAsnRead': objmacro.c:7253:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:7252:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SourceConstraintAsnRead': objmacro.c:7432:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:7431:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'CDSGeneProtPseudoConstraintAsnRead': objmacro.c:7621:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:7620:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'CDSGeneProtConstraintFieldFree': objmacro.c:7746:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'CDSGeneProtConstraintFieldAsnRead': objmacro.c:7775:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'CDSGeneProtQualConstraintAsnRead': objmacro.c:7948:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:7947:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'CDSGeneProtQualConstraintAsnWrite': objmacro.c:8030:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'FieldConstraintAsnRead': objmacro.c:8129:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:8128:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FieldConstraintAsnWrite': objmacro.c:8204:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'FieldTypeFree': objmacro.c:8260:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'FieldTypeAsnRead': objmacro.c:8304:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SequenceConstraintMolTypeConstraintFree': objmacro.c:8511:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'SequenceConstraintMolTypeConstraintAsnRead': objmacro.c:8540:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'QuantityConstraintFree': objmacro.c:8718:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'QuantityConstraintAsnRead': objmacro.c:8747:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SequenceConstraintAsnRead': objmacro.c:8945:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:8944:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'TranslationConstraintAsnRead': objmacro.c:9170:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:9169:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ConstraintChoiceFree': objmacro.c:9322:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'ConstraintChoiceAsnRead': objmacro.c:9384:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ConstraintChoiceSetAsnRead': objmacro.c:9616:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:9613:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'ConstraintChoiceSetAsnWrite': objmacro.c:9669:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'TextMarkerFree': objmacro.c:9709:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'TextMarkerAsnRead': objmacro.c:9741:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'TextPortionAsnRead': objmacro.c:9937:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:9936:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FieldEditAsnRead': objmacro.c:10153:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:10152:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FieldPairTypeFree': objmacro.c:10300:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'FieldPairTypeAsnRead': objmacro.c:10350:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ApplyActionAsnRead': objmacro.c:10567:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:10566:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'EditActionAsnRead': objmacro.c:10744:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:10743:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'EditActionAsnWrite': objmacro.c:10819:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'TextTransformFree': objmacro.c:10875:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'TextTransformAsnRead': objmacro.c:10910:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'TextTransformSetAsnRead': objmacro.c:11081:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:11078:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'TextTransformSetAsnWrite': objmacro.c:11134:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'ConvertActionAsnRead': objmacro.c:11214:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:11213:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'CopyActionAsnRead': objmacro.c:11406:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:11405:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SwapActionAsnRead': objmacro.c:11572:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:11571:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SwapActionAsnWrite': objmacro.c:11647:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'AECRParseActionAsnRead': objmacro.c:11745:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:11744:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RemoveActionAsnRead': objmacro.c:11961:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:11960:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RemoveActionAsnWrite': objmacro.c:12029:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'RemoveOutsideActionAsnRead': objmacro.c:12119:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:12118:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ActionChoiceFree': objmacro.c:12259:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'ActionChoiceAsnRead': objmacro.c:12312:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ParseSrcOrgChoiceFree': objmacro.c:12499:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'ParseSrcOrgChoiceAsnRead': objmacro.c:12528:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ParseSrcOrgAsnRead': objmacro.c:12711:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:12710:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ParseSrcGeneralIdFree': objmacro.c:12839:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'ParseSrcGeneralIdAsnRead': objmacro.c:12871:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ParseSrcFree': objmacro.c:13027:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'ParseSrcAsnRead': objmacro.c:13065:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ParseDstOrgAsnRead': objmacro.c:13319:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:13318:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ParseDestFree': objmacro.c:13447:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'ParseDestAsnRead': objmacro.c:13485:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'LocationIntervalAsnRead': objmacro.c:13693:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:13692:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'LocationChoiceFree': objmacro.c:13818:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'LocationChoiceAsnRead': objmacro.c:13850:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SequenceListAsnRead': objmacro.c:14024:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:14021:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'SequenceListAsnWrite': objmacro.c:14077:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'SequenceListChoiceFree': objmacro.c:14117:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'SequenceListChoiceAsnRead': objmacro.c:14149:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ApplyFeatureActionAsnRead': objmacro.c:14338:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:14337:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RemoveFeatureActionAsnRead': objmacro.c:14602:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:14601:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ConvertFromCDSOptionsAsnRead': objmacro.c:14766:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:14765:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ConvertFeatureSrcOptionsFree': objmacro.c:14900:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'ConvertFeatureSrcOptionsAsnRead': objmacro.c:14932:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RegionTypeAsnRead': objmacro.c:15099:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:15098:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ConvertFeatureDstOptionsFree': objmacro.c:15215:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'ConvertFeatureDstOptionsAsnRead': objmacro.c:15250:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ConvertFeatureActionAsnRead': objmacro.c:15464:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:15463:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'EditLocationStrandAsnRead': objmacro.c:15670:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:15669:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'Partial5SetActionAsnRead': objmacro.c:15831:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:15830:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'Partial3SetActionAsnRead': objmacro.c:15992:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:15991:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'PartialBothSetActionAsnRead': objmacro.c:16153:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:16152:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ExtendToFeatureAsnRead': objmacro.c:16315:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:16314:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'LocationEditTypeFree': objmacro.c:16452:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'LocationEditTypeAsnRead': objmacro.c:16499:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'EditFeatureLocationActionAsnRead': objmacro.c:16774:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:16773:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoBlockAsnRead': objmacro.c:16971:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:16970:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoBlockAsnWrite': objmacro.c:17053:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'RemoveDescriptorActionAsnRead': objmacro.c:17151:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:17150:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'AutodefActionAsnRead': objmacro.c:17317:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c: In function 'FixPubCapsActionAsnRead': objmacro.c:17488:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:17487:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SortFieldsActionAsnRead': objmacro.c:17690:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:17689:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FixAuthorCapsAsnRead': objmacro.c:17866:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:17865:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FixCapsActionFree': objmacro.c:17982:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'FixCapsActionAsnRead': objmacro.c:18017:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FixFormatActionFree': objmacro.c:18189:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'FixFormatActionAsnRead': objmacro.c:18218:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RemoveDuplicateFeatureActionAsnRead': objmacro.c:18422:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:18421:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'GeneXrefTypeAsnRead': objmacro.c:18613:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:18612:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'XrefTypeFree': objmacro.c:18747:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'XrefTypeAsnRead': objmacro.c:18779:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RemoveXrefsActionAsnRead': objmacro.c:18948:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:18947:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RemoveXrefsActionAsnWrite': objmacro.c:19023:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'MakeGeneXrefActionAsnRead': objmacro.c:19116:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:19115:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'AuthorFixActionAsnRead': objmacro.c:19281:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:19280:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'UpdateSequencesActionAsnRead': objmacro.c:19447:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:19446:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'CreateTSAIdsSrcFree': objmacro.c:19574:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'CreateTSAIdsSrcAsnRead': objmacro.c:19606:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'CreateTSAIdsActionAsnRead': objmacro.c:19787:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:19786:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'AutofixActionAsnRead': objmacro.c:19966:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:19965:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FixSetsActionFree': objmacro.c:20084:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'FixSetsActionAsnRead': objmacro.c:20113:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'TableMatchTypeFree': objmacro.c:20269:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'TableMatchTypeAsnRead': objmacro.c:20301:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'TableMatchAsnRead': objmacro.c:20547:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:20546:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ApplyTableExtraDataFree': objmacro.c:20675:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'ApplyTableExtraDataAsnRead': objmacro.c:20704:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ApplyTableActionAsnRead': objmacro.c:20877:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:20876:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'AddFileActionAsnRead': objmacro.c:21057:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:21056:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'AddDescriptorListActionAsnRead': objmacro.c:21225:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:21224:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'AddDescriptorListActionAsnWrite': objmacro.c:21300:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'RemoveSequencesActionAsnRead': objmacro.c:21393:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:21392:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RemoveSequencesActionAsnWrite': objmacro.c:21461:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'MacroActionChoiceFree': objmacro.c:21512:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'MacroActionChoiceAsnRead': objmacro.c:21613:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SearchFuncFree': objmacro.c:22093:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'SearchFuncAsnRead': objmacro.c:22131:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SimpleReplaceAsnRead': objmacro.c:22400:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:22399:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ReplaceFuncFree': objmacro.c:22536:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'ReplaceFuncAsnRead': objmacro.c:22571:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ReplaceRuleAsnRead': objmacro.c:22751:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:22750:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SuspectRuleAsnRead': objmacro.c:22921:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:22920:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SourceQualChoiceAsnRead': objmacro.c:3727:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'SourceQualValChoiceAsnRead': objmacro.c:4098:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'MolinfoFieldAsnRead': objmacro.c:4587:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'MolinfoFieldPairAsnRead': objmacro.c:5771:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'StructuredCommentFieldAsnRead': objmacro.c:6251:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'FieldTypeAsnRead': objmacro.c:8390:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'ConstraintChoiceAsnRead': objmacro.c:9466:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'ParseSrcGeneralIdAsnRead': objmacro.c:12930:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'FixCapsActionAsnRead': objmacro.c:18084:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'FixFormatActionAsnRead': objmacro.c:18284:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'FixSetsActionAsnRead': objmacro.c:20172:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'MacroActionChoiceAsnRead': objmacro.c:21852:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'LocationPosConstraintAsnRead': objmacro.c:1447:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'RnaFeatTypeAsnRead': objmacro.c:3008:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'PubFieldSpecialConstraintTypeAsnRead': objmacro.c:6945:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'SequenceConstraintMolTypeConstraintAsnRead': objmacro.c:8613:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'QuantityConstraintAsnRead': objmacro.c:8806:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'TextMarkerAsnRead': objmacro.c:9800:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'FieldPairTypeAsnRead': objmacro.c:10416:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'ActionChoiceAsnRead': objmacro.c:12382:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'ParseSrcOrgChoiceAsnRead': objmacro.c:12580:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'ParseSrcAsnRead': objmacro.c:13160:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'ParseDestAsnRead': objmacro.c:13552:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'LocationChoiceAsnRead': objmacro.c:13906:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'ConvertFeatureDstOptionsAsnRead': objmacro.c:15320:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'LocationEditTypeAsnRead': objmacro.c:16603:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'TableMatchTypeAsnRead': objmacro.c:20392:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'SearchFuncAsnRead': objmacro.c:22236:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objent2.c objent2.c: In function 'Entrez2IdListAsnRead': objent2.c:87:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:86:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2BooleanExpAsnRead': objent2.c:276:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c: In function 'Entrez2BooleanElementFree': objent2.c:414:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objent2.c: In function 'Entrez2BooleanElementAsnRead': objent2.c:455:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2LimitsAsnRead': objent2.c:664:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:663:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2BooleanTermAsnRead': objent2.c:841:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:840:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2RequestAsnRead': objent2.c:1037:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:1036:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'E2RequestFree': objent2.c:1198:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objent2.c: In function 'E2RequestAsnRead': objent2.c:1251:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2EvalBooleanAsnRead': objent2.c:1488:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:1487:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2TermQueryAsnRead': objent2.c:1664:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:1663:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2TermPosAsnRead': objent2.c:1842:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:1841:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2HierQueryAsnRead': objent2.c:2028:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:2027:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2GetLinksAsnRead': objent2.c:2215:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:2214:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2IdAsnRead': objent2.c:2409:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:2408:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2DtFilterAsnRead': objent2.c:2573:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:2572:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2ReplyAsnRead': objent2.c:2750:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:2749:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'E2ReplyFree': objent2.c:2922:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objent2.c: In function 'E2ReplyAsnRead': objent2.c:2978:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2InfoAsnRead': objent2.c:3224:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c: In function 'Entrez2BooleanReplyAsnRead': objent2.c:3395:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:3394:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2DocsumListAsnRead': objent2.c:3572:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c: In function 'Entrez2TermListAsnRead': objent2.c:3733:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c: In function 'Entrez2HierNodeAsnRead': objent2.c:3905:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c: In function 'Entrez2LinkSetAsnRead': objent2.c:4104:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:4103:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2LinkCountListAsnRead': objent2.c:4280:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c: In function 'Entrez2DbInfoAsnRead': objent2.c:4446:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c: In function 'Entrez2FieldInfoAsnRead': objent2.c:4685:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:4684:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2LinkInfoAsnRead': objent2.c:4928:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:4927:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2DocsumFieldInfoAsnRead': objent2.c:5126:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:5125:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2DocsumAsnRead': objent2.c:5301:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c: In function 'Entrez2DocsumDataAsnRead': objent2.c:5463:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:5462:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2TermAsnRead': objent2.c:5629:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:5628:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2LinkCountAsnRead': objent2.c:5811:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:5810:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2BooleanElementAsnRead': objent2.c:522:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objent2.c: In function 'E2ReplyAsnRead': objent2.c:3062:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ent2api.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF pmfapi.c pmfapi.c: In function 'PubMedSynchronousQuery': pmfapi.c:1224:58: warning: 'starttime' may be used uninitialized in this function [-Wmaybe-uninitialized] printf ("PubMedWaitForReply %ld\n", (long) (stoptime - starttime)); ^ pmfapi.c: In function 'PubSeqSynchronousQueryEx': pmfapi.c:1458:58: warning: 'starttime' may be used uninitialized in this function [-Wmaybe-uninitialized] printf ("PubSeqWaitForReply %ld\n", (long) (stoptime - starttime)); ^ pmfapi.c: In function 'PubSeqSynchronousQueryTI': pmfapi.c:1636:58: warning: 'starttime' may be used uninitialized in this function [-Wmaybe-uninitialized] printf ("PubSeqWaitForReply %ld\n", (long) (stoptime - starttime)); ^ pmfapi.c: In function 'PubSeqSynchronousQuerySRA': pmfapi.c:1717:58: warning: 'starttime' may be used uninitialized in this function [-Wmaybe-uninitialized] printf ("PubSeqWaitForReply %ld\n", (long) (stoptime - starttime)); ^ pmfapi.c: In function 'GiRevHistSynchronousQuery': pmfapi.c:1790:61: warning: 'starttime' may be used uninitialized in this function [-Wmaybe-uninitialized] printf ("GiRevHistWaitForReply %ld\n", (long) (stoptime - starttime)); ^ pmfapi.c: In function 'GiAccVerSynchronousQuery': pmfapi.c:1842:60: warning: 'starttime' may be used uninitialized in this function [-Wmaybe-uninitialized] printf ("GiAccVerWaitForReply %ld\n", (long) (stoptime - starttime)); ^ pmfapi.c: In function 'AccnRevHistSynchronousQuery': pmfapi.c:1893:63: warning: 'starttime' may be used uninitialized in this function [-Wmaybe-uninitialized] printf ("AccnRevHistWaitForReply %ld\n", (long) (stoptime - starttime)); ^ pmfapi.c: In function 'GiSeqIdSetSynchronousQuery': pmfapi.c:1944:62: warning: 'starttime' may be used uninitialized in this function [-Wmaybe-uninitialized] printf ("GiSeqIdSetWaitForReply %ld\n", (long) (stoptime - starttime)); ^ pmfapi.c: In function 'AccnListSynchronousQuery': pmfapi.c:1994:60: warning: 'starttime' may be used uninitialized in this function [-Wmaybe-uninitialized] printf ("AccnListWaitForReply %ld\n", (long) (stoptime - starttime)); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objtax3.c objtax3.c: In function 'Taxon3RequestAsnRead': objtax3.c:86:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax3.c: In function 'T3RequestFree': objtax3.c:200:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objtax3.c: In function 'SequenceOfIntAsnRead': objtax3.c:418:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax3.c: In function 'Taxon3ReplyAsnRead': objtax3.c:547:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax3.c: In function 'T3ReplyFree': objtax3.c:661:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objtax3.c: In function 'T3ErrorAsnRead': objtax3.c:872:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax3.c: In function 'T3DataAsnRead': objtax3.c:1071:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax3.c: In function 'Value_valueFree': objtax3.c:1252:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objtax3.c: In function 'T3StatusFlagsAsnRead': objtax3.c:1282:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax3.c: In function 'T3RefreshFlagsAsnRead': objtax3.c:1606:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ In file included from ../include/strimprt.h:72:0, from objtax3.c:5: objtax3.c: At top level: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from objtax3.c:5: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from objtax3.c:5: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from objtax3.c:5: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ objtax3.c: In function 'T3RequestAsnRead': objtax3.c:297:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objtax3.c: In function 'T3ReplyAsnRead': objtax3.c:741:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objtax3.c: In function 'T3StatusFlagsAsnRead': objtax3.c:1420:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objtax3.c:1361:10: note: 'choice' was declared here Uint1 choice; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF tax3api.c tax3api.c: In function 'Tax3SynchronousQuery': tax3api.c:188:27: warning: variable 't3' set but not used [-Wunused-but-set-variable] time_t t1, t2, t3; ^ tax3api.c: In function 'CheckSuggestedFixes': tax3api.c:753:20: warning: variable 'tep' set but not used [-Wunused-but-set-variable] T3ErrorPtr tep; ^ tax3api.c: In function 'TryNewSuggestedFixes': tax3api.c:865:20: warning: variable 'tep' set but not used [-Wunused-but-set-variable] T3ErrorPtr tep; ^ tax3api.c: In function 'GetSuggestedNamesFromRank': tax3api.c:1114:20: warning: variable 'tep' set but not used [-Wunused-but-set-variable] T3ErrorPtr tep; ^ tax3api.c: In function 'BioSourceFromBioSample': tax3api.c:3220:16: warning: unused variable 'max' [-Wunused-variable] time_t max = 0; ^ tax3api.c: At top level: tax3api.c:297:13: warning: 'SaveTaxon3Request' defined but not used [-Wunused-function] static void SaveTaxon3Request (Taxon3RequestPtr t3rp, CharPtr path) ^ tax3api.c:361:16: warning: 'HasMisspellingFlag' defined but not used [-Wunused-function] static Boolean HasMisspellingFlag (T3DataPtr t) ^ tax3api.c:616:28: warning: 'TaxFixItemOrigIsOk' defined but not used [-Wunused-function] static Boolean LIBCALLBACK TaxFixItemOrigIsOk (ValNodePtr vnp) ^ tax3api.c:1886:16: warning: 'EndsWithSp' defined but not used [-Wunused-function] static Boolean EndsWithSp (CharPtr str) ^ tax3api.c:2345:16: warning: 'StringIsExactMatchForOrgRef' defined but not used [-Wunused-function] static Boolean StringIsExactMatchForOrgRef (CharPtr str, OrgRefPtr org) ^ tax3api.c:3003:13: warning: 'AddBioSourcesToChecklist' defined but not used [-Wunused-function] static void AddBioSourcesToChecklist (ValNodePtr biop_list, ValNodePtr check_list) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objegkludge.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objentgene.c objentgene.c: In function 'EntrezgeneAsnRead': objentgene.c:103:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objentgene.c: In function 'EntrezgeneSetAsnRead': objentgene.c:411:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objentgene.c:408:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objentgene.c: In function 'EntrezgeneSetAsnWrite': objentgene.c:464:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objentgene.c: In function 'GeneTrackAsnRead': objentgene.c:545:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objentgene.c: In function 'GeneCommentaryAsnRead': objentgene.c:764:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objentgene.c: In function 'Method_methodFree': objentgene.c:1056:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objentgene.c: In function 'MapsAsnRead': objentgene.c:1087:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objentgene.c:1086:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objentgene.c: In function 'Method_methodAsnRead': objentgene.c:1167:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objentgene.c: In function 'GeneSourceAsnRead': objentgene.c:1408:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objentgene.c:1407:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objentgene.c: In function 'XtraTermsAsnRead': objentgene.c:1622:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objentgene.c:1621:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objentgene.c: In function 'OtherSourceAsnRead': objentgene.c:1792:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objentgene.c:1791:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objentgene.c: In function 'MapsAsnRead': objentgene.c:1219:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objentgene.c:1166:10: note: 'choice' was declared here Uint1 choice; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objmla2.c objmla2.c: In function 'Mla2RequestFree': objmla2.c:49:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmla2.c: In function 'Mla22RequestAsnRead': objmla2.c:96:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmla2.c: In function 'TitleMsg2AsnRead': objmla2.c:447:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmla2.c:446:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmla2.c: In function 'TitleMsgList2AsnRead': objmla2.c:612:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmla2.c: In function 'Mla22RequestAsnRead': objmla2.c:249:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmla2.c: In function 'Mla2BackAsnRead': objmla2.c:902:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF mla2api.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF qblastapi.c qblastapi.c: In function 'SecondQBlastCallback': qblastapi.c:259:15: warning: variable 'waiting' set but not used [-Wunused-but-set-variable] Boolean waiting = FALSE; ^ qblastapi.c: In function 'BLASTGetSeqAnnotByRIDEx': qblastapi.c:823:18: warning: variable 'status' set but not used [-Wunused-but-set-variable] EIO_Status status; ^ qblastapi.c: In function 'BLASTGetQueryBioseqByRIDEx': qblastapi.c:868:18: warning: variable 'status' set but not used [-Wunused-but-set-variable] EIO_Status status; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF vecscnapi.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objmim.c objmim.c: In function 'MimSetAsnRead': objmim.c:86:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c: In function 'MimDateAsnRead': objmim.c:248:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c:247:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmim.c: In function 'MimEntryAsnRead': objmim.c:447:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c: In function 'MimCitAsnRead': objmim.c:907:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c:906:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmim.c: In function 'MimTextAsnRead': objmim.c:1093:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c:1092:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmim.c: In function 'MimEditItemAsnRead': objmim.c:1272:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c:1271:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmim.c: In function 'MimAllelicVariantAsnRead': objmim.c:1443:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c: In function 'MimIndexTermAsnRead': objmim.c:1634:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c: In function 'MimReferenceAsnRead': objmim.c:1812:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c: In function 'MimLinkAsnRead': objmim.c:2187:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c:2186:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmim.c: In function 'MimAuthorAsnRead': objmim.c:2360:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c:2359:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmim.c: In function 'MimPageAsnRead': objmim.c:2525:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c:2524:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objvalid.c objvalid.c: In function 'FieldRuleAsnRead': objvalid.c:88:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objvalid.c:87:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objvalid.c: In function 'FieldSetAsnRead': objvalid.c:256:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objvalid.c:253:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objvalid.c: In function 'FieldSetAsnWrite': objvalid.c:309:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objvalid.c: In function 'DependentFieldRuleAsnRead': objvalid.c:390:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objvalid.c:389:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objvalid.c: In function 'DependentFieldSetAsnRead': objvalid.c:573:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objvalid.c:570:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objvalid.c: In function 'DependentFieldSetAsnWrite': objvalid.c:626:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objvalid.c: In function 'CommentRuleAsnRead': objvalid.c:708:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objvalid.c:707:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objvalid.c: In function 'CommentSetAsnRead': objvalid.c:898:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objvalid.c:895:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objvalid.c: In function 'CommentSetAsnWrite': objvalid.c:951:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF mimapi.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF cddapi.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF seqport.c seqport.c: In function 'productLoc_to_locationLoc': seqport.c:4153:13: warning: variable 'is_cdregion' set but not used [-Wunused-but-set-variable] Boolean is_cdregion = FALSE; ^ seqport.c: In function 'NaLocFromNaInterval': seqport.c:4483:8: warning: variable 'p_end_pos' set but not used [-Wunused-but-set-variable] Int4 p_end_pos; /*the end of the product sequence in the current loc*/ ^ seqport.c: In function 'dnaLoc_to_aaLoc': seqport.c:4599:18: warning: variable 'cds_right' set but not used [-Wunused-but-set-variable] Int4 cds_left, cds_right; ^ seqport.c:4599:8: warning: variable 'cds_left' set but not used [-Wunused-but-set-variable] Int4 cds_left, cds_right; ^ seqport.c: In function 'DeltaRevComp': seqport.c:5281:21: warning: variable 'dspnext' set but not used [-Wunused-but-set-variable] DeltaSeqPtr dsp, dspnext; ^ seqport.c: In function 'SeqSearchEnterNucWord': seqport.c:6822:18: warning: variable 'patLen' set but not used [-Wunused-but-set-variable] Int2 next, patLen, state; ^ seqport.c: In function 'ProtSearchEnterProtWord': seqport.c:7696:18: warning: variable 'patLen' set but not used [-Wunused-but-set-variable] Int2 next, patLen, state; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from seqport.c:62: seqport.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF sequtil.c sequtil.c: In function 'GetPointsForLeftAndRightOffsets': sequtil.c:7959:11: warning: variable 'first_strand' set but not used [-Wunused-but-set-variable] Uint1 first_strand, last_strand; ^ sequtil.c: In function 'SeqPointWriteEx': sequtil.c:8492:15: warning: variable 'fuzzlen' set but not used [-Wunused-but-set-variable] Int4 fuzzlen, id_len; ^ sequtil.c: In function 'TaxNameFromCommon': sequtil.c:8647:42: warning: missing braces around initializer [-Wmissing-braces] static Nlm_TaxCommon taxcommon[40] = { ^ sequtil.c:8647:42: note: (near initialization for 'taxcommon') sequtil.c: In function 'GetBestScoreAndEvalueFromScorePtr': sequtil.c:9470:48: warning: variable 'sum_set' set but not used [-Wunused-but-set-variable] Boolean score_set=FALSE, evalue_set=FALSE, sum_set=FALSE, bit_set=FALSE; ^ sequtil.c: In function 'SeqIdFromAccessionEx': sequtil.c:10070:38: warning: variable 'sip2' set but not used [-Wunused-but-set-variable] SeqIdPtr sip2; ^ sequtil.c: In function 'SeqLocCoverage': sequtil.c:6905:13: warning: 'sip' may be used uninitialized in this function [-Wmaybe-uninitialized] if (SeqIdComp (sip, id_list[j]) == SIC_YES) { ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF prtutil.c prtutil.c: In function 'StdFormatPrint': prtutil.c:1422:10: warning: unused variable 'ptr' [-Wunused-variable] CharPtr ptr = NULL; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF simple.c In file included from simple.c:69:0: ../include/all.h:7192:0: warning: "RNA_QUAL" redefined #define RNA_QUAL &at[2231] ^ ../include/all.h:5745:0: note: this is the location of the previous definition #define RNA_QUAL &at[1023] ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF tofasta.c tofasta.c: In function 'DoSpecialDefline': tofasta.c:1407:22: warning: variable 'gene' set but not used [-Wunused-but-set-variable] SeqFeatPtr gene = NULL; ^ tofasta.c: At top level: tofasta.c:3072:16: warning: 'get_descr_on_top' defined but not used [-Wunused-function] static Boolean get_descr_on_top (GatherContextPtr gcp) ^ tofasta.c:3101:16: warning: 'get_descr' defined but not used [-Wunused-function] static Boolean get_descr (GatherContextPtr gcp) ^ tofasta.c:3196:19: warning: 'IndexedGatherDescrOnBioseq' defined but not used [-Wunused-function] static ValNodePtr IndexedGatherDescrOnBioseq (ItemInfoPtr iip, BioseqPtr bsp, Uint1 choice) ^ tofasta.c:3359:19: warning: 'GetCDSProtUnindexed' defined but not used [-Wunused-function] static SeqFeatPtr GetCDSProtUnindexed ( ^ tofasta.c:3445:19: warning: 'GatherSeqFeatProt' defined but not used [-Wunused-function] static SeqFeatPtr GatherSeqFeatProt(BioseqPtr bsp) ^ tofasta.c:3479:19: warning: 'GatherGenesForCDS' defined but not used [-Wunused-function] static ValNodePtr GatherGenesForCDS(SeqLocPtr slp) ^ tofasta.c: In function 'FastaToSeqEntryInternalExEx': tofasta.c:2736:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(buffer+1, BuffSize, fd); ^ tofasta.c:2761:13: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(buffer+i+1, FTSE_BUFF_CHUNK, fd); ^ tofasta.c: In function 'FastaReadSequenceInternalEx': tofasta.c:2611:27: warning: 'mask_to' may be used uninitialized in this function [-Wmaybe-uninitialized] mask_sint->to = mask_to; ^ tofasta.c: In function 'FastaToSeqEntryInternalExEx': tofasta.c:2852:13: warning: 'fd' may be used uninitialized in this function [-Wmaybe-uninitialized] ungetc(ch, fd); ^ tofasta.c:2672:25: warning: 'firstchar' may be used uninitialized in this function [-Wmaybe-uninitialized] const Char PNTR firstchar; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF tofile.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF tomedlin.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF valid.c valid.c: In function 'Valid1GatherProc': valid.c:2238:22: warning: variable 'sc_valid' set but not used [-Wunused-but-set-variable] EFieldValid sc_valid; ^ valid.c: In function 'ValidateSeqIdCase': valid.c:3342:21: warning: variable 'gcp' set but not used [-Wunused-but-set-variable] GatherContextPtr gcp; ^ valid.c: In function 'ValidateGenProdSet': valid.c:5551:19: warning: variable 'grp' set but not used [-Wunused-but-set-variable] GeneRefPtr grp; ^ valid.c: In function 'CountAdjacentProc': valid.c:6193:21: warning: variable 'gcp' set but not used [-Wunused-but-set-variable] GatherContextPtr gcp; ^ valid.c: In function 'ValidateBioseqInst': valid.c:6584:19: warning: variable 'tech' set but not used [-Wunused-but-set-variable] Uint1 tech; ^ valid.c:6526:19: warning: variable 'prot' set but not used [-Wunused-but-set-variable] SeqFeatPtr prot; ^ valid.c: In function 'ValidateBioSource': valid.c:13688:19: warning: variable 'id' set but not used [-Wunused-but-set-variable] Int4 id; ^ valid.c: In function 'ValidateDblink': valid.c:14737:21: warning: variable 'gcp' set but not used [-Wunused-but-set-variable] GatherContextPtr gcp; ^ valid.c: In function 'ValidateSeqDescrCommon': valid.c:14795:19: warning: variable 'pdp' set but not used [-Wunused-but-set-variable] PubdescPtr pdp; ^ valid.c: In function 'ValidateBioseqContextIndexed': valid.c:17742:38: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if (bvsp->is_mrna || cdscount == 1 && genecount < 2) { ^ valid.c:17154:41: warning: variable 'utr3gene' set but not used [-Wunused-but-set-variable] SeqFeatPtr cdsgene, utr5gene, utr3gene; ^ valid.c: In function 'ValidateBarcodeIndexNumber': valid.c:18667:21: warning: variable 'bin_len' set but not used [-Wunused-but-set-variable] Int4 bin_len; ^ valid.c: In function 'ValidateBioseqContext': valid.c:18775:19: warning: variable 'taxname' set but not used [-Wunused-but-set-variable] CharPtr taxname = NULL; ^ valid.c: In function 'ValidateRptUnit': valid.c:20323:32: warning: variable 'found' set but not used [-Wunused-but-set-variable] Boolean badchars, found, just_nuc_letters, multi_rpt_unit; ^ valid.c: In function 'CheckForCommonCDSProduct': valid.c:22238:19: warning: variable 'is_nw' set but not used [-Wunused-but-set-variable] Boolean is_nw = FALSE; ^ valid.c:22235:19: warning: variable 'is_nc' set but not used [-Wunused-but-set-variable] Boolean is_nc = FALSE; ^ valid.c: In function 'CheckForIllegalDbxref': valid.c:22617:16: warning: variable 'id' set but not used [-Wunused-but-set-variable] Int4 id; ^ valid.c: In function 'ValidateAnticodon': valid.c:23348:53: warning: variable 'circular' set but not used [-Wunused-but-set-variable] ordered = TRUE, adjacent = FALSE, circular = FALSE, exception = FALSE; ^ valid.c:23347:19: warning: variable 'retval' set but not used [-Wunused-but-set-variable] Boolean retval = TRUE, tmpval, mixed_strand = FALSE, unmarked_strand = FALSE, ^ valid.c: In function 'IsGeneXrefRedundant': valid.c:24599:17: warning: variable 'count' set but not used [-Wunused-but-set-variable] Int2 count; ^ valid.c: In function 'ValidateSeqFeat': valid.c:24763:19: warning: variable 'count' set but not used [-Wunused-but-set-variable] Int2 count; ^ valid.c:24741:19: warning: variable 'pdp' set but not used [-Wunused-but-set-variable] PubdescPtr pdp; ^ valid.c: In function 'CdTransCheck': valid.c:26675:19: warning: variable 'grp' set but not used [-Wunused-but-set-variable] GeneRefPtr grp; ^ valid.c: In function 'SpliceCheckEx': valid.c:27477:19: warning: variable 'sep' set but not used [-Wunused-but-set-variable] SeqEntryPtr sep; ^ valid.c: In function 'CdsProductIdCheck': valid.c:27823:15: warning: variable 'grp' set but not used [-Wunused-but-set-variable] GeneRefPtr grp; ^ valid.c: In function 'ValidateSeqLoc': valid.c:27887:19: warning: variable 'retval' set but not used [-Wunused-but-set-variable] Boolean retval = TRUE, tmpval, mixed_strand = FALSE, unmarked_strand = FALSE, ^ valid.c:27886:24: warning: variable 'prev' set but not used [-Wunused-but-set-variable] SeqLocPtr tmp, prev; ^ valid.c: At top level: valid.c:1415:16: warning: 'IsNotUnclassifiedExcept' defined but not used [-Wunused-function] static Boolean IsNotUnclassifiedExcept (ValidStructPtr vsp) ^ valid.c:4089:13: warning: 'FindLongIdsThatCollideWhenTruncated' defined but not used [-Wunused-function] static void FindLongIdsThatCollideWhenTruncated (SeqEntryPtr sep, ValidStructPtr vsp, Int4 trunc_len) ^ valid.c:5438:13: warning: 'CheckMutSetSources' defined but not used [-Wunused-function] static void CheckMutSetSources (BioSourcePtr biop, Pointer userdata) ^ valid.c:6450:13: warning: 'ReportLongSeqId' defined but not used [-Wunused-function] static void ReportLongSeqId (SeqIdPtr sip, ValidStructPtr vsp, Int4 max_len) ^ valid.c:9394:16: warning: 'ConsistentWithC' defined but not used [-Wunused-function] static Boolean ConsistentWithC (Char ch) ^ valid.c:12157:16: warning: 'LatLonIsValid' defined but not used [-Wunused-function] static Boolean LatLonIsValid (CharPtr name) ^ valid.c:12959:16: warning: 'LatLonInRange' defined but not used [-Wunused-function] static Boolean LatLonInRange ( ^ valid.c:13056:16: warning: 'CountryIsClosestToLatLon' defined but not used [-Wunused-function] static Boolean CountryIsClosestToLatLon ( ^ valid.c:18292:19: warning: 'ListFeaturesContainedInLocation' defined but not used [-Wunused-function] static ValNodePtr ListFeaturesContainedInLocation (BioseqPtr bsp, SeqLocPtr slp, Uint1 seqfeatChoice, Uint1 featdefChoice) ^ valid.c:18342:28: warning: 'MultiGeneOverlapFree' defined but not used [-Wunused-function] static MultiGeneOverlapPtr MultiGeneOverlapFree (MultiGeneOverlapPtr m) ^ valid.c:24281:16: warning: 'CouldExtendPartial' defined but not used [-Wunused-function] static Boolean CouldExtendPartial (SeqLocPtr slp, Boolean partial5) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF valapi.c valapi.c: In function 'DoesStringMatchExpression': valapi.c:253:15: warning: variable 'errstr' set but not used [-Wunused-but-set-variable] const char *errstr; ^ valapi.c: In function 'ReorderStructuredCommentFields': valapi.c:777:82: warning: unused variable 'ufp_last' [-Wunused-variable] UserFieldPtr ufp, ufp_prev = NULL, new_list = NULL, new_prev = NULL, ufp_next, ufp_last = NULL; ^ valapi.c:777:72: warning: unused variable 'ufp_next' [-Wunused-variable] UserFieldPtr ufp, ufp_prev = NULL, new_list = NULL, new_prev = NULL, ufp_next, ufp_last = NULL; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF alignmgr.c alignmgr.c: In function 'AlnMgrIndexParentSA': alignmgr.c:1607:19: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] sap->saip = (Pointer)AMAlignIndexFree(amaip); ^ alignmgr.c: In function 'AlnMgrGetNthBlockRange': alignmgr.c:4182:21: warning: variable 'amaip' set but not used [-Wunused-but-set-variable] AMAlignIndexPtr amaip; ^ alignmgr.c: In function 'AlnMgrMakeFakeMultipleEx': alignmgr.c:5157:21: warning: variable 'nogap' set but not used [-Wunused-but-set-variable] Boolean nogap; ^ alignmgr.c: In function 'AlnMgrMapBioseqToBioseq': alignmgr.c:10840:19: warning: variable 'gap' set but not used [-Wunused-but-set-variable] Uint1 gap; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from alignmgr.c:584: alignmgr.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ alignmgr.c:5405:13: warning: 'AlnMgrMergeNeighbors' defined but not used [-Wunused-function] static void AlnMgrMergeNeighbors(SeqAlignPtr salp) ^ alignmgr.c:10572:16: warning: 'am_merge_after_edit' defined but not used [-Wunused-function] static Boolean am_merge_after_edit (SeqAlignPtr sap) ^ alignmgr.c:6123:18: warning: 'AlnMgrConstructOverlaps' defined but not used [-Wunused-function] static AMmsmsPtr AlnMgrConstructOverlaps(AMmsmsPtr ams_head) ^ alignmgr.c:6650:16: warning: 'AlnMgrJaggedIndex' defined but not used [-Wunused-function] static Boolean AlnMgrJaggedIndex(SeqAlignPtr sap, AMmsmsPtr ams_head, AMmsmsPtr *ams_mhead, Int4 numrows) ^ alignmgr.c: In function 'AlnMgrUnpackSeqAlign': alignmgr.c:1149:33: warning: 'sap_segs_prev' may be used uninitialized in this function [-Wmaybe-uninitialized] sap_segs_prev->next = (SeqAlignPtr)(sap_segs->segs); ^ alignmgr.c: In function 'am_print_seqalign_indexes': alignmgr.c:2416:30: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] for (j=0; j<(saip->ssdp[i]->numsect); j++) ^ alignmgr.c:2481:34: warning: 'amaip' may be used uninitialized in this function [-Wmaybe-uninitialized] for (j=0; j<(amaip->amadp[i]->numseg); j++) ^ alignmgr.c: In function 'AlnMgrGetNthSeqRangeInSA': alignmgr.c:4115:19: warning: 'tmp_end' may be used uninitialized in this function [-Wmaybe-uninitialized] *stop = tmp_end; ^ alignmgr.c:4113:20: warning: 'tmp_beg' may be used uninitialized in this function [-Wmaybe-uninitialized] *start = tmp_beg; ^ alignmgr.c: In function 'AlnMgrDeleteNthRow': alignmgr.c:9809:31: warning: 'abp_prev' may be used uninitialized in this function [-Wmaybe-uninitialized] abp_prev->next = abp; ^ alignmgr.c: In function 'AlnMgrGetSubAlign': alignmgr.c:9097:15: warning: 'salp' may be used uninitialized in this function [-Wmaybe-uninitialized] salp = am_cleanupsalp(salp); ^ alignmgr.c: In function 'AlnMgrMakeMultByIntersectOnMaster': alignmgr.c:5592:4: warning: 'sip_tmp' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqIdFree(sip_tmp); ^ alignmgr.c:5885:21: warning: 'sip_tmp' may be used uninitialized in this function [-Wmaybe-uninitialized] sip_tmp = sip_tmp->next; ^ alignmgr.c:5846:18: note: 'sip_tmp' was declared here SeqIdPtr sip_tmp; ^ alignmgr.c:5883:17: warning: 'sip_head' may be used uninitialized in this function [-Wmaybe-uninitialized] if (SAM_OrderSeqID(sip_tmp, sip) == 0) ^ alignmgr.c:5845:18: note: 'sip_head' was declared here SeqIdPtr sip_head; ^ alignmgr.c: In function 'am_is_consistent': alignmgr.c:10114:13: warning: 'n' may be used uninitialized in this function [-Wmaybe-uninitialized] AlnMgrGetNthUnalignedForNthRow(sap, n, i, &u_start, &u_stop); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF aliparse.c aliparse.c: In function 's_IsInterleaved': aliparse.c:929:37: warning: suggest parentheses around '&&' within '||' [-Wparentheses] (s_configInfo.useMaybes == FALSE) && ^ aliparse.c:823:20: warning: variable 'isMaybe' set but not used [-Wunused-but-set-variable] Boolean isMaybe; ^ aliparse.c: In function 's_ProcessInterId': aliparse.c:1000:15: warning: variable 'errPtr' set but not used [-Wunused-but-set-variable] ErrInfoPtr errPtr; ^ aliparse.c: In function 's_ProcessInterSeq': aliparse.c:1090:15: warning: variable 'errPtr' set but not used [-Wunused-but-set-variable] ErrInfoPtr errPtr = NULL; ^ aliparse.c: In function 's_AnalyzeInterleaved': aliparse.c:1193:36: warning: suggest parentheses around '&&' within '||' [-Wparentheses] (seqLinePtr->maybe == TRUE) && (s_configInfo.useMaybes == TRUE)) ^ aliparse.c: In function 's_ProcessContigId': aliparse.c:1385:18: warning: variable 'errPtr' set but not used [-Wunused-but-set-variable] ErrInfoPtr errPtr; ^ aliparse.c: In function 's_ProcessContigSeq': aliparse.c:1476:18: warning: variable 'errPtr' set but not used [-Wunused-but-set-variable] ErrInfoPtr errPtr; ^ aliparse.c: In function 's_AnalyzeContiguous': aliparse.c:1603:36: warning: suggest parentheses around '&&' within '||' [-Wparentheses] (seqLinePtr->maybe == TRUE) && (s_configInfo.useMaybes == TRUE)) ^ aliparse.c: In function 's_CheckContext': aliparse.c:2150:33: warning: suggest parentheses around '&&' within '||' [-Wparentheses] (seqLinePtr->maybe == TRUE) && ^ aliparse.c:2131:20: warning: variable 'errPtr' set but not used [-Wunused-but-set-variable] ErrInfoPtr errPtr; ^ aliparse.c: In function 'PrintOutMultAlign': aliparse.c:3161:10: warning: statement with no effect [-Wunused-value] for (d; dnext = newSeqPart; ^ In file included from ../include/ncbi.h:62:0, from ../include/aliparse.h:12, from aliparse.c:9: ../include/ncbistr.h:337:19: warning: 'currentIdStr' may be used uninitialized in this function [-Wmaybe-uninitialized] #define StringCmp Nlm_StringCmp ^ aliparse.c:631:18: note: 'currentIdStr' was declared here CharPtr currentIdStr; ^ aliparse.c: In function 'Ali_Read': aliparse.c:1355:14: warning: 'previousLength' may be used uninitialized in this function [-Wmaybe-uninitialized] errPtr = Ali_AddError (&(fileInfoPtr->errors),ERR_SEQ_LENGTH_MISMATCH, ^ aliparse.c:1154:20: note: 'previousLength' was declared here Int4 previousLength; ^ aliparse.c:927:18: warning: 'seqLinePtr' may be used uninitialized in this function [-Wmaybe-uninitialized] if (seqLinePtr->sequence != NULL) ^ aliparse.c:820:20: note: 'seqLinePtr' was declared here SeqLineInfoPtr seqLinePtr; ^ aliparse.c:760:3: warning: 'cLineType' may be used uninitialized in this function [-Wmaybe-uninitialized] fprintf(stderr,"%04d: MAYBE SEQUENCE[%c] : %s\n", ^ aliparse.c:723:20: note: 'cLineType' was declared here Char cLineType; ^ aliparse.c: In function 'ALI_ConvertToNCBIData': aliparse.c:3276:4: warning: 'sep_new' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqAlignAddInSeqEntry (sep_head, sanp); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF aliread.c In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from ../include/aliparse.h:15, from aliread.c:6: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF alignval.c alignval.c: In function 'ValidateSeqlengthInDenseSeg': alignval.c:1214:17: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if(stptrtemp[j+i*aligndim]+lenptrtemp[i]>bslen) ^ alignval.c: In function 'PercentStringMatch': alignval.c:1495:32: warning: variable 'max_len' set but not used [-Wunused-but-set-variable] Int4 len1, len2, min_len, k, max_len; ^ alignval.c: In function 'CheckAlnSeqLens': alignval.c:1893:12: warning: variable 'aln_len' set but not used [-Wunused-but-set-variable] Int4 aln_len, start, stop; ^ alignval.c: In function 'ValidateSeqAlign': alignval.c:1991:16: warning: variable 'ans' set but not used [-Wunused-but-set-variable] MsgAnswer ans; ^ alignval.c: In function 'GetAlignmentColumnPercentIdentities': alignval.c:2371:14: warning: variable 'num_match' set but not used [-Wunused-but-set-variable] Int4 num_match; ^ alignval.c: In function 'WeightedAlignmentPercentIdentity': alignval.c:2681:14: warning: variable 'num_match' set but not used [-Wunused-but-set-variable] Int4 num_match; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from alignval.c:57: alignval.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ alignval.c:568:13: warning: 'delete_bioseqs' defined but not used [-Wunused-function] static void delete_bioseqs (ValNodePtr ids, Uint2 entityID) ^ alignval.c:1476:16: warning: 'IsSipContainedInStdseg' defined but not used [-Wunused-function] static Boolean IsSipContainedInStdseg(SeqIdPtr sip, StdSegPtr ssp) ^ alignval.c:1891:13: warning: 'CheckAlnSeqLens' defined but not used [-Wunused-function] static void CheckAlnSeqLens (SeqAlignPtr salp) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF sqnutil1.c sqnutil1.c: In function 'GeneExtendFunc': sqnutil1.c:2514:18: warning: variable 'grp' set but not used [-Wunused-but-set-variable] GeneRefPtr grp; ^ sqnutil1.c: In function 'ParseAnticodon': sqnutil1.c:3961:14: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ sqnutil1.c: In function 'ParseCodeBreak': sqnutil1.c:4081:17: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ sqnutil1.c: In function 'CleanOrgModListEx': sqnutil1.c:6276:48: warning: suggest parentheses around '&&' within '||' [-Wparentheses] } else if (last->subtype == omp->subtype && ^ sqnutil1.c: In function 'CleanUpPubdescAuthors': sqnutil1.c:9213:20: warning: variable 'prev' set but not used [-Wunused-but-set-variable] ValNodePtr PNTR prev; ^ sqnutil1.c: In function 'RemoveUnnecessaryGeneXrefs': sqnutil1.c:14155:24: warning: variable 'count' set but not used [-Wunused-but-set-variable] Int2 count; ^ sqnutil1.c: In function 'LinkTwoFeatures': sqnutil1.c:18204:25: warning: variable 'prev_xref' set but not used [-Wunused-but-set-variable] SeqFeatXrefPtr xref, prev_xref, next_xref; ^ sqnutil1.c: In function 'RemoveBadCodonRecognizedCallback': sqnutil1.c:18750:13: warning: variable 'rcodon' set but not used [-Wunused-but-set-variable] Uint1 rcodon [4]; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from sqnutil1.c:63: sqnutil1.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ sqnutil1.c:2509:16: warning: 'GeneExtendFunc' defined but not used [-Wunused-function] static Boolean GeneExtendFunc (GatherContextPtr gcp) ^ sqnutil1.c:5290:13: warning: 'CleanupConsSplice' defined but not used [-Wunused-function] static void CleanupConsSplice (GBQualPtr gbq) ^ sqnutil1.c:7645:16: warning: 'IsStringSingleToken' defined but not used [-Wunused-function] static Boolean IsStringSingleToken (CharPtr str) ^ sqnutil1.c:10250:13: warning: 'SortGoTermsSfp' defined but not used [-Wunused-function] static void SortGoTermsSfp ( ^ sqnutil1.c:10364:16: warning: 'CleanUpSgml' defined but not used [-Wunused-function] static CharPtr CleanUpSgml ( ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF sqnutil2.c sqnutil2.c: In function 'FindResidueByName': sqnutil2.c:5197:11: warning: variable 'last' set but not used [-Wunused-but-set-variable] Uint1 last; ^ sqnutil2.c: In function 'ReadFeatureTableEx': sqnutil2.c:7202:18: warning: variable 'isnote' set but not used [-Wunused-but-set-variable] Boolean isnote; ^ sqnutil2.c:7194:18: warning: variable 'endsinspace' set but not used [-Wunused-but-set-variable] Boolean endsinspace; ^ sqnutil2.c: In function 'SeqEntryCopyReplace': sqnutil2.c:9199:8: warning: variable 'type' set but not used [-Wunused-but-set-variable] Uint1 type = 0; ^ sqnutil2.c: In function 'StreamingReadBioseq': sqnutil2.c:10024:10: warning: variable 'level' set but not used [-Wunused-but-set-variable] Int2 level; ^ sqnutil2.c: In function 'StreamAsnForDescriptors': sqnutil2.c:10257:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (rval = StreamingReadSeqEntry (aip, sp, &sr)) { ^ sqnutil2.c: In function 'StreamingReadWriteSeqSubmit': sqnutil2.c:10637:1: warning: label 'ret' defined but not used [-Wunused-label] ret: ^ sqnutil2.c: In function 'WriteAsnWithReplacedDescriptors': sqnutil2.c:10676:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (rval = StreamingReadWriteSeqEntry(desc_stream_list, aip_in, aip_out, sp)) { ^ sqnutil2.c: In function 'ReadFeatureTableFile': sqnutil2.c:11627:18: warning: variable 'begin' set but not used [-Wunused-but-set-variable] Int4 begin; ^ sqnutil2.c: In function 'ReadFastaOnly': sqnutil2.c:11821:18: warning: variable 'seqid' set but not used [-Wunused-but-set-variable] Char seqid [2048]; ^ sqnutil2.c: In function 'ReadDeltaFastaWithEmptyDefline': sqnutil2.c:12352:29: warning: variable 'seqid' set but not used [-Wunused-but-set-variable] Char line [4096], seqid [2048]; ^ sqnutil2.c: In function 'PrintQualityScoresToBuffer': sqnutil2.c:12958:17: warning: variable 'entityID' set but not used [-Wunused-but-set-variable] Uint2 entityID; ^ sqnutil2.c: In function 'GetScoresbySeqId': sqnutil2.c:13367:17: warning: variable 'entityID' set but not used [-Wunused-but-set-variable] Uint2 entityID; ^ sqnutil2.c: In function 'IsStringInSpanInList': sqnutil2.c:17223:11: warning: variable 'str_val' set but not used [-Wunused-but-set-variable] Int4 str_val; ^ sqnutil2.c:17221:27: warning: variable 'suffix_len' set but not used [-Wunused-but-set-variable] Int4 prefix_len = 0, suffix_len; ^ sqnutil2.c: In function 'CreateStructuredCommentsFromFile': sqnutil2.c:19251:35: warning: variable 'vnp_h' set but not used [-Wunused-but-set-variable] ValNodePtr table, header, line, vnp_h, vnp_l, tmp; ^ sqnutil2.c: In function 'AlignmentIntervalToString': sqnutil2.c:19615:14: warning: variable 'target_strand' set but not used [-Wunused-but-set-variable] Uint1 target_strand; ^ sqnutil2.c:19614:14: warning: variable 'seq_len' set but not used [-Wunused-but-set-variable] Int4 seq_len; ^ sqnutil2.c: In function 'AdjustForConsensusSpliceCallback': sqnutil2.c:20781:33: warning: variable 'partial5_last' set but not used [-Wunused-but-set-variable] Boolean partial5, partial3, partial5_last, partial3_last, first = TRUE; ^ sqnutil2.c: In function 'RemoveGIProc': sqnutil2.c:21356:18: warning: variable 'nextid' set but not used [-Wunused-but-set-variable] SeqIdPtr nextid, sip; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from sqnutil2.c:58: sqnutil2.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ sqnutil2.c:4661:16: warning: 'IsNonSeqChar' defined but not used [-Wunused-function] static Boolean IsNonSeqChar (Char ch, Boolean is_prot) ^ sqnutil2.c:8266:16: warning: 'DoesSeqEntryAccessionMatchList' defined but not used [-Wunused-function] static Boolean DoesSeqEntryAccessionMatchList (SeqEntryPtr sep, ValNodePtr accn_list) ^ sqnutil2.c:16055:13: warning: 'RevCompFeatsOnBioseq' defined but not used [-Wunused-function] static void RevCompFeatsOnBioseq (BioseqPtr bsp) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF sqnutil3.c sqnutil3.c: In function 'BspLinkCDSmRNAbyOverlap': sqnutil3.c:526:22: warning: variable 'count' set but not used [-Wunused-but-set-variable] Int2 count; ^ sqnutil3.c: In function 'CautiousSeqEntryCleanup': sqnutil3.c:2265:16: warning: variable 'taxserver' set but not used [-Wunused-but-set-variable] Boolean taxserver; ^ sqnutil3.c: In function 'ConvertSegSetsToDeltaSequences': sqnutil3.c:3376:17: warning: variable 'bsp' set but not used [-Wunused-but-set-variable] BioseqPtr bsp, new_bsp = NULL; ^ sqnutil3.c:3370:26: warning: variable 'prev_sep' set but not used [-Wunused-but-set-variable] SeqEntryPtr sub_sep, prev_sep, next_sep; ^ sqnutil3.c: In function 'MakeSequinDataFromAlignmentEx': sqnutil3.c:5124:32: warning: variable 'num_sets' set but not used [-Wunused-but-set-variable] Int4 index, curr_seg, num_sets; ^ sqnutil3.c:5118:26: warning: variable 'salp_last' set but not used [-Wunused-but-set-variable] SeqAlignPtr salp_list, salp_last; ^ sqnutil3.c:5118:15: warning: variable 'salp_list' set but not used [-Wunused-but-set-variable] SeqAlignPtr salp_list, salp_last; ^ sqnutil3.c: In function 'GetCDSformRNA': sqnutil3.c:19157:8: warning: variable 'count' set but not used [-Wunused-but-set-variable] Int2 count; ^ sqnutil3.c: In function 'FindTextInFlatfileEx': sqnutil3.c:20891:19: warning: variable 'okay' set but not used [-Wunused-but-set-variable] Boolean okay; ^ sqnutil3.c: In function 'CheckForTitleAuthorConflicts': sqnutil3.c:21972:14: warning: variable 'author_conflict' set but not used [-Wunused-but-set-variable] Boolean author_conflict = FALSE; ^ sqnutil3.c: In function 'SortVnpByBspProjectId': sqnutil3.c:25733:31: warning: the comparison will always evaluate as 'true' for the address of 'vnp2' will never be NULL [-Waddress] if (vnp1 != NULL &&& vnp2 != NULL) { ^ sqnutil3.c: In function 'GetDiscrepancyItemTextEx': sqnutil3.c:28202:21: warning: variable 'special_flag' set but not used [-Wunused-but-set-variable] Boolean special_flag = FALSE; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from sqnutil3.c:62: sqnutil3.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ sqnutil3.c:9621:19: warning: 'FreePrefixCheckList' defined but not used [-Wunused-function] static ValNodePtr FreePrefixCheckList (ValNodePtr prefix_list) ^ sqnutil3.c:9672:25: warning: 'InconsistentLocusTagPrefix' defined but not used [-Wunused-function] static ClickableItemPtr InconsistentLocusTagPrefix (PrefixCheckPtr pcp) ^ sqnutil3.c:9755:13: warning: 'GeneLocusTagDiscrepancyCallback' defined but not used [-Wunused-function] static void GeneLocusTagDiscrepancyCallback (ValNodePtr item_list, Pointer userdata) ^ sqnutil3.c:10252:13: warning: 'ExtractVnpByStringSearch' defined but not used [-Wunused-function] static void ExtractVnpByStringSearch (ValNodePtr PNTR list, CharPtr search) ^ sqnutil3.c:13399:16: warning: 'ContainsBracketsOrParentheses' defined but not used [-Wunused-function] static Boolean ContainsBracketsOrParentheses (CharPtr pattern, CharPtr search) ^ sqnutil3.c:16581:24: warning: 'IntervalPairFree' defined but not used [-Wunused-function] static IntervalPairPtr IntervalPairFree (IntervalPairPtr i) ^ sqnutil3.c:18676:24: warning: 'SortVnpByHaplotypeThenSequenceAllowNDiff' defined but not used [-Wunused-function] static int LIBCALLBACK SortVnpByHaplotypeThenSequenceAllowNDiff (VoidPtr ptr1, VoidPtr ptr2) ^ sqnutil3.c:19971:16: warning: 'FeatureCountHasNumFeats' defined but not used [-Wunused-function] static Boolean FeatureCountHasNumFeats (ValNodePtr vnp, Pointer data) ^ sqnutil3.c:23725:13: warning: 'FindSuspectrRNAProductsCallback' defined but not used [-Wunused-function] static void FindSuspectrRNAProductsCallback (SeqFeatPtr sfp, Pointer data) ^ sqnutil3.c:31396:13: warning: 'FindBadGPS' defined but not used [-Wunused-function] static void FindBadGPS (BioseqPtr bsp, Pointer userdata) ^ sqnutil3.c:31404:1: warning: 'BarcodeTestForSeqEntry' defined but not used [-Wunused-function] BarcodeTestForSeqEntry ^ sqnutil3.c:33544:13: warning: 'TestLatLonFormatting' defined but not used [-Wunused-function] static void TestLatLonFormatting (FILE *fp) ^ sqnutil3.c: In function 'FillInMissingTraces': sqnutil3.c:31968:5: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ sqnutil3.c: In function 'LinkCDSmRNAbyLabelAndLocationCallback': sqnutil3.c:889:23: warning: 'best_diff' may be used uninitialized in this function [-Wmaybe-uninitialized] } else if (diff < best_diff) { ^ sqnutil3.c: In function 'ValidateInferenceQualifier': sqnutil3.c:6030:6: warning: 'rest' may be used uninitialized in this function [-Wmaybe-uninitialized] if (rest == NULL) return BAD_INFERENCE_BODY; ^ sqnutil3.c:6028:6: warning: 'best' may be used uninitialized in this function [-Wmaybe-uninitialized] if (best < 0 || inferencePrefix [best] == NULL) return BAD_INFERENCE_PREFIX; ^ sqnutil3.c: In function 'tRNASameStrandBioseqCallback': sqnutil3.c:16126:8: warning: 'strand' may be used uninitialized in this function [-Wmaybe-uninitialized] if (strand == Seq_strand_minus) { ^ sqnutil3.c: In function 'CheckForDivConflicts': sqnutil3.c:7901:11: warning: 'sdp' may be used uninitialized in this function [-Wmaybe-uninitialized] else ValNodeAddPointer(&(grp_sdp[i]), OBJ_SEQDESC, sdp); ^ sqnutil3.c: In function 'FindMismatchedComments': sqnutil3.c:25390:47: warning: 'sdp' may be used uninitialized in this function [-Wmaybe-uninitialized] sprintf (fmt, sub_fmt, (CharPtr) sdp->data.ptrvalue); ^ sqnutil3.c: In function 'FixCountryColons': sqnutil3.c:7523:14: warning: 'biop' may be used uninitialized in this function [-Wmaybe-uninitialized] for (ssp = biop->subtype; ssp != NULL; ssp = ssp->next) { ^ sqnutil3.c: In function 'AddmRNAForCDS': sqnutil3.c:19565:10: warning: 'rna' may be used uninitialized in this function [-Wmaybe-uninitialized] return rna; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF sqnutil4.c sqnutil4.c: In function 'ListClauses': sqnutil4.c:8272:43: warning: variable 'twobefore' set but not used [-Wunused-but-set-variable] FeatureClausePtr thisclause, onebefore, twobefore, oneafter, twoafter; ^ sqnutil4.c: In function 'SmashOneTallClause': sqnutil4.c:9576:20: warning: variable 'subclause_featlist' set but not used [-Wunused-but-set-variable] ValNodePtr subclause_featlist; ^ sqnutil4.c: In function 'GetFeatureClauseForSeg': sqnutil4.c:10448:21: warning: variable 'start' set but not used [-Wunused-but-set-variable] Int4 start, stop; ^ sqnutil4.c: In function 'IsAmplifiedMiscFeat': sqnutil4.c:10701:9: warning: suggest parentheses around '&&' within '||' [-Wparentheses] && (StringNICmp (sfp->comment, phrase1, StringLen (phrase1)) == 0) ^ sqnutil4.c: In function 'ConvertProtToImpFunc': sqnutil4.c:13849:17: warning: variable 'entityID' set but not used [-Wunused-but-set-variable] Uint2 entityID; ^ sqnutil4.c: In function 'ExtraCDSCreationActions': sqnutil4.c:14728:28: warning: variable 'nsep' set but not used [-Wunused-but-set-variable] SeqEntryPtr psep, nsep; ^ sqnutil4.c: In function 'TESTDisplayQualCombo': sqnutil4.c:15752:20: warning: variable 'val' set but not used [-Wunused-but-set-variable] Int4 val; ^ sqnutil4.c: In function 'ConvertCDSToMatPeptideForOverlappingCDS': sqnutil4.c:17198:15: warning: variable 'crp' set but not used [-Wunused-but-set-variable] CdRegionPtr crp; ^ sqnutil4.c: In function 'AddNewUniqueAnnotations': sqnutil4.c:17372:39: warning: variable 'sap_tmp_next' set but not used [-Wunused-but-set-variable] SeqAnnotPtr sap, sap_next, sap_tmp, sap_tmp_next, sap_copy, last_sap; ^ sqnutil4.c: In function 'AssignBioseqToLineageGroup': sqnutil4.c:18024:27: warning: variable 'vnp_last' set but not used [-Wunused-but-set-variable] ValNodePtr list, vnp, vnp_last = NULL; ^ sqnutil4.c: In function 'ImportNucleotideFASTASequencesFromFile': sqnutil4.c:26442:17: warning: variable 'count' set but not used [-Wunused-but-set-variable] Int4 count; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from sqnutil4.c:58: sqnutil4.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/tax3api.h:51:0, from sqnutil4.c:63: ../include/objtax3.h:183:31: warning: 'Value_valueFree' declared 'static' but never defined [-Wunused-function] static Value_valuePtr LIBCALL Value_valueFree PROTO ((Value_valuePtr )); ^ ../include/objtax3.h:184:31: warning: 'Value_valueAsnRead' declared 'static' but never defined [-Wunused-function] static Value_valuePtr LIBCALL Value_valueAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objtax3.h:185:24: warning: 'Value_valueAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Value_valueAsnWrite PROTO (( Value_valuePtr , AsnIoPtr, AsnTypePtr)); ^ sqnutil4.c:4945:13: warning: 'CountFeatures' defined but not used [-Wunused-function] static Int4 CountFeatures ( ^ sqnutil4.c:9510:13: warning: 'RemoveFeats' defined but not used [-Wunused-function] static void RemoveFeats ( ^ sqnutil4.c:9674:13: warning: 'SmashTallClauses' defined but not used [-Wunused-function] static void SmashTallClauses ( ^ sqnutil4.c:9705:19: warning: 'RemoveAllButLastCDS' defined but not used [-Wunused-function] static ValNodePtr RemoveAllButLastCDS ( ^ sqnutil4.c:15584:16: warning: 'RemoveFieldFromUniqBioSrcGrpList' defined but not used [-Wunused-function] static Boolean RemoveFieldFromUniqBioSrcGrpList (ValNodePtr list, FieldTypePtr field) ^ sqnutil4.c:15872:19: warning: 'ExpandOneComboListUsingAllPresentQuals' defined but not used [-Wunused-function] static ValNodePtr ExpandOneComboListUsingAllPresentQuals (QualComboPtr q) ^ sqnutil4.c:15901:13: warning: 'TESTDisplayList' defined but not used [-Wunused-function] static void TESTDisplayList (ValNodePtr new_list) ^ sqnutil4.c: In function 'ConvertProtToImpFunc': sqnutil4.c:14023:13: warning: 'topOfGbqList' may be used uninitialized in this function [-Wmaybe-uninitialized] sfp->qual = topOfGbqList; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF subutil.c subutil.c: In function 'AddSeqLitToBioseq': subutil.c:769:16: warning: variable 'vnp' set but not used [-Wunused-but-set-variable] ValNodePtr vnp; ^ subutil.c: In function 'AddReferenceToSegmentedEntry': subutil.c:1163:22: warning: variable 'prev' set but not used [-Wunused-but-set-variable] SeqEntryPtr tmp, prev; ^ subutil.c: In function 'GetDNAConv': subutil.c:1624:15: warning: array subscript has type 'char' [-Wchar-subscripts] dnaconv[*ptr] = *ptr; ^ subutil.c: In function 'GetProteinConv': subutil.c:1646:16: warning: array subscript has type 'char' [-Wchar-subscripts] protconv[*ptr] = *ptr; ^ subutil.c: In function 'AddBasesToByteStore': subutil.c:1669:26: warning: array subscript has type 'char' [-Wchar-subscripts] residue = dnaconv[ch]; ^ subutil.c: In function 'AddAAsToByteStore': subutil.c:1700:25: warning: array subscript has type 'char' [-Wchar-subscripts] residue = aaconv[ch]; ^ subutil.c: In function 'CitArtBuild': subutil.c:2683:21: warning: variable 'tmp' set but not used [-Wunused-but-set-variable] ValNodePtr vnp, tmp; ^ subutil.c: At top level: subutil.c:3546:20: warning: 'TranslateCdRegionNew' defined but not used [-Wunused-function] static SeqEntryPtr TranslateCdRegionNew ( ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF edutil.c edutil.c: In function 'SeqLocsToDeltaSeqs': edutil.c:795:14: warning: variable 'sip' set but not used [-Wunused-but-set-variable] SeqIdPtr sip; ^ edutil.c: In function 'SeqLocCopyPart': edutil.c:2243:13: warning: variable 'done' set but not used [-Wunused-but-set-variable] Boolean done, started, wasa_null, hada_null; ^ edutil.c: In function 'IndexedSeqFeatsCopy': edutil.c:2400:16: warning: variable 'region' set but not used [-Wunused-but-set-variable] ValNodePtr region; ^ edutil.c: In function 'SeqFeatsCopy': edutil.c:2504:16: warning: variable 'region' set but not used [-Wunused-but-set-variable] ValNodePtr region; ^ edutil.c: In function 'SeqLocInsert': edutil.c:3686:10: warning: variable 'diff' set but not used [-Wunused-but-set-variable] Int4 diff, numpnt, i, tpos; ^ edutil.c: In function 'SeqEdRecreateDeletedFeats': edutil.c:4212:19: warning: variable 'sfp' set but not used [-Wunused-but-set-variable] SeqFeatPtr sfp; ^ edutil.c: In function 'SeqEdSeqLocInsert': edutil.c:4512:8: warning: variable 'diff' set but not used [-Wunused-but-set-variable] Int4 diff, numpnt, i, tpos; ^ edutil.c: In function 'SeqEdSeqLocDelete': edutil.c:5069:10: warning: variable 'diff' set but not used [-Wunused-but-set-variable] Int4 diff; ^ edutil.c: In function 'SeqEdInsertAdjustFeat': edutil.c:5300:7: warning: suggest parentheses around '&&' within '||' [-Wparentheses] && sfp->data.choice == SEQFEAT_CDREGION) ^ edutil.c: In function 'SeqEdDeleteFromBsp': edutil.c:6485:11: warning: suggest parentheses around '&&' within '||' [-Wparentheses] && sfp->data.choice == SEQFEAT_CDREGION) ^ edutil.c:6548:11: warning: suggest parentheses around '&&' within '||' [-Wparentheses] && sfp->data.choice == SEQFEAT_CDREGION) ^ edutil.c:6437:21: warning: variable 'merge_mode' set but not used [-Wunused-but-set-variable] Boolean merge_mode; ^ edutil.c:6428:21: warning: variable 'feats_altered' set but not used [-Wunused-but-set-variable] Boolean feats_altered = FALSE; ^ edutil.c: In function 'BioseqCopyEx': edutil.c:2152:25: warning: 'head' may be used uninitialized in this function [-Wmaybe-uninitialized] newbsp->seq_ext = (Pointer)head; ^ edutil.c: In function 'BioseqInsert': cc1: warning: assuming signed overflow does not occur when assuming that (X - c) > X is always false [-Wstrict-overflow] edutil.c: In function 'SeqEdInsert': cc1: warning: assuming signed overflow does not occur when assuming that (X - c) > X is always false [-Wstrict-overflow] gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF asn2ff1.c asn2ff1.c: In function 'asn2ff_print': asn2ff1.c:289:17: warning: unused variable 'dsp' [-Wunused-variable] DescrStructPtr dsp = NULL; ^ asn2ff1.c: In function 'Asn2ffJobCreate': asn2ff1.c:351:18: warning: unused variable 'itemID' [-Wunused-variable] Uint4 itemID = 0; ^ asn2ff1.c: In function 'SeqEntryToEntrez': asn2ff1.c:498:15: warning: unused variable 'slp' [-Wunused-variable] SeqLocPtr slp = NULL; ^ asn2ff1.c: In function 'SeqLocToFlat': asn2ff1.c:1518:19: warning: unused variable 'itemID' [-Wunused-variable] Uint4 itemID=0; ^ asn2ff1.c: In function 'asn2ff_setup': asn2ff1.c:1579:12: warning: variable 'bsp' set but not used [-Wunused-but-set-variable] BioseqPtr bsp; ^ asn2ff1.c: In function 'PrintStatusLine': asn2ff1.c:2197:15: warning: unused variable 'ptr' [-Wunused-variable] CharPtr u, ptr=NULL; ^ asn2ff1.c: In function 'asn2gb_setup': asn2ff1.c:2403:24: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if (ajp->genome_view && gbp->map == FALSE || ajp->contig_view) { ^ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from asn2ff1.c:45: asn2ff1.c: At top level: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ asn2ff1.c:816:19: warning: 'SeqEntryToLinkStrEx' defined but not used [-Wunused-function] static LinkStrPtr SeqEntryToLinkStrEx(Asn2ffJobPtr ajp, SeqEntryPtr sep, LinkStrPtr lsp, Uint1 format) ^ asn2ff1.c:2171:16: warning: 'find_user_object' defined but not used [-Wunused-function] static Boolean find_user_object(BioseqPtr bsp) ^ asn2ff1.c:2189:13: warning: 'PrintStatusLine' defined but not used [-Wunused-function] static void PrintStatusLine(Asn2ffJobPtr ajp, GBEntryPtr gbp) ^ asn2ff1.c: In function 'asn2embl_setup': asn2ff1.c:2754:7: warning: 'max' may be used uninitialized in this function [-Wmaybe-uninitialized] if (max == index+1) { ^ asn2ff1.c: In function 'asn2gp_setup': asn2ff1.c:2942:4: warning: 'feat_num' may be used uninitialized in this function [-Wmaybe-uninitialized] for (index=0; index < feat_num; index++) { ^ asn2ff1.c: In function 'SeqEntryToGBFlatNoSeq': asn2ff1.c:1292:15: warning: 'rsult' may be used uninitialized in this function [-Wmaybe-uninitialized] Boolean rsult; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF asn2ff2.c asn2ff2.c: In function 'GetStrForBankit': asn2ff2.c:518:9: warning: unused variable 'i' [-Wunused-variable] Int2 i=0, ptrlen = 0; ^ asn2ff2.c: In function 'GetCommentByChoice': asn2ff2.c:769:34: warning: unused variable 'string' [-Wunused-variable] CharPtr buf = NULL, ptr = NULL, string=NULL, new_string=NULL, str=NULL; ^ asn2ff2.c: In function 'GP_GetSeqDescrComms': asn2ff2.c:1163:10: warning: unused variable 'got_comment' [-Wunused-variable] Boolean got_comment=FALSE; ^ asn2ff2.c: At top level: asn2ff2.c:1358:8: warning: return type defaults to 'int' [-Wimplicit-int] static ChoicePID(SeqIdPtr sid) ^ asn2ff2.c: In function 'GetGibbsqCommentLength': asn2ff2.c:1600:7: warning: unused variable 'gibbsq' [-Wunused-variable] Int4 gibbsq=0, total; ^ asn2ff2.c: In function 'GatherDescrByChoice': asn2ff2.c:1864:8: warning: variable 'bspID' set but not used [-Wunused-but-set-variable] Uint2 bspID; ^ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from asn2ff2.c:218: asn2ff2.c: At top level: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ asn2ff2.c:232:16: warning: 'has_comment' defined but not used [-Wunused-variable] static Boolean has_comment; ^ asn2ff2.c:680:16: warning: 'GetEvidence' defined but not used [-Wunused-function] static CharPtr GetEvidence(Asn2ffJobPtr ajp, GBEntryPtr gbp) ^ asn2ff2.c:1190:16: warning: 'GetSPBlock' defined but not used [-Wunused-function] static CharPtr GetSPBlock (Asn2ffJobPtr ajp, GBEntryPtr gbp) ^ asn2ff2.c: In function 'GetCommentByChoice': asn2ff2.c:829:8: warning: 'is_other' may be used uninitialized in this function [-Wmaybe-uninitialized] if (is_other == TRUE && mfp->completeness) { ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF asn2ff3.c asn2ff3.c: In function 'PutGeneFirst': asn2ff3.c:1662:26: warning: unused variable 'qual_temp' [-Wunused-variable] GBQualPtr gbqual, qual, qual_temp=NULL, qual_gene=NULL; ^ asn2ff3.c:1661:10: warning: unused variable 'still_looking' [-Wunused-variable] Boolean still_looking=TRUE; ^ asn2ff3.c: In function 'mRNAEvidenceComment': asn2ff3.c:1746:9: warning: unused variable 'Locus_id' [-Wunused-variable] Int4 Locus_id = 0; ^ asn2ff3.c: In function 'Add_gene_id': asn2ff3.c:3306:15: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'Nlm_VoidPtr {aka void *}' [-Wformat=] sprintf(val, "GeneID:%s", vnp->data.ptrvalue); ^ asn2ff3.c: In function 'Add_trid': asn2ff3.c:3712:7: warning: unused variable 'gi' [-Wunused-variable] Int4 gi = -1; ^ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from asn2ff3.c:628: asn2ff3.c: At top level: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ asn2ff3.c:3291:13: warning: 'Add_gene_id' defined but not used [-Wunused-function] static void Add_gene_id (GeneStructPtr gsp, SeqFeatPtr sfp_out) ^ In file included from ../include/ncbi.h:59:0, from ../include/asn.h:54, from ../include/asn2ffg.h:200, from ../include/asn2ffp.h:372, from asn2ff3.c:628: asn2ff3.c: In function 'Add_dbxref.isra.0': ../include/ncbimem.h:232:23: warning: 'val' may be used uninitialized in this function [-Wmaybe-uninitialized] #define MemFree Nlm_MemFree ^ asn2ff3.c:805:10: note: 'val' was declared here CharPtr val; ^ asn2ff3.c: In function 'GettRNAaa': asn2ff3.c:2185:8: warning: 'seq_code' may be used uninitialized in this function [-Wmaybe-uninitialized] Uint1 seq_code; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF asn2ff4.c asn2ff4.c: In function 'FlatLocPoint': asn2ff4.c:437:15: warning: variable 'order' set but not used [-Wunused-but-set-variable] static Uint1 order[NUM_SEQID]; ^ asn2ff4.c: In function 'do_FlatLoc': asn2ff4.c:1122:7: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if ( ! FlatVirtLoc( bsp, slp)) ^ asn2ff4.c: At top level: asn2ff4.c:1347:8: warning: return type defaults to 'int' [-Wimplicit-int] static CmpImpFeat (ImpFeatPtr f1, ImpFeatPtr f2) ^ asn2ff4.c: In function 'CreateImpFeatFromProt': asn2ff4.c:1659:14: warning: variable 'grp' set but not used [-Wunused-but-set-variable] GeneRefPtr grp; ^ asn2ff4.c: In function 'MatchNAGeneToFeat': asn2ff4.c:2196:17: warning: variable 'nsp' set but not used [-Wunused-but-set-variable] NoteStructPtr nsp; /* UNUSED */ ^ asn2ff4.c: In function 'MatchAAGeneToFeat': asn2ff4.c:2367:18: warning: variable 'nsp' set but not used [-Wunused-but-set-variable] NoteStructPtr nsp; /* UNUSED */ ^ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from asn2ff4.c:273: asn2ff4.c: At top level: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ asn2ff4.c: In function 'CheckNewSfpLoc.isra.0': asn2ff4.c:1767:7: warning: 'slp' may be used uninitialized in this function [-Wmaybe-uninitialized] if (SeqLocLen(slp) <= BioseqGetLen(bsp)) { ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF asn2ff5.c asn2ff5.c: In function 'format_cit_sub': asn2ff5.c:1023:36: warning: suggest parentheses around '&&' within '||' [-Wparentheses] format == EMBLPEPT_FMT && afp->choice == 1) ^ asn2ff5.c:926:41: warning: variable 'need_space' set but not used [-Wunused-but-set-variable] Boolean need_comma = FALSE, /*UNUSED*/need_space = TRUE; ^ asn2ff5.c: In function 'format_thesis': asn2ff5.c:1213:20: warning: variable 'embl_format' set but not used [-Wunused-but-set-variable] Boolean /*UNUSED*/embl_format = FALSE; ^ asn2ff5.c: In function 'format_book': asn2ff5.c:1296:10: warning: variable 'embl_format' set but not used [-Wunused-but-set-variable] Boolean embl_format = FALSE; ^ asn2ff5.c: In function 'format_jourarticle': asn2ff5.c:1680:7: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (ip->pages != NULL) ^ asn2ff5.c: In function 'StripParanthesis': asn2ff5.c:2124:12: warning: value computed is not used [-Wunused-value] temp++; *ptr_in++; ^ asn2ff5.c: In function 'PostARefErrMessage': asn2ff5.c:3005:20: warning: variable 'ignore_this' set but not used [-Wunused-but-set-variable] Boolean /*UNUSED*/ignore_this, submit=FALSE, error; ^ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from asn2ff5.c:177: asn2ff5.c: At top level: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ asn2ff5.c:188:26: warning: 'GetSubmitterName' declared 'static' but never defined [-Wunused-function] static CharPtr /*UNUSED*/GetSubmitterName PROTO ((Uint1 format, ValNodePtr pub)); ^ asn2ff5.c: In function 'FlatJournal': asn2ff5.c:1051:11: warning: 'afp' may be used uninitialized in this function [-Wmaybe-uninitialized] AffilPtr afp; ^ asn2ff5.c:2073:10: warning: 'temp' may be used uninitialized in this function [-Wmaybe-uninitialized] temp = StringMove (temp," "); ^ asn2ff5.c:1946:23: note: 'temp' was declared here CharPtr affil=NULL, temp, dup_pages=NULL, retval=NULL; ^ asn2ff5.c: In function 'CheckPubs': asn2ff5.c:2772:5: warning: 'status' may be used uninitialized in this function [-Wmaybe-uninitialized] PostARefErrMessage (ajp, bsp, psp, NULL, status, NULL); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF asn2ff6.c asn2ff6.c: In function 'AddGBQual': asn2ff6.c:1327:18: warning: variable 'note' set but not used [-Wunused-but-set-variable] GBQualPtr curq, note = NULL; ^ asn2ff6.c: In function 'BioseqGetGBDivCodeEx': asn2ff6.c:1700:23: warning: variable 'diff' set but not used [-Wunused-but-set-variable] Int2 tech, /*UNUSED*/diff, retval = 0; ^ asn2ff6.c: In function 'GR_PrintPubs': asn2ff6.c:2297:41: warning: unused variable 'stop' [-Wunused-variable] Int4 muid, pmid, pat_seqid=0, start=0, stop=0; ^ asn2ff6.c:2297:32: warning: unused variable 'start' [-Wunused-variable] Int4 muid, pmid, pat_seqid=0, start=0, stop=0; ^ asn2ff6.c:2297:13: warning: variable 'pmid' set but not used [-Wunused-but-set-variable] Int4 muid, pmid, pat_seqid=0, start=0, stop=0; ^ asn2ff6.c:2296:10: warning: unused variable 'descr' [-Wunused-variable] CharPtr descr = NULL; ^ asn2ff6.c: In function 'ValidateLocus': asn2ff6.c:2786:17: warning: variable 'base_locus_max' set but not used [-Wunused-but-set-variable] Int2 /*UNUSED*/base_locus_max, buf_index, exp, length, num_of_digits; ^ asn2ff6.c: In function 'ValidateOtherAccession': asn2ff6.c:2886:29: warning: unused variable 'FiveNum' [-Wunused-variable] Boolean FirstLetter=FALSE, FiveNum = FALSE; ^ asn2ff6.c:2886:10: warning: unused variable 'FirstLetter' [-Wunused-variable] Boolean FirstLetter=FALSE, FiveNum = FALSE; ^ asn2ff6.c: In function 'AddExtraAccessions': asn2ff6.c:3498:20: warning: variable 'ncbi' set but not used [-Wunused-but-set-variable] Boolean /*UNUSED*/ncbi = FALSE; ^ In file included from ../include/asn2ff6.h:142:0, from asn2ff6.c:347: asn2ff6.c: At top level: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ asn2ff6.c:2883:13: warning: 'ValidateOtherAccession' defined but not used [-Wunused-function] static Int2 ValidateOtherAccession(CharPtr new_buf, CharPtr orig_buf) ^ asn2ff6.c: In function 'ValidateLocus': asn2ff6.c:2786:44: warning: 'exp' may be used uninitialized in this function [-Wmaybe-uninitialized] Int2 /*UNUSED*/base_locus_max, buf_index, exp, length, num_of_digits; ^ asn2ff6.c: In function 'MakeBaseLocusAwp': asn2ff6.c:3070:49: warning: 'num_of_digits' may be used uninitialized in this function [-Wmaybe-uninitialized] Int2 index, length, base_locus_max, name_len, num_of_digits, num_seg; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF asn2gnb1.c asn2gnb1.c: In function 'IsWholeWordSubstr': asn2gnb1.c:2092:19: warning: variable 'right' set but not used [-Wunused-but-set-variable] Boolean left, right; ^ asn2gnb1.c: In function 'DoOneSection': asn2gnb1.c:2363:24: warning: variable 'iasp' set but not used [-Wunused-but-set-variable] IntAsn2gbSectPtr iasp; ^ asn2gnb1.c:2357:24: warning: variable 'bkmask' set but not used [-Wunused-but-set-variable] BlockMask bkmask; ^ asn2gnb1.c: In function 'Count2Seg': asn2gnb1.c:3215:18: warning: variable 'to' set but not used [-Wunused-but-set-variable] Int4 to; ^ asn2gnb1.c:3213:18: warning: variable 'parent' set but not used [-Wunused-but-set-variable] BioseqPtr parent; ^ asn2gnb1.c: At top level: asn2gnb1.c:3492:3: warning: missing braces around initializer [-Wmissing-braces] {TRUE, TRUE, TRUE, TRUE, TRUE, ^ asn2gnb1.c:3492:3: note: (near initialization for 'flagTable[0]') asn2gnb1.c:3500:3: warning: missing braces around initializer [-Wmissing-braces] {FALSE, TRUE, TRUE, TRUE, TRUE, ^ asn2gnb1.c:3500:3: note: (near initialization for 'flagTable[1]') asn2gnb1.c:3508:3: warning: missing braces around initializer [-Wmissing-braces] {FALSE, FALSE, FALSE, FALSE, FALSE, ^ asn2gnb1.c:3508:3: note: (near initialization for 'flagTable[2]') asn2gnb1.c:3516:3: warning: missing braces around initializer [-Wmissing-braces] {FALSE, FALSE, FALSE, FALSE, FALSE, ^ asn2gnb1.c:3516:3: note: (near initialization for 'flagTable[3]') asn2gnb1.c:3489:33: warning: missing braces around initializer [-Wmissing-braces] static ModeFlags flagTable [] = { ^ asn2gnb1.c:3489:33: note: (near initialization for 'flagTable') asn2gnb1.c: In function 'SeqIdWriteForTable': asn2gnb1.c:5571:13: warning: variable 'pdb' set but not used [-Wunused-but-set-variable] pdb = NULL, general = NULL, gi = NULL; ^ asn2gnb1.c:5570:40: warning: variable 'patent' set but not used [-Wunused-but-set-variable] SeqIdPtr accn = NULL, local = NULL, patent = NULL, ^ In file included from ../include/ncbi.h:58:0, from asn2gnb1.c:43: asn2gnb1.c: In function 'DoImmediateFormat': ../include/ncbistd.h:286:22: warning: comparison between 'enum ' and 'enum ' [-Wenum-compare] #define MAX(a,b) ((a)>=(b)?(a):(b)) ^ asn2gnb1.c:6704:19: note: in expansion of macro 'MAX' max = (size_t) (MAX (ASN2GNBK_TOTAL_SOURCE, ASN2GNBK_TOTAL_FEATUR)); ^ asn2gnb1.c:6683:20: warning: variable 'is_www' set but not used [-Wunused-but-set-variable] Boolean is_www; ^ In file included from ../include/ncbi.h:58:0, from asn2gnb1.c:43: asn2gnb1.c: In function 'asn2gnbk_format': ../include/ncbistd.h:286:22: warning: comparison between 'enum ' and 'enum ' [-Wenum-compare] #define MAX(a,b) ((a)>=(b)?(a):(b)) ^ asn2gnb1.c:6825:19: note: in expansion of macro 'MAX' max = (size_t) (MAX (ASN2GNBK_TOTAL_SOURCE, ASN2GNBK_TOTAL_FEATUR)); ^ asn2gnb1.c: In function 'asn2gnbk_cleanup': asn2gnb1.c:6871:21: warning: variable 'iasp' set but not used [-Wunused-but-set-variable] IntAsn2gbSectPtr iasp; ^ asn2gnb1.c: In function 'SeqEntryToGnbk': asn2gnb1.c:7057:22: warning: variable 'userdata' set but not used [-Wunused-but-set-variable] Pointer userdata = NULL; ^ asn2gnb1.c:7052:22: warning: variable 'gbseq' set but not used [-Wunused-but-set-variable] GBSeqPtr gbseq = NULL; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from asn2gnb1.c:58: asn2gnb1.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF asn2gnb2.c asn2gnb2.c: In function 's_LocusAddSuffix': asn2gnb2.c:206:11: warning: variable 'ch' set but not used [-Wunused-but-set-variable] Char ch; ^ asn2gnb2.c: In function 'AddLocusBlock': asn2gnb2.c:1323:66: warning: suggest parentheses around '&&' within '||' [-Wparentheses] } else if ((moltype >= 2 && moltype <= 8) || moltype >= 10 && moltype <= 11) { ^ asn2gnb2.c: In function 'AddDblinkBlock': asn2gnb2.c:2756:22: warning: variable 'parentID' set but not used [-Wunused-but-set-variable] Int4 parentID; ^ asn2gnb2.c: In function 'GetRefsOnBioseq': asn2gnb2.c:5448:22: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ asn2gnb2.c:5445:22: warning: variable 'split' set but not used [-Wunused-but-set-variable] Boolean split; ^ asn2gnb2.c:5439:22: warning: variable 'right' set but not used [-Wunused-but-set-variable] Int4 right; ^ asn2gnb2.c:5433:22: warning: variable 'left' set but not used [-Wunused-but-set-variable] Int4 left; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from asn2gnb2.c:57: asn2gnb2.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF asn2gnb3.c asn2gnb3.c: In function 'GetStatusForRefTrack': asn2gnb3.c:601:22: warning: variable 'urf' set but not used [-Wunused-but-set-variable] UserFieldPtr ufp, urf = NULL; ^ asn2gnb3.c: In function 'GetSourcesOnBioseq': asn2gnb3.c:4151:22: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ asn2gnb3.c:4149:22: warning: variable 'start' set but not used [-Wunused-but-set-variable] Int4 start; ^ asn2gnb3.c:4148:22: warning: variable 'split' set but not used [-Wunused-but-set-variable] Boolean split; ^ asn2gnb3.c: In function 'GetFeatsOnCdsProduct': asn2gnb3.c:5007:22: warning: variable 'isRefSeq' set but not used [-Wunused-but-set-variable] Boolean isRefSeq; ^ asn2gnb3.c: In function 'GetRemoteFeatsOnCdsProduct': asn2gnb3.c:5155:20: warning: variable 'lastsfp' set but not used [-Wunused-but-set-variable] SeqFeatPtr lastsfp; ^ asn2gnb3.c:5154:20: warning: variable 'lastsap' set but not used [-Wunused-but-set-variable] SeqAnnotPtr lastsap; ^ asn2gnb3.c:5153:20: warning: variable 'lastright' set but not used [-Wunused-but-set-variable] Int4 lastright; ^ asn2gnb3.c:5152:20: warning: variable 'lastleft' set but not used [-Wunused-but-set-variable] Int4 lastleft; ^ asn2gnb3.c:5151:20: warning: variable 'isRefSeq' set but not used [-Wunused-but-set-variable] Boolean isRefSeq; ^ asn2gnb3.c: In function 'GetFeatsOnBioseq': asn2gnb3.c:5376:22: warning: variable 'start' set but not used [-Wunused-but-set-variable] Int4 start; ^ asn2gnb3.c:5349:22: warning: variable 'icp' set but not used [-Wunused-but-set-variable] IntCdsBlockPtr icp; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from asn2gnb3.c:57: asn2gnb3.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF asn2gnb4.c asn2gnb4.c: In function 'FormatFeatureBlockQuals': asn2gnb4.c:3591:50: warning: "/*" within comment [-Wcomment] StringChr (str + 1, '(') == NULL /* && StringChr (str, ',') != NULL */) { ^ asn2gnb4.c:2969:24: warning: variable 'split' set but not used [-Wunused-but-set-variable] Boolean split; ^ asn2gnb4.c:2910:24: warning: variable 'at_end' set but not used [-Wunused-but-set-variable] Boolean at_end = FALSE; ^ asn2gnb4.c: In function 'FF_asn2gb_www_featkey': asn2gnb4.c:5180:16: warning: variable 'prefix' set but not used [-Wunused-but-set-variable] CharPtr prefix = "?"; ^ asn2gnb4.c: In function 'FormatFeatureBlockEx': asn2gnb4.c:6354:22: warning: variable 'split' set but not used [-Wunused-but-set-variable] Boolean split; ^ In file included from ../include/ncbi.h:58:0, from asn2gnb4.c:42: asn2gnb4.c: In function 'DoImmediateRemoteFeatureFormat': ../include/ncbistd.h:286:22: warning: comparison between 'enum ' and 'enum ' [-Wenum-compare] #define MAX(a,b) ((a)>=(b)?(a):(b)) ^ asn2gnb4.c:8448:19: note: in expansion of macro 'MAX' max = (size_t) (MAX (ASN2GNBK_TOTAL_SOURCE, ASN2GNBK_TOTAL_FEATUR)); ^ asn2gnb4.c: In function 'FormatFeatureQuals': ../include/ncbistd.h:286:22: warning: comparison between 'enum ' and 'enum ' [-Wenum-compare] #define MAX(a,b) ((a)>=(b)?(a):(b)) ^ asn2gnb4.c:8521:19: note: in expansion of macro 'MAX' max = (size_t) (MAX (ASN2GNBK_TOTAL_SOURCE, ASN2GNBK_TOTAL_FEATUR)); ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from asn2gnb4.c:57: asn2gnb4.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ asn2gnb4.c: In function 'FormatFeatureBlockEx': asn2gnb4.c:7398:24: warning: 'sep' may be used uninitialized in this function [-Wmaybe-uninitialized] oldscope = SeqEntrySetScope (sep); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF asn2gnb5.c asn2gnb5.c: In function 'FormatCitBookArt': asn2gnb5.c:1874:16: warning: variable 'vnp' set but not used [-Wunused-but-set-variable] ValNodePtr vnp; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from asn2gnb5.c:57: asn2gnb5.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF asn2gnb6.c asn2gnb6.c: In function 'FlatLocElement': asn2gnb6.c:2386:27: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if (sintp->to > 0 && ^ asn2gnb6.c: In function 'FormatContigBlock': asn2gnb6.c:5401:20: warning: variable 'dspnext' set but not used [-Wunused-but-set-variable] DeltaSeqPtr dspnext; ^ asn2gnb6.c: In function 'FormatSequenceBlock': asn2gnb6.c:5855:21: warning: variable 'iasp' set but not used [-Wunused-but-set-variable] IntAsn2gbSectPtr iasp; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from asn2gnb6.c:57: asn2gnb6.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ftusrstr.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF gbfeat.c gbfeat.c: In function 'CkLabelType': gbfeat.c:1529:33: warning: suggest parentheses around '&&' within '||' [-Wparentheses] for (str = bptr; *str != '\0' && IS_ALPHA(*str) || IS_DIGIT(*str) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF gbftglob.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF gbparint.c gbparint.c: In function 'Nlm_gbparselex': gbparint.c:2128:24: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (*current_col != '\0') ^ gbparint.c: In function 'Nlm_gbparselex_ver': gbparint.c:2514:24: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (*current_col != '\0') ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF utilpars.c utilpars.c:112:39: warning: missing braces around initializer [-Wmissing-braces] ParFlat_AA_array[ParFlat_TOTAL_AA] = { ^ utilpars.c:112:39: note: (near initialization for 'ParFlat_AA_array') gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF utilpub.c utilpub.c: In function 'FindCit': utilpub.c:998:24: warning: variable 'ifp' set but not used [-Wunused-but-set-variable] ImpFeatPtr /*UNUSED*/ifp; ^ utilpub.c: In function 'ChangeCitQual': utilpub.c:1053:53: warning: variable 'pub' set but not used [-Wunused-but-set-variable] ValNodePtr vnp, pubset = NULL, pub_min, /*UNUSED*/pub; ^ utilpub.c:1052:34: warning: variable 'descr' set but not used [-Wunused-but-set-variable] ValNodePtr PNTR vnpp, /*UNUSED*/descr; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ffprint.c ffprint.c: In function 'FFBSPrint': ffprint.c:347:19: warning: unused variable 'byte_sp' [-Wunused-variable] ByteStorePtr byte_sp = NULL; ^ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from ffprint.c:127: ffprint.c: At top level: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ ffprint.c:420:16: warning: 'ff_print_insert' defined but not used [-Wunused-function] static CharPtr ff_print_insert(CharPtr str, CharPtr ins) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF wprint.c wprint.c: In function 'LocPrintGenome': wprint.c:1696:14: warning: unused variable 'sep' [-Wunused-variable] SeqEntryPtr sep = NULL; ^ wprint.c:1695:25: warning: unused variable 'b' [-Wunused-variable] BioseqPtr bsp = NULL, b = NULL; ^ wprint.c:1695:13: warning: unused variable 'bsp' [-Wunused-variable] BioseqPtr bsp = NULL, b = NULL; ^ wprint.c:1692:34: warning: unused variable 'temp' [-Wunused-variable] static Char buf[14], val[166], temp[166]; ^ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from wprint.c:51: wprint.c: At top level: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ wprint.c:77:13: warning: 'link_pir' defined but not used [-Wunused-variable] static Char link_pir[MAX_WWWBUF]; ^ wprint.c:79:13: warning: 'link_gdb_map' defined but not used [-Wunused-variable] static Char link_gdb_map[MAX_WWWBUF]; ^ In file included from ../include/ncbi.h:62:0, from wprint.c:46: wprint.c: In function 'www_xref': ../include/ncbistr.h:331:19: warning: 'prefix' may be used uninitialized in this function [-Wmaybe-uninitialized] #define StringLen Nlm_StringLen ^ wprint.c:1358:19: note: 'prefix' was declared here CharPtr s, link, prefix, ss; ^ In file included from ../include/ncbi.h:62:0, from wprint.c:46: ../include/ncbistr.h:331:19: warning: 'link' may be used uninitialized in this function [-Wmaybe-uninitialized] #define StringLen Nlm_StringLen ^ wprint.c:1358:13: note: 'link' was declared here CharPtr s, link, prefix, ss; ^ wprint.c: In function 'PrintSPBlock': wprint.c:1570:6: warning: 's' may be used uninitialized in this function [-Wmaybe-uninitialized] AddLink(s); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF satutil.c satutil.c: In function 'CopyFeatureFromAlign': satutil.c:1011:10: warning: variable 'check_gap' set but not used [-Wunused-but-set-variable] Boolean check_gap; ^ satutil.c: At top level: satutil.c:168:16: warning: 'bk_map_one_location' defined but not used [-Wunused-function] static Boolean bk_map_one_location(SeqLocPtr source_loc, SeqAlignPtr align, SeqIdPtr target_sip, Boolean check_gap, Int4Ptr r_start, Int4Ptr r_stop, SeqLocPtr PNTR head_slp) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF seqmgr.c seqmgr.c: In function 'SeqEntrySetScope': seqmgr.c:313:13: warning: variable 'found' set but not used [-Wunused-but-set-variable] Boolean found; ^ seqmgr.c: In function 'ClearBioseqFindCache': seqmgr.c:899:14: warning: variable 'smp' set but not used [-Wunused-but-set-variable] SeqMgrPtr smp; ^ seqmgr.c: In function 'SeqMgrGetExtraDataForOmdp': seqmgr.c:3736:14: warning: variable 'omp' set but not used [-Wunused-but-set-variable] ObjMgrPtr omp; ^ seqmgr.c: In function 'CheckForTransSplice': seqmgr.c:5644:14: warning: variable 'prev' set but not used [-Wunused-but-set-variable] SeqLocPtr prev, tmp; ^ seqmgr.c: In function 'SeqEntryAsnOut': seqmgr.c:11692:41: warning: variable 'aopp_desc' set but not used [-Wunused-but-set-variable] AsnOptionPtr aopp_feat = NULL, aopp_desc = NULL; ^ seqmgr.c:11692:23: warning: variable 'aopp_feat' set but not used [-Wunused-but-set-variable] AsnOptionPtr aopp_feat = NULL, aopp_desc = NULL; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from seqmgr.c:65: seqmgr.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ seqmgr.c: In function 'SeqMgrGetNextDescriptor': seqmgr.c:9580:71: warning: 'bssp' may be used uninitialized in this function [-Wmaybe-uninitialized] } else if (omdp->datatype == OBJ_BIOSEQSET && bssp != NULL && bssp->seqentry != NULL) { ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objmgr.c objmgr.c: In function 'ObjMgrSelectFunc2': objmgr.c:4031:22: warning: variable 'retval' set but not used [-Wunused-but-set-variable] Boolean retval = FALSE; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF gather.c gather.c: In function 'AttachDataProc': gather.c:4825:30: warning: variable 'into_seqentry' set but not used [-Wunused-but-set-variable] Boolean no_good = FALSE, into_seqentry = FALSE; ^ gather.c: In function 'GatherSeqFeat': gather.c:1583:46: warning: 'newid' may be used uninitialized in this function [-Wmaybe-uninitialized] tslp = SeqLocReMap(newid, slp, trp->anticodon, ^ gather.c:1530:86: warning: 'max_interval' may be used uninitialized in this function [-Wmaybe-uninitialized] lrdp = (GatherRangePtr)MemNew((size_t)((max_interval + 20) * sizeof(GatherRange))); ^ gather.c:1583:46: warning: 'offset' may be used uninitialized in this function [-Wmaybe-uninitialized] tslp = SeqLocReMap(newid, slp, trp->anticodon, ^ In file included from ../include/ncbi.h:59:0, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/gather.h:166, from gather.c:44: ../include/ncbimem.h:232:23: warning: 'lrdp' may be used uninitialized in this function [-Wmaybe-uninitialized] #define MemFree Nlm_MemFree ^ gather.c:1404:38: note: 'lrdp' was declared here GatherRangePtr rdp = NULL, trdp, lrdp; ^ gather.c: In function 'gather_align_data': gather.c:2468:58: warning: 'master_loc' may be used uninitialized in this function [-Wmaybe-uninitialized] stop = inverse ? SeqLocLen(master_loc) * mag_val : SeqLocLen(master_loc)/mag_val; ^ gather.c:2466:73: warning: 'mag_val' may be used uninitialized in this function [-Wmaybe-uninitialized] stop = inverse ? (len /mag_val) : (len * mag_val); ^ gather.c: In function 'GatherBioseqFunc': gather.c:3305:53: warning: 'tlen' may be used uninitialized in this function [-Wmaybe-uninitialized] rdp->right = offset + tlen - 1; ^ gather.c:3296:40: warning: 'trunc_r' may be used uninitialized in this function [-Wmaybe-uninitialized] if (trunc_r) ^ gather.c:3291:39: warning: 'trunc_l' may be used uninitialized in this function [-Wmaybe-uninitialized] if (trunc_l) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF accmmdbs.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF acccn3ds.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF lsqfetch.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF findrepl.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF codon.c codon.c: In function 'make_cds_paragraph': codon.c:262:7: warning: variable 'space_len' set but not used [-Wunused-but-set-variable] Int4 space_len, i; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF jzcoll.c jzcoll.c: In function 'load_default_matrix': jzcoll.c:99:6: warning: array subscript has type 'char' [-Wchar-subscripts] ss[pchars[i]][pchars[j]] = webb_blosum62[i][j]; ^ jzcoll.c:99:17: warning: array subscript has type 'char' [-Wchar-subscripts] ss[pchars[i]][pchars[j]] = webb_blosum62[i][j]; ^ jzcoll.c:101:5: warning: array subscript has type 'char' [-Wchar-subscripts] ss[pchars[i]]['*'] = ss['*'][pchars[i]] = -4; ^ jzcoll.c:101:31: warning: array subscript has type 'char' [-Wchar-subscripts] ss[pchars[i]]['*'] = ss['*'][pchars[i]] = -4; ^ jzcoll.c: In function 'GetUseThisGi': jzcoll.c:143:10: warning: unused variable 'retval' [-Wunused-variable] Boolean retval=FALSE; ^ jzcoll.c: In function 'buffer_for_feature': jzcoll.c:514:7: warning: unused variable 'i' [-Wunused-variable] Int2 i=0; ^ jzcoll.c: In function 'ProcessTextInsertion': jzcoll.c:878:7: warning: variable 'last_ins' set but not used [-Wunused-but-set-variable] Int4 last_ins; ^ jzcoll.c: In function 'satcollfunc': jzcoll.c:1723:12: warning: variable 'head' set but not used [-Wunused-but-set-variable] SeqLocPtr head; ^ jzcoll.c:1721:8: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ jzcoll.c:1720:7: warning: variable 'current_pos' set but not used [-Wunused-but-set-variable] Int4 current_pos; ^ jzcoll.c:1714:12: warning: unused variable 'slp' [-Wunused-variable] SeqLocPtr slp = NULL; ^ jzcoll.c: In function 'collect_anpnode_with_option': jzcoll.c:3053:13: warning: unused variable 'prev' [-Wunused-variable] ValNodePtr prev = NULL; ^ jzcoll.c: In function 'ck_seqfeat_extra': jzcoll.c:3414:10: warning: unused variable 'has_gb' [-Wunused-variable] Boolean has_gb = FALSE, has_med = FALSE; ^ jzcoll.c: In function 'load_open_close_sts_mark': jzcoll.c:4010:10: warning: variable 'collected' set but not used [-Wunused-but-set-variable] Boolean collected = FALSE; ^ jzcoll.c: In function 'FeatNodeCompProc': jzcoll.c:4225:20: warning: variable 'gr2' set but not used [-Wunused-but-set-variable] GatherRange gr1, gr2; ^ jzcoll.c:4225:15: warning: variable 'gr1' set but not used [-Wunused-but-set-variable] GatherRange gr1, gr2; ^ jzcoll.c: At top level: jzcoll.c:1654:16: warning: 'collect_sequence_label' defined but not used [-Wunused-function] static Boolean collect_sequence_label(Uint1 format) ^ jzcoll.c:2316:16: warning: 'stop_collecting_alignment' defined but not used [-Wunused-function] static Boolean stop_collecting_alignment(ValNodePtr anp_list, Int4 max_num) ^ jzcoll.c: In function 'load_text': jzcoll.c:421:39: warning: 'smtp' may be used uninitialized in this function [-Wmaybe-uninitialized] stdaa_res = SeqMapTableConvert(smtp, m_res); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF jzmisc.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF maputil.c maputil.c: In function 'load_gene_list': maputil.c:690:8: warning: variable 'val' set but not used [-Wunused-but-set-variable] Uint1 val; ^ maputil.c: In function 'gmarkfunc': maputil.c:985:13: warning: variable 'syn' set but not used [-Wunused-but-set-variable] ValNodePtr syn = NULL; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF mconsist.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF macroapi.c macroapi.c: In function 'AdvancedStringCompare': macroapi.c:4416:23: warning: variable 'init_target_match_len' set but not used [-Wunused-but-set-variable] Int4 len1, len2, init_target_match_len = 0, target_match_len = 0; ^ macroapi.c: In function 'RemoveGBQualMatch': macroapi.c:6919:27: warning: variable 'does_match' set but not used [-Wunused-but-set-variable] Boolean rval = FALSE, does_match, do_remove; ^ macroapi.c: In function 'SetNameInPrimerList': macroapi.c:10517:21: warning: variable 'prev_pp' set but not used [-Wunused-but-set-variable] PCRPrimerPtr pp, prev_pp = NULL; ^ macroapi.c: In function 'SetSeqInPrimerList': macroapi.c:10538:21: warning: variable 'prev_pp' set but not used [-Wunused-but-set-variable] PCRPrimerPtr pp, prev_pp = NULL; ^ macroapi.c: In function 'GetCitListsForSeqEntry': macroapi.c:15443:19: warning: variable 'entityID' set but not used [-Wunused-but-set-variable] Uint2 entityID; ^ macroapi.c:15441:19: warning: variable 'okay' set but not used [-Wunused-but-set-variable] Boolean okay; ^ macroapi.c: In function 'GetPubMLStatus': macroapi.c:17914:14: warning: variable 'csp' set but not used [-Wunused-but-set-variable] CitSubPtr csp; ^ macroapi.c: In function 'ApplyPartial5SetActionToSeqFeat': macroapi.c:24814:16: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ macroapi.c: In function 'ApplyPartial3SetActionToSeqFeat': macroapi.c:24937:16: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ macroapi.c: In function 'ApplyPartialBothSetActionToSeqFeat': macroapi.c:25004:16: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ macroapi.c: In function 'FindPosBeforeFeat': macroapi.c:25301:15: warning: variable 'regulator' set but not used [-Wunused-but-set-variable] SeqFeatPtr regulator = NULL, candidate; ^ macroapi.c: In function 'PerformAutofixInSeqEntry': macroapi.c:28058:8: warning: unused variable 'num_created' [-Wunused-variable] Int4 num_created = 0; ^ macroapi.c: In function 'AddFileDescriptors': macroapi.c:28453:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (sdp = SeqDescAsnRead (aip, NULL)) { ^ macroapi.c: In function 'PreprocessAddDescriptorListMacro': macroapi.c:30069:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (sdp = SeqDescAsnRead (aip, NULL)) { ^ macroapi.c: In function 'SummarizeRemoveOutsideAction': macroapi.c:30940:11: warning: unused variable 'case_insensitive' [-Wunused-variable] CharPtr case_insensitive = " (case insensitive)"; ^ macroapi.c: In function 'GetObjectTableForTabTable': macroapi.c:35366:63: warning: variable 'last' set but not used [-Wunused-but-set-variable] ValNodePtr obj_table = NULL, obj_row, last_obj = NULL, tmp, last = NULL; ^ macroapi.c: In function 'CheckObjTableForExistingText': macroapi.c:35930:14: warning: variable 'entityID' set but not used [-Wunused-but-set-variable] Uint2 entityID; ^ macroapi.c: In function 'FixSuspectProductNamesInEntrezGene': macroapi.c:38178:18: warning: variable 'prefix' set but not used [-Wunused-but-set-variable] CharPtr prefix = NULL; ^ macroapi.c: At top level: macroapi.c:1189:16: warning: 'IsObjectAppropriateForFieldPair' defined but not used [-Wunused-function] static Boolean IsObjectAppropriateForFieldPair (Uint1 choice, Pointer data, FieldPairTypePtr fieldpair) ^ macroapi.c:2760:13: warning: 'OriginFromOriginName' defined but not used [-Wunused-function] static Int4 OriginFromOriginName (CharPtr origin_name) ^ macroapi.c:4543:13: warning: 'TestAdvancedStringMatch' defined but not used [-Wunused-function] static void TestAdvancedStringMatch (void) ^ macroapi.c:5435:16: warning: 'DoesLocationMatchConstraint' defined but not used [-Wunused-function] static Boolean DoesLocationMatchConstraint (SeqLocPtr slp, LocationConstraintPtr lcp) ^ macroapi.c:10224:16: warning: 'HasMultiplePrimerSets' defined but not used [-Wunused-function] static Boolean HasMultiplePrimerSets (CharPtr value) ^ macroapi.c:15632:13: warning: 'InitBatchExtraForAECRActionAndObjectList' defined but not used [-Wunused-function] static void InitBatchExtraForAECRActionAndObjectList (BatchExtraPtr batch_extra, AECRActionPtr action, ValNodePtr object_list) ^ macroapi.c:35102:16: warning: 'IsFieldTypeProteinDesc' defined but not used [-Wunused-function] static Boolean IsFieldTypeProteinDesc (FieldTypePtr ft) ^ macroapi.c:20392:13: warning: 'GetFieldsFromAECR' defined but not used [-Wunused-function] static void GetFieldsFromAECR (AECRActionPtr act, FieldTypePtr PNTR pField, ValNodePtr PNTR pFieldPair) ^ macroapi.c:26150:13: warning: 'GetDescriptorTypeFromDescriptorChoice' defined but not used [-Wunused-function] static Int4 GetDescriptorTypeFromDescriptorChoice (Uint1 descriptor_choice) ^ macroapi.c: In function 'ReadNameListFromString': macroapi.c:13813:14: warning: 'ch_r1' may be used uninitialized in this function [-Wmaybe-uninitialized] *p_repl1 = ch_r1; ^ macroapi.c:13722:11: note: 'ch_r1' was declared here Char ch_r1, ch_r2, ch_r3; ^ macroapi.c: In function 'GetFeatureListForProteinBioseq': macroapi.c:34248:10: warning: 'sfp' may be used uninitialized in this function [-Wmaybe-uninitialized] if (sfp != NULL) ^ macroapi.c: In function 'ConvertToBond': macroapi.c:24176:7: warning: 'slp' may be used uninitialized in this function [-Wmaybe-uninitialized] bsp = GetBioseqGivenSeqLoc (slp, sfp->idx.entityID); ^ macroapi.c: In function 'ConvertToSite': macroapi.c:24223:7: warning: 'slp' may be used uninitialized in this function [-Wmaybe-uninitialized] bsp = GetBioseqGivenSeqLoc (slp, sfp->idx.entityID); ^ macroapi.c: In function 'SetAuthorListFromString': macroapi.c:14074:17: warning: 'vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] name_list = FreeNameList (1, vnp); ^ macroapi.c: In function 'CaptureRefBlockSerialNumbers': macroapi.c:15424:26: warning: 'ppr' may be used uninitialized in this function [-Wmaybe-uninitialized] vnp->data.ptrvalue = ppr; ^ macroapi.c: In function 'SetFieldValueForObjectEx': macroapi.c:13405:29: warning: 'ipp' may be used uninitialized in this function [-Wmaybe-uninitialized] new_ipp[i] = ipp[i]; ^ macroapi.c:13352:21: note: 'ipp' was declared here Int4Ptr ipp, new_ipp; ^ macroapi.c:13379:20: warning: 'cpp' may be used uninitialized in this function [-Wmaybe-uninitialized] cpp[i] = NULL; ^ macroapi.c:13350:21: note: 'cpp' was declared here CharPtr PNTR cpp; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF salpedit.c salpedit.c: In function 'SeqAlignInsert': salpedit.c:162:12: warning: variable 'ssp' set but not used [-Wunused-but-set-variable] StdSegPtr ssp; ^ salpedit.c:161:22: warning: variable 'ddp' set but not used [-Wunused-but-set-variable] DenseDiagPtr ddp; ^ salpedit.c: At top level: salpedit.c:158:20: warning: 'SeqAlignInsert' defined but not used [-Wunused-function] static SeqAlignPtr SeqAlignInsert(SeqIdPtr from_id, Int4 from, Int4 to, Uint1 strand, SeqIdPtr to_id, Int4 pos, SeqAlignPtr head, Boolean merge, Boolean add_insertion) ^ salpedit.c:254:16: warning: 'is_gap_segment' defined but not used [-Wunused-function] static Boolean is_gap_segment(Int4Ptr c_starts, Int2 dim) ^ salpedit.c:1169:20: warning: 'JZSeqAlignMerge' defined but not used [-Wunused-function] static SeqAlignPtr JZSeqAlignMerge(SeqAlignPtr f_align, SeqIdPtr from_id, Int4 from, Int4 to, Uint1 strand, SeqIdPtr to_id, Int4 pos, SeqAlignPtr t_align) ^ salpedit.c:1281:13: warning: 'attach_new_align' defined but not used [-Wunused-function] static void attach_new_align(SeqAlignPtr new_salp, SeqAlignPtr PNTR old) { ^ salpedit.c:1387:14: warning: 'has_too_much_overlap' defined but not used [-Wunused-function] static Uint1 has_too_much_overlap (Int4 start_1, Int4 stop_1, Int4 start_2, Int4 stop_2) ^ salpedit.c:1422:16: warning: 'convert_ddp_to_array' defined but not used [-Wunused-function] static Int4Ptr convert_ddp_to_array (ValNodePtr ddp_list, Uint1 strand, Int2 s_order, Int4Ptr p_num) ^ salpedit.c:1479:16: warning: 'filter_this_seg' defined but not used [-Wunused-function] static Boolean filter_this_seg (DenseDiagPtr curr, DenseDiagPtr PNTR h_list, Int2 order) ^ salpedit.c:1560:13: warning: 'filter_wrong_orientation' defined but not used [-Wunused-function] static void filter_wrong_orientation (SeqAlignPtr align, Boolean same_orient) ^ salpedit.c:1605:16: warning: 'is_overlap' defined but not used [-Wunused-function] static Boolean is_overlap(BoolPtr status, Int4 from, Int4 len) ^ salpedit.c:1665:16: warning: 'free_diag_in_list' defined but not used [-Wunused-function] static Boolean free_diag_in_list(ValNodePtr ddp_list, DenseDiagPtr ddp) ^ salpedit.c:2653:16: warning: 'FigureAlignRange' defined but not used [-Wunused-function] static Boolean FigureAlignRange(SeqAlignPtr align, SeqLocPtr m_loc, SeqLocPtr s_loc) ^ salpedit.c:2835:13: warning: 'SeqAnnotWrite' defined but not used [-Wunused-function] static void SeqAnnotWrite(SeqAlignPtr align) ^ salpedit.c:2939:20: warning: 'open_annot' defined but not used [-Wunused-function] static SeqAnnotPtr open_annot(CharPtr f_name) ^ salpedit.c:3836:13: warning: 'get_align_list_len' defined but not used [-Wunused-function] static Int4 get_align_list_len(SeqAlignPtr align) ^ salpedit.c:3850:13: warning: 'save_output' defined but not used [-Wunused-function] static void save_output (SeqIdPtr sip, CharPtr f_name, SeqAlignPtr align) ^ salpedit.c:3937:13: warning: 'reverse_seqloc' defined but not used [-Wunused-function] static void reverse_seqloc (SeqLocPtr s_loc) ^ salpedit.c:3968:18: warning: 'create_fake_bioseq' defined but not used [-Wunused-function] static BioseqPtr create_fake_bioseq(SeqLocPtr seq_loc, CharPtr fake_name) ^ salpedit.c:4016:18: warning: 'dup_mul_locs' defined but not used [-Wunused-function] static SeqLocPtr dup_mul_locs(SeqLocPtr slp) ^ salpedit.c:4046:16: warning: 'second_seq_has_gap' defined but not used [-Wunused-function] static Boolean second_seq_has_gap(BioseqPtr s_bsp) ^ salpedit.c:4073:17: warning: 'get_best_id' defined but not used [-Wunused-function] static SeqIdPtr get_best_id(BioseqPtr bsp) ^ salpedit.c:4120:18: warning: 'build_slp_for_gcontig' defined but not used [-Wunused-function] static SeqLocPtr build_slp_for_gcontig (BioseqPtr gcontig_bsp, SeqIdPtr gcontig_sip) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF salpstat.c salpstat.c: In function 'DenseSegStats': salpstat.c:310:10: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if(dsp && (((mmatches || mmismatches) && bsp_1 && bsp_2)) || !(mmatches || mmismatches)) { ^ salpstat.c: In function 'SeqAlignScoreFix': salpstat.c:162:20: warning: 'sp_last' may be used uninitialized in this function [-Wmaybe-uninitialized] sp_last->next = (ScorePtr) MemNew(sizeof(Score)); ^ salpstat.c: In function 'DenseSegStats': salpstat.c:382:7: warning: 'spp_2' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqPortFree(spp_2); ^ salpstat.c:381:7: warning: 'spp_1' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqPortFree(spp_1); ^ salpstat.c: In function 'SeqAlignWindowScoreFN': salpstat.c:2038:45: warning: 'score' may be used uninitialized in this function [-Wmaybe-uninitialized] residue_score[pos]=score; ^ salpstat.c:2020:34: warning: 'pos' may be used uninitialized in this function [-Wmaybe-uninitialized] qgaps_score[last_pos]=-(g_open+len*g_ext); ^ salpstat.c: In function 'SeqAlignWindowScore': salpstat.c:2214:12: warning: 'scoreptr' may be used uninitialized in this function [-Wmaybe-uninitialized] return scoreptr; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF salpacc.c salpacc.c: In function 'SeqAlignStrand': salpacc.c:334:20: warning: unused variable 'this_strand' [-Wunused-variable] Uint1Ptr this_strand=Seq_strand_unknown; ^ salpacc.c: In function 'SeqAlignStop': salpacc.c:561:13: warning: 'this_stop' may be used uninitialized in this function [-Wmaybe-uninitialized] if(this_stop!=-1) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF salprop.c salprop.c: In function 'CopySeqLocFromSeqAlign': salprop.c:291:12: warning: variable 'check_gap' set but not used [-Wunused-but-set-variable] Boolean check_gap; ^ salprop.c: In function 'FeatListToProp': salprop.c:1336:20: warning: variable 'feat_itemID' set but not used [-Wunused-but-set-variable] Uint4 feat_itemID; ^ In file included from salprop.c:42:0: salprop.c: At top level: ../include/salprop.h:50:16: warning: 'GBFeat' defined but not used [-Wunused-variable] static CharPtr GBFeat[number_GBFeat] = { ^ In file included from ../include/sqnutils.h:51:0, from salprop.c:46: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ salprop.c: In function 'ApplyNewSeqFeat': salprop.c:620:11: warning: 'stop' may be used uninitialized in this function [-Wmaybe-uninitialized] j = stop - SeqLocStop(sfp_location); ^ salprop.c:514:17: note: 'stop' was declared here stop, ^ salprop.c:674:17: warning: 'sfp' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqFeatPtr sfp; ^ salprop.c:733:24: warning: 'ppp.p5' may be used uninitialized in this function [-Wmaybe-uninitialized] if (!sfp_p5 && ppp.p5) ^ salprop.c:679:17: note: 'ppp.p5' was declared here ParTials ppp; ^ salprop.c:679:17: warning: 'ppp.p3' may be used uninitialized in this function [-Wmaybe-uninitialized] salprop.c:861:40: warning: 'entityID' may be used uninitialized in this function [-Wmaybe-uninitialized] if ((val2=is_id_unique (entityID, SeqLocId(sfp->product)))) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF salsap.c salsap.c: In function 'DenseDiagToDenseSegFunc': salsap.c:2912:30: warning: variable 'slpstop2' set but not used [-Wunused-but-set-variable] slpstop1 = 0, slpstop2 = 0; ^ salsap.c:2912:16: warning: variable 'slpstop1' set but not used [-Wunused-but-set-variable] slpstop1 = 0, slpstop2 = 0; ^ salsap.c:2911:31: warning: variable 'slpstart2' set but not used [-Wunused-but-set-variable] Int4 slpstart1 = 0, slpstart2 = 0, ^ salsap.c:2911:16: warning: variable 'slpstart1' set but not used [-Wunused-but-set-variable] Int4 slpstart1 = 0, slpstart2 = 0, ^ salsap.c:2909:28: warning: variable 'start2' set but not used [-Wunused-but-set-variable] Int4 start1 = 0, start2 = 0, ^ salsap.c:2909:16: warning: variable 'start1' set but not used [-Wunused-but-set-variable] Int4 start1 = 0, start2 = 0, ^ In file included from ../include/sqnutils.h:51:0, from salsap.c:47: salsap.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ salsap.c:2157:16: warning: 'AreDenseSegSegmentsValid' defined but not used [-Wunused-function] static Boolean AreDenseSegSegmentsValid (DenseSegPtr dsp, Int4 start, Int4 num) ^ salsap.c:3631:13: warning: 'FindSeqAlignCallback' defined but not used [-Wunused-function] static void FindSeqAlignCallback (SeqEntryPtr sep, Pointer mydata, ^ salsap.c: In function 'SeqAlignEndExtend': salsap.c:986:18: warning: 'n_strands' may be used uninitialized in this function [-Wmaybe-uninitialized] Uint1Ptr n_strands; ^ salsap.c: In function 'CleanStrandsSeqAlign': salsap.c:1614:15: warning: 'dim' may be used uninitialized in this function [-Wmaybe-uninitialized] Int2 dim; ^ salsap.c:1669:39: warning: 'numseg' may be used uninitialized in this function [-Wmaybe-uninitialized] for (j=0, k=numseg-1; jfeattype) == OBJ_BIOSEQ && (is_seqvisible(entityID, itemID, adp->seq_info)) ) ^ salstruc.c:872:19: note: 'entityID' was declared here Uint2 entityID; ^ salstruc.c:1093:44: warning: 'entityID' may be used uninitialized in this function [-Wmaybe-uninitialized] seq_info->entityID=entityID; ^ salstruc.c:1005:17: note: 'entityID' was declared here Uint2 entityID; ^ salstruc.c: In function 'ShowAlignmentText': salstruc.c:2194:19: warning: 'bspsip' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqIdPtr bspsip; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF salutil.c salutil.c: In function 'ReadBufferFromSap': salutil.c:128:24: warning: variable 'buffstart' set but not used [-Wunused-but-set-variable] Int4 bufflen, buffstart; ^ salutil.c:127:15: warning: variable 'sumstart' set but not used [-Wunused-but-set-variable] Int4 sumstart; ^ salutil.c: In function 'IS_protSeqLoc': salutil.c:594:11: warning: variable 'seq' set but not used [-Wunused-but-set-variable] CharPtr seq; ^ salutil.c: In function 'ReplaceSeqIdWithSeqId': salutil.c:1236:20: warning: variable 'oldscope' set but not used [-Wunused-but-set-variable] SeqEntryPtr oldscope; ^ salutil.c: In function 'del_ssp_fromid': salutil.c:1722:24: warning: variable 'pressp' set but not used [-Wunused-but-set-variable] SelEdStructPtr ssp, pressp = NULL; ^ salutil.c: In function 'checkCDSselect_forprotein': salutil.c:2510:12: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (feat != NULL) ^ salutil.c: In function 'NoMoreSegGapForOneAlignment': salutil.c:3647:8: warning: implicit declaration of function 'AlnMgr2IndexSingleChildSeqAlign' [-Wimplicit-function-declaration] AlnMgr2IndexSingleChildSeqAlign(salp); /* make sure it's dense-seg */ ^ In file included from ../include/sqnutils.h:51:0, from salutil.c:53: salutil.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ salutil.c: In function 'sesp_to_slp': salutil.c:1976:9: warning: 'j' may be used uninitialized in this function [-Wmaybe-uninitialized] for (k=1; knext; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF udvseq.c udvseq.c: In function 'UDV_EncodeIdxFeat': udvseq.c:448:2: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] return *((Int4Ptr) index_g); ^ udvseq.c: In function 'UDV_BigEncodeIdxFeat': udvseq.c:473:2: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] return *((Uint8Ptr) index_g); ^ udvseq.c: In function 'UDV_ParaGFTableFeatures': udvseq.c:947:22: warning: 'nFeatLines' may be used uninitialized in this function [-Wmaybe-uninitialized] pgp->nFeatLines=nFeatLines/*-decal*/; ^ udvseq.c:988:8: warning: 'PosFeat' may be used uninitialized in this function [-Wmaybe-uninitialized] UDV_BigEncodeIdxFeat ( context->itemID, ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blocks.c blocks.c: In function 'IndexBlocks': blocks.c:928:19: warning: operation on 'segp_align->to' may be undefined [-Wsequence-point] segp_align->to = segp_align->to = -1; ^ blocks.c: In function 'IndexNewBlocks': blocks.c:1084:19: warning: operation on 'segp_align->to' may be undefined [-Wsequence-point] segp_align->to = segp_align->to = -1; ^ blocks.c: In function 'GetBlockOrientation': blocks.c:2383:11: warning: 'orient' may be used uninitialized in this function [-Wmaybe-uninitialized] return orient; ^ blocks.c: In function 'SAMergeBlocks': blocks.c:2165:21: warning: 'tmp2' may be used uninitialized in this function [-Wmaybe-uninitialized] tmp2 = tmp2->next; ^ blocks.c:1572:28: warning: 'tmp_head' may be used uninitialized in this function [-Wmaybe-uninitialized] merged->segp_head = tmp_head; ^ blocks.c:1470:27: warning: 'tmp_curr' may be used uninitialized in this function [-Wmaybe-uninitialized] tmp1->prev = tmp_curr; ^ blocks.c:1709:27: warning: 'prev' may be used uninitialized in this function [-Wmaybe-uninitialized] tmp1->prev = prev; ^ blocks.c:1670:34: warning: 'new_sabp1' may be used uninitialized in this function [-Wmaybe-uninitialized] new_sabp1->segp_head = tmp_head; ^ blocks.c: In function 'SASplitBlock': blocks.c:2796:25: warning: 'segp2_prev' may be used uninitialized in this function [-Wmaybe-uninitialized] segp2->prev = segp2_prev; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF pgppop.c pgppop.c:307:2: warning: missing braces around initializer [-Wmissing-braces] { ^ pgppop.c:307:2: note: (near initialization for 'DDV_PaletteRGB') pgppop.c: In function 'DDV_WWW_get_CDS_minus': pgppop.c:578:9: warning: variable 'bGiForProductOk' set but not used [-Wunused-but-set-variable] Boolean bGiForProductOk=FALSE; ^ pgppop.c:576:5: warning: variable 'numivals2' set but not used [-Wunused-but-set-variable] numivals2=0; ^ pgppop.c: In function 'DDV_WWW_get_CDS_plus': pgppop.c:700:9: warning: variable 'bGiForProductOk' set but not used [-Wunused-but-set-variable] Boolean bGiForProductOk=FALSE; ^ pgppop.c: In function 'GetClrFromClrGlobal': pgppop.c:1326:4: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] if (*((Uint4Ptr)rgb1 )== *((Uint4Ptr)rgb2)){ ^ pgppop.c:1326:4: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] pgppop.c: In function 'DDV_DisplayTopScale': pgppop.c:1549:7: warning: unused variable 'szBlank' [-Wunused-variable] Char szBlank[TABLE_LEFT_MARGIN+5]={""}; ^ pgppop.c: In function 'DDV_GetBLASTCompLine_1': pgppop.c:1985:31: warning: array subscript has type 'char' [-Wchar-subscripts] if (matrix[s][q]>0){ ^ pgppop.c:1985:34: warning: array subscript has type 'char' [-Wchar-subscripts] if (matrix[s][q]>0){ ^ pgppop.c: In function 'DDV_DisplayDefaultAlign': pgppop.c:3417:13: warning: unused variable 'sabp' [-Wunused-variable] SABlockPtr sabp=NULL;/*indexed SeqAlign*/ ^ pgppop.c: In function 'DDV_ShowSeqAlign': pgppop.c:3760:10: warning: unused variable 'szPopSetAuth' [-Wunused-variable] Char szPopSetAuth[INFO_SIZE+1]={""}; ^ pgppop.c:3758:10: warning: unused variable 'szPopSetName' [-Wunused-variable] Char szPopSetName[INFO_SIZE+1]={""};/*article title of the Pop-Set*/ ^ pgppop.c: In function 'DDV_PrintPopSetSummary': pgppop.c:3931:9: warning: variable 'bPairwise' set but not used [-Wunused-but-set-variable] Boolean bPairwise=TRUE,bPrintTax,bPrintCom; ^ In file included from ../include/sqnutils.h:51:0, from pgppop.c:298: pgppop.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/asn2ff6.h:142:0, from pgppop.c:300: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from ../include/ddvcreate.h:143, from pgppop.c:303: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ pgppop.c:563:13: warning: 'DDV_WWW_get_CDS_minus' defined but not used [-Wunused-function] static void DDV_WWW_get_CDS_minus(SeqMgrFeatContextPtr context,Int4 start, ^ pgppop.c:2090:13: warning: 'DDV_HideMaskedLetters' defined but not used [-Wunused-function] static void DDV_HideMaskedLetters(CharPtr szSeqMaster,ParaGPtr pgp,ValNodePtr mask) ^ pgppop.c:2865:13: warning: 'DDV_GetGappedSequence' defined but not used [-Wunused-function] static void DDV_GetGappedSequence(SegmentPtr segp,CharPtr szSequence, ^ pgppop.c:2912:13: warning: 'DDV_PrintFastaGappedSequence' defined but not used [-Wunused-function] static void DDV_PrintFastaGappedSequence(CharPtr szSequence,FILE *fp) ^ pgppop.c: In function 'DDV_PopDisplay2': pgppop.c:1246:23: warning: 'pgp2' may be used uninitialized in this function [-Wmaybe-uninitialized] if (pgp2 && ((pgp2->StopLetter-pgp2->StartLetter+1)>=AbsLengthAli)) { ^ pgppop.c:1253:14: warning: 'vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] vnp->next=NULL; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF samutil.c samutil.c: In function 'DDE_FreeStack': samutil.c:1794:11: warning: operation on 'Index' may be undefined [-Wsequence-point] Index = ++Index % DDE_STACK_SIZE; ^ samutil.c: In function 'DDE_Add': samutil.c:1849:22: warning: operation on 'pStack->StackMin' may be undefined [-Wsequence-point] pStack->StackMin = ++pStack->StackMin % DDE_STACK_SIZE; ^ samutil.c:1860:22: warning: operation on 'pStack->StackIndex' may be undefined [-Wsequence-point] pStack->StackIndex = ++pStack->StackIndex % DDE_STACK_SIZE; ^ samutil.c: In function 'DDE_Prev': samutil.c:1924:22: warning: operation on 'pStack->StackIndex' may be undefined [-Wsequence-point] pStack->StackIndex = ++pStack->StackIndex % DDE_STACK_SIZE; ^ samutil.c: In function 'DDE_Next': samutil.c:1955:22: warning: operation on 'pStack->StackIndex' may be undefined [-Wsequence-point] pStack->StackIndex = ++pStack->StackIndex % DDE_STACK_SIZE; ^ samutil.c: In function 'DDE_ShowRow': samutil.c:2222:26: warning: variable 'NumRows' set but not used [-Wunused-but-set-variable] Int4 i, NumRows, HiRow, LowRow, tmp1, tmp2; ^ samutil.c: In function 'DDE_AddGapToEndOfAllRows': samutil.c:3344:41: warning: variable 'vnp' set but not used [-Wunused-but-set-variable] ValNodePtr ptxtList, last_vnp, vnp; ^ samutil.c: In function 'DDE_RightAddNode': samutil.c:3945:33: warning: variable 'new_vnp' set but not used [-Wunused-but-set-variable] ValNodePtr vnp, next_vnp, new_vnp; ^ samutil.c: In function 'DDE_LeftMergeAndAddNodeList': samutil.c:3995:24: warning: variable 'RetVal2' set but not used [-Wunused-but-set-variable] Boolean RetVal1, RetVal2, IsLeftAlignedGap, NodeDeleted; ^ samutil.c: In function 'DDE_RightMergeAndAddNodeList': samutil.c:4051:38: warning: variable 'RetVal2' set but not used [-Wunused-but-set-variable] Boolean RetVal=FALSE, RetVal1, RetVal2, HeadChanged; ^ samutil.c: In function 'DDE_ShiftRightBoundaryLeft1': samutil.c:4830:41: warning: variable 'Index' set but not used [-Wunused-but-set-variable] Int4 NumBlocks, i, NumRows, Index, BlockCount=0; ^ samutil.c: In function 'DDE_CreateArraysForDenseSeg': samutil.c:5266:22: warning: variable 'NumSegs' set but not used [-Wunused-but-set-variable] Int4 NumRows, NumSegs, i, StartIndex, StopIndex, ArrayIndex=0; ^ samutil.c: In function 'DDE_GetLastVNP': samutil.c:3381:9: warning: 'last_vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] return(last_vnp); ^ samutil.c: In function 'DDE_GetNumResidues': samutil.c:3404:13: warning: 'to' may be used uninitialized in this function [-Wmaybe-uninitialized] return((to-from) + 1); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ddvcolor.c ddvcolor.c: In function 'DDV_GetColor': ddvcolor.c:1422:10: warning: unused variable 'retval' [-Wunused-variable] Int4 retval = 0; ^ In file included from ../include/samutil.h:234:0, from ddvcolor.c:165: ddvcolor.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF viewmgr.c In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from viewmgr.c:167: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/sqnutils.h:51:0, from viewmgr.c:168: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ viewmgr.c:683:13: warning: 'ViewMgr_Swap' defined but not used [-Wunused-function] static void ViewMgr_Swap(SeqAlign *salp1, SeqAlign *salp2) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ddvcreate.c ddvcreate.c:290:2: warning: missing braces around initializer [-Wmissing-braces] { ^ ddvcreate.c:290:2: note: (near initialization for 'DDV_PaletteRGB') ddvcreate.c: In function 'DDV_CreateDisplayFromIndex_1': ddvcreate.c:493:10: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (more = AlnMgrGetNextAlnBit(mpplp->sap, amp)) ^ ddvcreate.c: In function 'DDV_CreateDisplayFromIndex_2': ddvcreate.c:529:21: warning: variable 'more' set but not used [-Wunused-but-set-variable] Boolean more; ^ ddvcreate.c: In function 'DDV_CreateDisplayFromIndex_EX2': ddvcreate.c:779:10: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (more = AlnMgrGetNextAlnBit(mpplp->sap, amp)) ^ ddvcreate.c:690:21: warning: variable 'last' set but not used [-Wunused-but-set-variable] Boolean last; ^ ddvcreate.c:686:21: warning: variable 'PopulateTo' set but not used [-Wunused-but-set-variable] Int4 PopulateTo; ^ ddvcreate.c: In function 'DDV_DisplayNewBLAST': ddvcreate.c:1942:16: warning: variable 'what' set but not used [-Wunused-but-set-variable] Uint1 what; ^ ddvcreate.c: In function 'UDV_BigEncodeIdxFeat4': ddvcreate.c:2878:2: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] return *((Uint8Ptr) index_g); ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from ../include/ddvcreate.h:143, from ddvcreate.c:245: ddvcreate.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/sqnutils.h:51:0, from ddvcreate.c:249: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ ddvcreate.c:525:16: warning: 'DDV_CreateDisplayFromIndex_2' defined but not used [-Wunused-function] static Boolean DDV_CreateDisplayFromIndex_2(SeqAlignPtr sap, MsaParaGPopListPtr mpplp, Int2 LineSize) ^ ddvcreate.c:2362:16: warning: 'DDV_DisplayBlastSAP' defined but not used [-Wunused-function] static Boolean DDV_DisplayBlastSAP(SeqAlignPtr sap, ValNodePtr mask, ^ ddvcreate.c: In function 'UAMgrIntUAMsg': ddvcreate.c:1141:11: warning: 'stop_middle' may be used uninitialized in this function [-Wmaybe-uninitialized] ubd->from=Start; ^ ddvcreate.c:1158:73: note: 'stop_middle' was declared here Int4 halfBspLengthSeqL,halfBspLengthSeqR,halfBspLengthDesc,start_middle,stop_middle; ^ ddvcreate.c:1195:4: warning: 'start_middle' may be used uninitialized in this function [-Wmaybe-uninitialized] UABitDescrInit(&uamp->ubd[0],0,start_middle-1,TRUE); ^ ddvcreate.c:1158:60: note: 'start_middle' was declared here Int4 halfBspLengthSeqL,halfBspLengthSeqR,halfBspLengthDesc,start_middle,stop_middle; ^ ddvcreate.c:1201:60: warning: 'halfBspLengthSeqR' may be used uninitialized in this function [-Wmaybe-uninitialized] UABitDescrInit(&uamp->ubd[1],halfBspLengthSeqL,MaxLength-halfBspLengthSeqR-1,TRUE); ^ ddvcreate.c:1158:24: note: 'halfBspLengthSeqR' was declared here Int4 halfBspLengthSeqL,halfBspLengthSeqR,halfBspLengthDesc,start_middle,stop_middle; ^ ddvcreate.c:1200:50: warning: 'halfBspLengthSeqL' may be used uninitialized in this function [-Wmaybe-uninitialized] UABitDescrInit(&uamp->ubd[0],BspStart,BspStart+halfBspLengthSeqL-1,FALSE); ^ ddvcreate.c:1158:6: note: 'halfBspLengthSeqL' was declared here Int4 halfBspLengthSeqL,halfBspLengthSeqR,halfBspLengthDesc,start_middle,stop_middle; ^ ddvcreate.c: In function 'DDV_PopulateDisplayForDisc': ddvcreate.c:1048:16: warning: 'vnp_para' may be used uninitialized in this function [-Wmaybe-uninitialized] vnp_list[n-1]=vnp_para; ^ ddvcreate.c: In function 'UABuildDescriptor2': ddvcreate.c:1541:13: warning: 'stopcopy' may be used uninitialized in this function [-Wmaybe-uninitialized] *TotLength+=(stopcopy-startcopy);/*to be used for the display coord. system*/ ^ ddvcreate.c: In function 'DDV_DumpSAPInAFile': ddvcreate.c:1798:2: warning: 'matrix' may be used uninitialized in this function [-Wmaybe-uninitialized] DDV_AffichageParaG(mpplp,0,0,mpplp->LengthAli-1,mpplp->LengthAli,0,option, ^ ddvcreate.c: In function 'DDV_ReadSeqBin': ddvcreate.c:2593:9: warning: 'btr' may be used uninitialized in this function [-Wmaybe-uninitialized] return btr; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF jsavlt.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF needleman.c needleman.c: In function 'NeedlemanWunschQuadraticByLoc': needleman.c:281:24: warning: variable 'bestDbPos' set but not used [-Wunused-but-set-variable] Int4 bestQueryPos, bestDbPos; /*position ending best score in ^ needleman.c:281:10: warning: variable 'bestQueryPos' set but not used [-Wunused-but-set-variable] Int4 bestQueryPos, bestDbPos; /*position ending best score in ^ needleman.c: In function 'FetchSequenceByLoc': needleman.c:243:12: warning: 'query' may be used uninitialized in this function [-Wmaybe-uninitialized] return query; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF txalign.c txalign.c: In function 'addLinkoutForDefline': txalign.c:706:13: warning: variable 'hasLinkout' set but not used [-Wunused-but-set-variable] Boolean hasLinkout=FALSE; ^ txalign.c: In function 'addLinkoutForBioseq': txalign.c:774:13: warning: variable 'hasLinkout' set but not used [-Wunused-but-set-variable] Boolean hasLinkout=FALSE; ^ txalign.c: In function 'load_align_sum_for_StdSeg': txalign.c:2748:13: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (bsp = BioseqLockById(SeqLocId(ssp->loc->next))) { ^ txalign.c: In function 'ShowAlignNodeText2Ex': txalign.c:3548:13: warning: variable 'is_end' set but not used [-Wunused-but-set-variable] Boolean is_end, strip_semicolon=TRUE; ^ txalign.c: In function 'Tx_PrintDefLine': txalign.c:4597:7: warning: unused variable 'seqid_length' [-Wunused-variable] Int4 seqid_length = 0, total_length = 0; ^ txalign.c: In function 'PrintDefLinesFromSeqAlignWithPath': txalign.c:5012:39: warning: suggest parentheses around '&&' within '||' [-Wparentheses] } else if (bestid != NULL && !(options & TXALIGN_NO_DUMPGNL) || (options & TXALIGN_NO_ENTREZ)) ^ txalign.c:5016:29: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (bsp = BioseqLockById(bestid)) { ^ txalign.c:4718:10: warning: unused variable 'ColumnDistance' [-Wunused-variable] Int2 ColumnDistance=2, extraSpace=0, extraSpace2=0, strLen=0, maxEvalWidth=5, maxNWidth=2; ^ txalign.c:4710:43: warning: unused variable 'sip_list' [-Wunused-variable] SeqIdPtr bestid, gi_list, subject_id, sip_list=NULL, last_id; ^ txalign.c:4706:17: warning: variable 'ptr_start' set but not used [-Wunused-but-set-variable] Char *ptr, *ptr_start, *eval_buff_ptr, *bit_score_buff_ptr; ^ txalign.c: In function 'FormatScoreFromSeqAlignEx': txalign.c:5335:25: warning: unused variable 't_adj' [-Wunused-variable] Int4 m_adj = 0, t_adj = 0; ^ txalign.c:5334:29: warning: unused variable 'last_t_to' [-Wunused-variable] Int4 last_m_to = 0, last_t_to = 0; ^ txalign.c: In function 'FSFPrintOneDefline': txalign.c:5443:14: warning: variable 'seqid_len' set but not used [-Wunused-but-set-variable] Int4 gi, seqid_len = 0; ^ txalign.c: In function 'FormatScoreFunc': txalign.c:5660:13: warning: variable 'allocated' set but not used [-Wunused-but-set-variable] Boolean allocated, first; ^ txalign.c: In function 'OOFShowSingleAlignment': txalign.c:6326:27: warning: array subscript has type 'char' [-Wchar-subscripts] else if(matrix[line1[line_index]][line2[line_index]] > 0) ^ txalign.c:6326:46: warning: array subscript has type 'char' [-Wchar-subscripts] else if(matrix[line1[line_index]][line2[line_index]] > 0) ^ txalign.c:6093:13: warning: variable 'lines' set but not used [-Wunused-but-set-variable] Int4 i, lines, k, shift_info = 0; ^ txalign.c: In function 'OOFDisplayTraceBack1': txalign.c:6581:33: warning: unused variable 'st' [-Wunused-variable] tmp[10] = " ", *st; ^ txalign.c:6581:9: warning: unused variable 'tmp' [-Wunused-variable] tmp[10] = " ", *st; ^ txalign.c: In function 'OOFDisplayTraceBack2': txalign.c:6655:33: warning: unused variable 'st' [-Wunused-variable] tmp[10] = " ", *st; ^ txalign.c: In function 'FDGetTaxNamesFromBioseq': txalign.c:6757:21: warning: variable 'bdsp' set but not used [-Wunused-but-set-variable] BlastDefLinePtr bdsp; ^ txalign.c: At top level: txalign.c:630:16: warning: 'getNameInitials' defined but not used [-Wunused-function] static CharPtr getNameInitials(CharPtr name){ ^ txalign.c:828:19: warning: 'ProcessTextInsertion' declared 'static' but never defined [-Wunused-function] static ValNodePtr ProcessTextInsertion PROTO((AlignNodePtr anp, Int4 m_left, Int4 m_right, BioseqPtr bsp, Int4 line_len, Int1 frame)); ^ txalign.c:2338:16: warning: 'has_hit_in_region' defined but not used [-Wunused-function] static Boolean has_hit_in_region(Uint1Ptr all_frame) ^ txalign.c:3433:1: warning: 'get_seq_id' defined but not used [-Wunused-function] get_seq_id(SeqAlignPtr sap, Int2 index) ^ In file included from ../include/ncbi.h:62:0, from ../include/maputil.h:113, from ../include/jzcoll.h:123, from ../include/txalign.h:228, from txalign.c:559: txalign.c: In function 'DrawTextToBuffer': ../include/ncbistr.h:331:19: warning: 'HTML_buffer' may be used uninitialized in this function [-Wmaybe-uninitialized] #define StringLen Nlm_StringLen ^ txalign.c:1612:10: note: 'HTML_buffer' was declared here CharPtr HTML_buffer; ^ txalign.c: In function 'OOFShowSingleAlignment.isra.9': txalign.c:6049:16: warning: 'dna_line_start' may be used uninitialized in this function [-Wmaybe-uninitialized] number = number/10; ^ txalign.c:6089:32: note: 'dna_line_start' was declared here Int4 dna_index, pro_index, dna_line_start, pro_line_start; ^ txalign.c:6049:16: warning: 'pro_line_start' may be used uninitialized in this function [-Wmaybe-uninitialized] number = number/10; ^ txalign.c:6089:48: note: 'pro_line_start' was declared here Int4 dna_index, pro_index, dna_line_start, pro_line_start; ^ txalign.c: In function 'find_score_in_align': txalign.c:2598:33: warning: 'smtp' may be used uninitialized in this function [-Wmaybe-uninitialized] stdaa_res = SeqMapTableConvert(smtp, t_res); ^ txalign.c:2498:20: note: 'smtp' was declared here SeqMapTablePtr smtp; ^ txalign.c:2463:13: warning: 't_spp' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqPortFree(t_spp); ^ txalign.c:2394:23: note: 't_spp' was declared here SeqPortPtr m_spp, t_spp; ^ txalign.c:2460:11: warning: 'm_spp' may be used uninitialized in this function [-Wmaybe-uninitialized] if(m_spp == NULL) ^ txalign.c:2394:16: note: 'm_spp' was declared here SeqPortPtr m_spp, t_spp; ^ txalign.c: In function 'ShowAlignNodeText2Ex': txalign.c:2284:25: warning: 'm_len' may be used uninitialized in this function [-Wmaybe-uninitialized] to = MIN(master_len-1, to + 3); ^ txalign.c:3543:10: note: 'm_len' was declared here Int4 m_len; /*length of the master sequence*/ ^ txalign.c: In function 'ShowTextAlignFromAnnot3': txalign.c:1467:12: warning: 'retval' may be used uninitialized in this function [-Wmaybe-uninitialized] return retval; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF fdlobj.c fdlobj.c: In function 'BlastDefLineSetAsnRead': fdlobj.c:69:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ fdlobj.c: In function 'BlastDefLineAsnRead': fdlobj.c:202:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF alignmgr2.c alignmgr2.c: In function 'AlnMgr2IndexSingleDenseSegSA': alignmgr2.c:875:13: warning: statement with no effect [-Wunused-value] for (j; jnumseg && next == -1; j++) ^ alignmgr2.c: In function 'AlnMgr2CopySeg': alignmgr2.c:2967:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (ldelta = ABS(s->beg - beg)) { ^ alignmgr2.c: In function 'AlnMgr2AddInNewPairwiseSA': alignmgr2.c:3204:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (a = AlnMgr2GetNextSeqPiece(a)) { ^ alignmgr2.c:3206:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (b = AlnMgr2GetNextLimitedSeqPiece(b, a)) { ^ alignmgr2.c:3216:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (A = AlnMgr2GetNextSeqPiece(A)) { ^ alignmgr2.c:3220:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (B = AlnMgr2GetNextLimitedSeqPiece(B, A)) {}; ^ alignmgr2.c: In function 'AlnMgr2SetUnaln': alignmgr2.c:5393:22: warning: variable 'dsp' set but not used [-Wunused-but-set-variable] DenseSegPtr dsp; ^ alignmgr2.c: In function 'AlnMgr2PrintSeqAlign': alignmgr2.c:5606:10: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (more = AlnMgr2GetNextAlnBit(sap, amp)) ^ alignmgr2.c: In function 'AlnMgr2GetNextAlnBit': alignmgr2.c:5702:21: warning: variable 'found' set but not used [-Wunused-but-set-variable] Boolean found; ^ alignmgr2.c: In function 'AlnMgr2GetUnalignedInfo': alignmgr2.c:6068:22: warning: variable 'saip' set but not used [-Wunused-but-set-variable] SAIndex2Ptr saip; ^ alignmgr2.c: In function 'AlnMgr2GetInterruptInfo': alignmgr2.c:6314:7: warning: statement with no effect [-Wunused-value] for (i; isegnum; i++) ^ alignmgr2.c: In function 'AlnMgr2ComputeScoreForSeqAlign': alignmgr2.c:8324:17: warning: variable 'numseqs' set but not used [-Wunused-but-set-variable] Int4 numseqs; ^ alignmgr2.c:8322:17: warning: variable 'mismatch' set but not used [-Wunused-but-set-variable] Int4 mismatch; ^ alignmgr2.c:8321:17: warning: variable 'len' set but not used [-Wunused-but-set-variable] Int4 len; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from alignmgr2.c:232: alignmgr2.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ alignmgr2.c:2123:13: warning: 'AlnMgr2SortVerticesByNumEdges' defined but not used [-Wunused-function] static void AlnMgr2SortVerticesByNumEdges(AMVertexPtr PNTR vertexarray, Int4 numvertices) ^ alignmgr2.c:2351:18: warning: 'AlnMgr2GetEdgeList' defined but not used [-Wunused-function] static AMEdgePtr AlnMgr2GetEdgeList(Int4 vertexnum, AMEdgePtr edge_head, AMEdgePtr already_used) ^ alignmgr2.c:3540:13: warning: 'AlnMgr2AddInNewSA' defined but not used [-Wunused-function] static void AlnMgr2AddInNewSA(SeqAlignPtr parent, SeqAlignPtr sap) ^ alignmgr2.c:1051:13: warning: 'AlnMgr2UnpackSeqAlignChain' defined but not used [-Wunused-function] static void AlnMgr2UnpackSeqAlignChain(SeqAlignPtr sap) ^ alignmgr2.c: In function 'AlnMgr2GetLongestSeqLoc': alignmgr2.c:10114:15: warning: 'slp_longest' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqLocPtr slp_longest; ^ alignmgr2.c: In function 'AlnMgr2IndexLite': alignmgr2.c:991:33: warning: 'sap_segs_prev' may be used uninitialized in this function [-Wmaybe-uninitialized] sap_segs_prev->next = (SeqAlignPtr)(sap_segs->segs); ^ alignmgr2.c:958:17: note: 'sap_segs_prev' was declared here SeqAlignPtr sap_segs_prev; ^ alignmgr2.c: In function 'AlnMgr2GetUnalignedInfo': alignmgr2.c:6105:54: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] *from = dsp->starts[dsp->dim*i+row-1]+dsp->lens[i]; ^ alignmgr2.c: In function 'AlnMgr2GetMaxUnalignedLength': alignmgr2.c:7031:22: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] SAIndex2Ptr saip; ^ alignmgr2.c:7060:19: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] for (i=0; idim; i++) ^ alignmgr2.c: In function 'AlnMgr2GetInterruptInfo': alignmgr2.c:6336:16: warning: 'iip' may be used uninitialized in this function [-Wmaybe-uninitialized] iip->strand = strand; ^ alignmgr2.c:6165:19: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] trans = saip->srdp[saip->anchor-1]->sect; ^ alignmgr2.c:6320:48: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] iip->starts[k] = dsp->starts[dsp->dim*i + interrupt->row-1]; ^ alignmgr2.c: In function 'AlnMgr2GetNthSeqRangeInSA': alignmgr2.c:6461:15: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] srdp = saip->srdp[n-1]; ^ alignmgr2.c:6472:57: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] beg = dsp->starts[srdp->sect[srdp->numsect-1]*(dsp->dim) + n-1]; ^ alignmgr2.c: In function 'AlnMgr2GetNthRowSpanInSA': alignmgr2.c:6533:20: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] *start = saip->aligncoords[i]; ^ alignmgr2.c:6541:41: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] *stop = saip->aligncoords[i] + dsp->lens[srdp->sect[srdp->numsect-1]] - 1; ^ alignmgr2.c: In function 'AlnMgr2GetAlnLength': alignmgr2.c:6772:17: warning: 'salp' may be used uninitialized in this function [-Wmaybe-uninitialized] len += AlnMgr2GetMaxUnalignedLength(salp, i); ^ alignmgr2.c:6764:22: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] return (saip->aligncoords[saip->numseg-1]+dsp->lens[lastseg]); ^ alignmgr2.c:6771:20: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] len += dsp->lens[i]; ^ alignmgr2.c: In function 'AlnMgr2GetNextAlnBit': alignmgr2.c:6008:12: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] if (saip->anchor <= 0) ^ alignmgr2.c:6004:59: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] amp->from_row = dsp->starts[trans[start_sect]*dsp->dim+amp->row_num-1] + offset; ^ alignmgr2.c: In function 'AlnMgr2IsSAPDiscAli': alignmgr2.c:6796:12: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] if (saip->numunaln > 0) ^ alignmgr2.c: In function 'AlnMgr2GetNumAlnBlocks': alignmgr2.c:6819:12: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] if (saip->numunaln >= 0) ^ alignmgr2.c: In function 'AlnMgr2GetNthBlockRange': alignmgr2.c:6853:20: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] *start = saip->aligncoords[saip->unaln[n-1]+1]; ^ alignmgr2.c: In function 'AlnMgr2GetNthUnalignedForNthRow': alignmgr2.c:6872:22: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] SAIndex2Ptr saip; ^ alignmgr2.c:6919:65: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] *start = dsp->starts[(saip->srdp[row-1]->unaligned[i])*dsp->dim+row-1] + dsp->lens[(saip->srdp[row-1]->unaligned[i])]; ^ alignmgr2.c: In function 'AlnMgr2GetNextLengthBit': alignmgr2.c:7002:26: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] maxseg = saip->unaln[*seg]; ^ alignmgr2.c:6937:22: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] DenseSegPtr dsp; ^ alignmgr2.c: In function 'AlnMgr2GetNumSegsInRange': alignmgr2.c:7168:62: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] start = binary_search_on_uint4_list(aligncoords, from, dsp->numseg); ^ alignmgr2.c:7133:21: warning: 'aligncoords' may be used uninitialized in this function [-Wmaybe-uninitialized] Uint4Ptr aligncoords; ^ alignmgr2.c: In function 'AlnMgr2MapBioseqToSeqAlign': alignmgr2.c:7635:12: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] if (saip->anchor > 0) ^ alignmgr2.c:7573:21: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] DenseSegPtr dsp; ^ alignmgr2.c: In function 'AlnMgr2MapSeqAlignToBioseq': alignmgr2.c:7671:21: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] SAIndex2Ptr saip; ^ alignmgr2.c:7713:36: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] return (dsp->starts[sect*(dsp->dim)+row-1] + dsp->lens[sect] - 1 - offset); ^ alignmgr2.c: In function 'AlnMgr2GetSubAlign': alignmgr2.c:8022:12: warning: 'sap_real' may be used uninitialized in this function [-Wmaybe-uninitialized] salp = SeqAlignDup(sap_real); ^ alignmgr2.c: In function 'AlnMgr2FillInUnaligned': alignmgr2.c:9852:12: warning: 'offset' may be used uninitialized in this function [-Wmaybe-uninitialized] curr = curr + 1 + offset; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF alnread.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF acerdapi.c acerdapi.c: In function 'DoesSeqStringMatchBsp': acerdapi.c:201:30: warning: variable 'seq_len' set but not used [-Wunused-but-set-variable] Int4 ctr, pos = 0, i, len, seq_len; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from acerdapi.c:40: acerdapi.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF aceread.c aceread.c:134:12: warning: 's_IsGapChar' defined but not used [-Wunused-function] static int s_IsGapChar (char ch, char *gap_chars) ^ aceread.c:247:13: warning: 'AdjustGapInfoFor5Trim' defined but not used [-Wunused-function] static void AdjustGapInfoFor5Trim (TGapInfoPtr gap_info, int trim) ^ aceread.c:276:13: warning: 'AdjustGapInfoFor3Trim' defined but not used [-Wunused-function] static void AdjustGapInfoFor3Trim (TGapInfoPtr gap_info, int new_len) ^ aceread.c:3308:12: warning: 's_GetUngappedPosition' defined but not used [-Wunused-function] static int s_GetUngappedPosition (int gapped_pos, char *seq) ^ aceread.c: In function 's_ReadContig': aceread.c:1477:33: warning: 'linestring' may be used uninitialized in this function [-Wmaybe-uninitialized] if (linestring != NULL) free (linestring); ^ rm -f libncbiobj.a ar cru libncbiobj.a objacces.o objalign.o objall.o objbibli.o objfeat.o objgen.o objloc.o objmedli.o objpub.o objres.o objscoremat.o objseq.o objblock.o objcode.o objsset.o objsub.o objprt.o objfdef.o objalignloc.o objtable.o objpubme.o objmdrs.o objproj.o objgbseq.o objtseq.o objinsdseq.o objmacro.o objent2.o ent2api.o pmfapi.o objtax3.o tax3api.o objegkludge.o objentgene.o objmla2.o mla2api.o qblastapi.o vecscnapi.o objmim.o objvalid.o mimapi.o cddapi.o seqport.o sequtil.o prtutil.o simple.o tofasta.o tofile.o tomedlin.o valid.o valapi.o alignmgr.o aliparse.o aliread.o alignval.o sqnutil1.o sqnutil2.o sqnutil3.o sqnutil4.o subutil.o edutil.o asn2ff1.o asn2ff2.o asn2ff3.o asn2ff4.o asn2ff5.o asn2ff6.o asn2gnb1.o asn2gnb2.o asn2gnb3.o asn2gnb4.o asn2gnb5.o asn2gnb6.o ftusrstr.o gbfeat.o gbftglob.o gbparint.o utilpars.o utilpub.o ffprint.o wprint.o satutil.o seqmgr.o objmgr.o gather.o accmmdbs.o acccn3ds.o lsqfetch.o findrepl.o codon.o jzcoll.o jzmisc.o maputil.o mconsist.o macroapi.o salpedit.o salpstat.o salpacc.o salprop.o salsap.o salstruc.o salutil.o udvseq.o blocks.o pgppop.o samutil.o ddvcolor.o viewmgr.o ddvcreate.o jsavlt.o needleman.o txalign.o fdlobj.o alignmgr2.o alnread.o acerdapi.o aceread.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libncbiobj.a ../lib ranlib ../lib/libncbiobj.a gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF cdentrez.c cdentrez.c:1616:26: warning: 'FreePostingList' defined but not used [-Wunused-function] static ByteStorePtr NEAR FreePostingList (ByteStorePtr lst) ^ cdentrez.c:2935:23: warning: 'MedSumAsnRead' defined but not used [-Wunused-function] static DocSumPtr NEAR MedSumAsnRead (AsnIoPtr aip, DocUid uid) ^ cdentrez.c:283:23: warning: 'CdEntMlSumGet' declared 'static' but never defined [-Wunused-function] static DocSumPtr NEAR CdEntMlSumGet PROTO((Int4 uid)); ^ cdentrez.c:307:20: warning: 'BIOSEQ_id_E' defined but not used [-Wunused-variable] static AsnTypePtr BIOSEQ_id_E = NULL; ^ cdentrez.c:310:23: warning: 'CdEntSeqSumGet' declared 'static' but never defined [-Wunused-function] static DocSumPtr NEAR CdEntSeqSumGet PROTO((Int4 uid, DocType type)); ^ cdentrez.c: In function 'CdEntrezMergeTerm': cdentrez.c:2675:17: warning: 'total' may be used uninitialized in this function [-Wmaybe-uninitialized] *totl = total; ^ cdentrez.c:2672:17: warning: 'special' may be used uninitialized in this function [-Wmaybe-uninitialized] *spcl = special; ^ cdentrez.c:2640:5: warning: 'termpage' may be used uninitialized in this function [-Wmaybe-uninitialized] cd3_CdTermScan (db, fld, termpage, (Int4)0, ScanAndFreeProc); ^ cdentrez.c: In function 'CdLinkUidList': cdentrez.c:938:9: warning: 'count' may be used uninitialized in this function [-Wmaybe-uninitialized] return count; ^ cdentrez.c: In function 'CdTermListByTerm': cdentrez.c:1036:10: warning: 'first' may be used uninitialized in this function [-Wmaybe-uninitialized] rsult = cd3_CdTermScan(type,field,first,0,TermListTermScanProc); ^ cdentrez.c: In function 'CdEntTLAddTerm': cdentrez.c:1895:24: warning: 'total' may be used uninitialized in this function [-Wmaybe-uninitialized] if (scanOk && total > 0) { ^ cdentrez.c:1787:13: note: 'total' was declared here Int4 total; ^ cdentrez.c: In function 'CdEntrezFindTerm': cdentrez.c:1123:3: warning: 'ctp' may be used uninitialized in this function [-Wmaybe-uninitialized] CdTermFree(ctp); ^ cdentrez.c: In function 'CdEntMedlineEntryListGet': cdentrez.c:2720:6: warning: 'aip' may be used uninitialized in this function [-Wmaybe-uninitialized] cd3_CdDocAsnClose(aip); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF cdromlib.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF cdnewlib.c cdnewlib.c:600:27: warning: missing braces around initializer [-Wmissing-braces] struct CdFInfo _finfo[] = { ^ cdnewlib.c:600:27: note: (near initialization for '_finfo') cdnewlib.c:614:27: warning: missing braces around initializer [-Wmissing-braces] struct CdDirInfo _dir[] = { ^ cdnewlib.c:614:27: note: (near initialization for '_dir') cdnewlib.c: In function 'cd3_CdDocAsnOpen': cdnewlib.c:1342:12: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] return (AsnIo*) CatastrophicFailure(1); ^ cdnewlib.c:1327:9: warning: unused variable 'fdir' [-Wunused-variable] char *fdir = NULL; ^ cdnewlib.c: In function 'UidIndex_ReadPage': cdnewlib.c:1937:10: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] return (long*)CatastrophicFailure(1); ^ cdnewlib.c:1945:10: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] return (long*)CatastrophicFailure(1); ^ cdnewlib.c: In function 'CdDevice_Init': cdnewlib.c:2739:6: warning: variable 'cd_num' set but not used [-Wunused-but-set-variable] int cd_num; ^ cdnewlib.c: At top level: cdnewlib.c:3506:12: warning: 'Cache_Delete' defined but not used [-Wunused-function] static int Cache_Delete (Cache *cache, long id) ^ cdnewlib.c:3569:12: warning: 'Cache_Touch' defined but not used [-Wunused-function] static int Cache_Touch (Cache *cache, long id) ^ cdnewlib.c:3592:14: warning: 'Cache_Peek' defined but not used [-Wunused-function] static void* Cache_Peek (Cache *cache, long id) ^ cdnewlib.c:3605:13: warning: 'Cache_Purge' defined but not used [-Wunused-function] static void Cache_Purge (Cache *cache) ^ cdnewlib.c:582:15: warning: '_empty_string' defined but not used [-Wunused-variable] static char * _empty_string = ""; ^ cdnewlib.c:638:18: warning: '_div' defined but not used [-Wunused-variable] static DivInfo * _div; ^ cdnewlib.c: In function 'UnixFileGets': cdnewlib.c:1509:6: warning: 'ch' may be used uninitialized in this function [-Wmaybe-uninitialized] if (ch == '\0') { ^ cdnewlib.c: In function 'trmncmp': cdnewlib.c:2379:9: warning: 'c2' may be used uninitialized in this function [-Wmaybe-uninitialized] return (c1 - c2); ^ cdnewlib.c:2379:9: warning: 'c1' may be used uninitialized in this function [-Wmaybe-uninitialized] In file included from /usr/include/string.h:639:0, from ../include/ncbilcl.h:156, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objacces.h:64, from ../include/cdromlib.h:71, from cdnewlib.c:208: In function 'strncat', inlined from 'CdDevice_FileBuildPath.part.17' at cdnewlib.c:2679:5: /usr/include/x86_64-linux-gnu/bits/string3.h:156:10: warning: call to __builtin___strncat_chk might overflow destination buffer return __builtin___strncat_chk (__dest, __src, __len, __bos (__dest)); ^ In function 'strncat', inlined from 'CdDevice_Init' at cdnewlib.c:2751:3: /usr/include/x86_64-linux-gnu/bits/string3.h:156:10: warning: call to __builtin___strncat_chk might overflow destination buffer return __builtin___strncat_chk (__dest, __src, __len, __bos (__dest)); ^ In function 'strncat', inlined from 'CdDevice_Init' at cdnewlib.c:2769:6: /usr/include/x86_64-linux-gnu/bits/string3.h:156:10: warning: call to __builtin___strncat_chk might overflow destination buffer return __builtin___strncat_chk (__dest, __src, __len, __bos (__dest)); ^ cdnewlib.c: In function 'TrmIndex_Lookup': cdnewlib.c:2136:24: warning: 'd' may be used uninitialized in this function [-Wmaybe-uninitialized] int lo, hi, mid, len, d; ^ cdnewlib.c:2168:27: warning: 'term' may be used uninitialized in this function [-Wmaybe-uninitialized] if (d==0 && len == (int)strlen(term)) ^ cdnewlib.c:2136:14: warning: 'mid' may be used uninitialized in this function [-Wmaybe-uninitialized] int lo, hi, mid, len, d; ^ cdnewlib.c: In function 'UidIndex_Lookup': cdnewlib.c:1986:20: warning: 'p' may be used uninitialized in this function [-Wmaybe-uninitialized] page_num = (uid < *p && mid >0) ? mid-1 : mid; ^ cdnewlib.c:1986:42: warning: 'mid' may be used uninitialized in this function [-Wmaybe-uninitialized] page_num = (uid < *p && mid >0) ? mid-1 : mid; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF casn.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF cdconfig.c In file included from ../include/ncbi.h:58:0, from cdconfig.c:75: cdconfig.c: In function 'ChangeMedia': ../include/ncbistd.h:278:15: warning: statement with no effect [-Wunused-value] #define FALSE ((Nlm_Boolean)0) ^ ../include/ncbifile.h:169:76: note: in expansion of macro 'FALSE' #define EjectCd(sVolume, deviceName, rawDeviceName, mountPoint, mountCmd) FALSE ^ cdconfig.c:941:29: note: in expansion of macro 'EjectCd' EjectCd(toBeEjected->entrez_info->volume_label, ^ ../include/ncbistd.h:278:15: warning: statement with no effect [-Wunused-value] #define FALSE ((Nlm_Boolean)0) ^ ../include/ncbifile.h:170:76: note: in expansion of macro 'FALSE' #define MountCd(sVolume, deviceName, mountPoint, mountCmd) FALSE ^ cdconfig.c:960:17: note: in expansion of macro 'MountCd' MountCd(newMedia->entrez_info->volume_label, cdm->device_name, ^ cdconfig.c: At top level: cdconfig.c:191:17: warning: 'UnMarkLRUineligible' declared 'static' but never defined [-Wunused-function] static void UnMarkLRUineligible PROTO((void)); ^ cdconfig.c: In function 'EntrezInfoMerge': cdconfig.c:1141:23: warning: 'besttype' may be used uninitialized in this function [-Wmaybe-uninitialized] EntrezTypeDataPtr besttype; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objentr.c objentr.c: In function 'DocSumAsnRead': objentr.c:970:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objentr.c:969:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objentr.c: At top level: objentr.c:771:16: warning: 'EntrezLinkInfo_AsnWrite' defined but not used [-Wunused-function] static Boolean EntrezLinkInfo_AsnWrite (const EntrezLinkInfo *link, AsnIo *stream, AsnType *type) ^ objentr.c:806:23: warning: 'EntrezDivInfo_Destruct' defined but not used [-Wunused-function] static EntrezDivInfo* EntrezDivInfo_Destruct (EntrezDivInfo *div) ^ objentr.c: In function 'EntrezInfoAsnRead': objentr.c:818:5: warning: 'div' may be used uninitialized in this function [-Wmaybe-uninitialized] if (div == NULL) ^ objentr.c:241:17: note: 'div' was declared here EntrezDivInfo *div; ^ objentr.c:763:17: warning: 'link' may be used uninitialized in this function [-Wmaybe-uninitialized] link->datasize = (int) val.intvalue; ^ objentr.c:240:18: note: 'link' was declared here EntrezLinkInfo *link; ^ objentr.c:704:19: warning: 'fld' may be used uninitialized in this function [-Wmaybe-uninitialized] fld->post_type = (PostType) val.intvalue; ^ objentr.c:239:19: note: 'fld' was declared here EntrezFieldInfo *fld; ^ objentr.c:649:18: warning: 'tinf' may be used uninitialized in this function [-Wmaybe-uninitialized] tinf->asntype = (char*) val.ptrvalue; ^ objentr.c:238:18: note: 'tinf' was declared here EntrezTypeInfo *tinf; ^ objentr.c:856:14: warning: 'i' may be used uninitialized in this function [-Wmaybe-uninitialized] div->docs[i++] = val.intvalue; ^ objentr.c:824:7: note: 'i' was declared here int i; ^ rm -f libncbicdr.a ar cru libncbicdr.a cdentrez.o cdromlib.o cdnewlib.o casn.o cdconfig.o objentr.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libncbicdr.a ../lib ranlib ../lib/libncbicdr.a gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF vibbutns.c vibbutns.c: In function 'Nlm_CheckCallback': vibbutns.c:328:20: warning: variable 'c' set but not used [-Wunused-but-set-variable] Nlm_ControlTool c; ^ vibbutns.c: In function 'Nlm_RadioCallback': vibbutns.c:347:20: warning: variable 'c' set but not used [-Wunused-but-set-variable] Nlm_ControlTool c; ^ vibbutns.c: In function 'Nlm_SetButtonStatus': vibbutns.c:668:20: warning: variable 'val' set but not used [-Wunused-but-set-variable] Nlm_Int2 val; ^ vibbutns.c: In function 'Nlm_NewButton.constprop': vibbutns.c:1133:3: warning: 'call' may be used uninitialized in this function [-Wmaybe-uninitialized] XtAddCallback (c, call, Nlm_ButtonCallback, (XtPointer) b); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF vibextra.c vibextra.c: In function 'Nlm_RGB2HSL.constprop': vibextra.c:1219:13: warning: 'min' may be used uninitialized in this function [-Wmaybe-uninitialized] i++; if ( i > 2 ) i=0; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF vibfiles.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF vibforms.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF vibgroup.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF viblists.c viblists.c: In function 'Nlm_SetListPosition': viblists.c:1118:15: warning: variable 'is_realized' set but not used [-Wunused-but-set-variable] Nlm_Boolean is_realized; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF vibmenus.c vibmenus.c: In function 'Nlm_IsMenuItemChecked': vibmenus.c:563:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_CheckMenuItem': vibmenus.c:591:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_EnableMenuItem': vibmenus.c:1986:17: warning: variable 'itm' set but not used [-Wunused-but-set-variable] Nlm_Int2 itm; ^ vibmenus.c:1985:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_EnableChoice': vibmenus.c:2052:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_EnableChoiceGroup': vibmenus.c:2102:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_EnableChoiceItem': vibmenus.c:2146:17: warning: variable 'itm' set but not used [-Wunused-but-set-variable] Nlm_Int2 itm; ^ vibmenus.c:2144:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_DisableMenuItem': vibmenus.c:2309:17: warning: variable 'itm' set but not used [-Wunused-but-set-variable] Nlm_Int2 itm; ^ vibmenus.c:2308:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_DisableChoice': vibmenus.c:2375:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_DisableChoiceItem': vibmenus.c:2469:17: warning: variable 'itm' set but not used [-Wunused-but-set-variable] Nlm_Int2 itm; ^ vibmenus.c:2467:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_RemoveSubMenu': vibmenus.c:2607:20: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_CountMenuItems': vibmenus.c:3036:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_GetMenuItem': vibmenus.c:3219:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_GetPopListTitle': vibmenus.c:3329:18: warning: variable 'm' set but not used [-Wunused-but-set-variable] Nlm_MenU m; ^ vibmenus.c: In function 'Nlm_AppendItems': vibmenus.c:3948:17: warning: unused variable 'accel' [-Wunused-variable] Nlm_Char accel; ^ vibmenus.c: In function 'Nlm_NewPopupList': vibmenus.c:4939:19: warning: unused variable 'lbl' [-Wunused-variable] Widget lbl; ^ vibmenus.c:4937:19: warning: unused variable 'color' [-Wunused-variable] Pixel color; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF vibprmpt.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF vibsbars.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF vibslate.c vibslate.c: In function 'Nlm_EnableSlate': vibslate.c:1199:18: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_SlateTool h; ^ vibslate.c: In function 'Nlm_DisableSlate': vibslate.c:1254:18: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_SlateTool h; ^ vibslate.c: In function 'Nlm_SelectSlate': vibslate.c:1515:5: warning: missing sentinel in function call [-Wformat=] XtVaGetValues (h, XmNbackground, &color, 0); ^ vibslate.c:1517:5: warning: missing sentinel in function call [-Wformat=] XtVaGetValues (h, XmNforeground, &color, 0); ^ vibslate.c: In function 'Nlm_SelectPanel': vibslate.c:1544:3: warning: missing sentinel in function call [-Wformat=] XtVaGetValues (h, XmNbackground, &color, 0); ^ vibslate.c:1546:3: warning: missing sentinel in function call [-Wformat=] XtVaGetValues (h, XmNforeground, &color, 0); ^ vibslate.c: In function 'Nlm_SlateClick': vibslate.c:2026:20: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_SlateTool h; ^ vibslate.c: In function 'Nlm_SlateClickCallback': vibslate.c:2157:3: warning: missing sentinel in function call [-Wformat=] XtVaGetValues (w, XmNbackground, &color, 0); ^ vibslate.c:2159:3: warning: missing sentinel in function call [-Wformat=] XtVaGetValues (w, XmNforeground, &color, 0); ^ vibslate.c: In function 'Nlm_SlateInputCallback': vibslate.c:2313:7: warning: missing sentinel in function call [-Wformat=] XtVaGetValues(w, XmNbackground, &color, 0); ^ vibslate.c:2315:7: warning: missing sentinel in function call [-Wformat=] XtVaGetValues(w, XmNforeground, &color, 0); ^ vibslate.c: In function 'Nlm_SlateDrawCallback': vibslate.c:2359:3: warning: missing sentinel in function call [-Wformat=] XtVaGetValues (w, XmNbackground, &color, 0); ^ vibslate.c:2361:3: warning: missing sentinel in function call [-Wformat=] XtVaGetValues (w, XmNforeground, &color, 0); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF vibtexts.c vibtexts.c: In function 'Nlm_TextCallback': vibtexts.c:2982:24: warning: unused variable 'cbs' [-Wunused-variable] XmAnyCallbackStruct *cbs = (XmAnyCallbackStruct *)call_data; ^ vibtexts.c: In function 'Nlm_LoseFocusCallback': vibtexts.c:2999:25: warning: variable 'cbs' set but not used [-Wunused-but-set-variable] XmAnyCallbackStruct *cbs; ^ vibtexts.c: In function 'Nlm_TabCallback': vibtexts.c:3109:15: warning: variable 'event' set but not used [-Wunused-but-set-variable] XKeyEvent *event; ^ vibtexts.c: In function 'Nlm_HiddenReturnCallback': vibtexts.c:3122:15: warning: variable 'event' set but not used [-Wunused-but-set-variable] XKeyEvent *event; ^ vibtexts.c: In function 'Nlm_HiddenActivateCallback': vibtexts.c:3135:25: warning: variable 'cbs' set but not used [-Wunused-but-set-variable] XmAnyCallbackStruct *cbs; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF vibutils.c vibutils.c: In function 'Nlm_VibMessageHook': vibutils.c:776:13: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] percent = (Nlm_Int4)Nlm_GetAppProperty( "VibrantMessageWidthMax" ); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF vibwndws.c vibwndws.c: In function 'Nlm_SetColorMap': vibwndws.c:1060:13: warning: variable 'defaultdepth' set but not used [-Wunused-but-set-variable] int defaultdepth; ^ vibwndws.c: In function 'Nlm_SetWindowTitle': vibwndws.c:1567:19: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ vibwndws.c: In function 'Nlm_GetWindowTitle': vibwndws.c:1610:19: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ vibwndws.c: In function 'Nlm_NewWindow': vibwndws.c:2155:19: warning: variable 'screen_num' set but not used [-Wunused-but-set-variable] int screen_num; ^ vibwndws.c: In function 'Nlm_HideWindow': vibwndws.c:2526:19: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ vibwndws.c: In function 'Nlm_ShowNormal': vibwndws.c:2969:19: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ vibwndws.c: In function 'Nlm_ShowModal': vibwndws.c:3014:19: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ vibwndws.c: In function 'Nlm_ShowDocument': vibwndws.c:3060:19: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ vibwndws.c: In function 'Nlm_VibMainPrelude': vibwndws.c:6771:13: warning: unused variable 'retval' [-Wunused-variable] Nlm_Int2 retval; ^ vibwndws.c: In function 'Nlm_RemoveDyingWindows': vibwndws.c:6893:20: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF vibmain.c vibmain.c:121:1: warning: return type defaults to 'int' [-Wimplicit-int] main (int argc, char *argv[]) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbidraw.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF drawing.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF mapping.c mapping.c: In function 'Nlm_MapRectToWorldBox': mapping.c:139:8: warning: variable 'curScale' set but not used [-Wunused-but-set-variable] Int4 curScale; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF picture.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF viewer.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF document.c document.c: In function 'Nlm_PrintDocument': document.c:4413:7: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ document.c:4417:7: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF table.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF palette.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF diagnost.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF image.c image.c: In function 'ShiftXMask': image.c:840:26: warning: suggest parentheses around '+' inside '>>' [-Wparentheses] if(!((mask >> hi + low) & (unsigned long)1)) break; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF pictur3d.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF prim3d1.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF prim3d2.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF prim3d3.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF prim3d4.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF prim3d5.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF viewer3d.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF vibmouse.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF netscape.c netscape.c: In function 'NS_Obtain_lock': netscape.c:236:10: warning: variable 'waited' set but not used [-Wunused-but-set-variable] Bool waited = False; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF imagelst.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF treeview.c treeview.c: In function 'getNodeLength': treeview.c:177:13: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] length= (Int4)tree_getNode(cursor, TREE_NODE_FMT_DISTANCE, &size); ^ treeview.c: In function 'getIconId': treeview.c:187:8: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] a= (Int4) tree_getNode(cursor, TREE_NODE_FMT_ICON, &size); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF shim3d.c shim3d.c: In function 'Nlm_AddHalfWorm3D': shim3d.c:3461:46: warning: unused variable 'tmp' [-Wunused-variable] *pNx, *pNy, *pNz, *pCx, *pCy, *pCz, *tmp, *fblock = NULL; ^ shim3d.c:3461:40: warning: unused variable 'pCz' [-Wunused-variable] *pNx, *pNy, *pNz, *pCx, *pCy, *pCz, *tmp, *fblock = NULL; ^ shim3d.c:3461:34: warning: unused variable 'pCy' [-Wunused-variable] *pNx, *pNy, *pNz, *pCx, *pCy, *pCz, *tmp, *fblock = NULL; ^ shim3d.c:3461:28: warning: unused variable 'pCx' [-Wunused-variable] *pNx, *pNy, *pNz, *pCx, *pCy, *pCz, *tmp, *fblock = NULL; ^ shim3d.c:3461:22: warning: unused variable 'pNz' [-Wunused-variable] *pNx, *pNy, *pNz, *pCx, *pCy, *pCz, *tmp, *fblock = NULL; ^ shim3d.c:3461:16: warning: unused variable 'pNy' [-Wunused-variable] *pNx, *pNy, *pNz, *pCx, *pCy, *pCz, *tmp, *fblock = NULL; ^ shim3d.c:3461:10: warning: unused variable 'pNx' [-Wunused-variable] *pNx, *pNy, *pNz, *pCx, *pCy, *pCz, *tmp, *fblock = NULL; ^ shim3d.c:3460:47: warning: unused variable 'Cz' [-Wunused-variable] GLdouble *Nx = NULL, *Ny, *Nz, *Cx, *Cy, *Cz, ^ shim3d.c:3460:42: warning: unused variable 'Cy' [-Wunused-variable] GLdouble *Nx = NULL, *Ny, *Nz, *Cx, *Cy, *Cz, ^ shim3d.c:3460:37: warning: unused variable 'Cx' [-Wunused-variable] GLdouble *Nx = NULL, *Ny, *Nz, *Cx, *Cy, *Cz, ^ shim3d.c:3460:32: warning: unused variable 'Nz' [-Wunused-variable] GLdouble *Nx = NULL, *Ny, *Nz, *Cx, *Cy, *Cz, ^ shim3d.c:3460:27: warning: unused variable 'Ny' [-Wunused-variable] GLdouble *Nx = NULL, *Ny, *Nz, *Cx, *Cy, *Cz, ^ shim3d.c:3460:15: warning: unused variable 'Nx' [-Wunused-variable] GLdouble *Nx = NULL, *Ny, *Nz, *Cx, *Cy, *Cz, ^ shim3d.c:3459:21: warning: unused variable 'pi' [-Wunused-variable] cosj, sinj, pi = 3.14159265358979323846; ^ shim3d.c:3459:15: warning: unused variable 'sinj' [-Wunused-variable] cosj, sinj, pi = 3.14159265358979323846; ^ shim3d.c:3459:9: warning: unused variable 'cosj' [-Wunused-variable] cosj, sinj, pi = 3.14159265358979323846; ^ shim3d.c:3458:33: warning: unused variable 'prevlen' [-Wunused-variable] Hx, Hy, Hz, Vx, Vy, Vz, prevlen, ^ shim3d.c:3458:29: warning: unused variable 'Vz' [-Wunused-variable] Hx, Hy, Hz, Vx, Vy, Vz, prevlen, ^ shim3d.c:3458:25: warning: unused variable 'Vy' [-Wunused-variable] Hx, Hy, Hz, Vx, Vy, Vz, prevlen, ^ shim3d.c:3458:21: warning: unused variable 'Vx' [-Wunused-variable] Hx, Hy, Hz, Vx, Vy, Vz, prevlen, ^ shim3d.c:3458:17: warning: unused variable 'Hz' [-Wunused-variable] Hx, Hy, Hz, Vx, Vy, Vz, prevlen, ^ shim3d.c:3458:13: warning: unused variable 'Hy' [-Wunused-variable] Hx, Hy, Hz, Vx, Vy, Vz, prevlen, ^ shim3d.c:3458:9: warning: unused variable 'Hx' [-Wunused-variable] Hx, Hy, Hz, Vx, Vy, Vz, prevlen, ^ shim3d.c:3457:21: warning: unused variable 'dQtz' [-Wunused-variable] dQtx, dQty, dQtz, /*ddQtx, ddQty, ddQtz,*/ ^ shim3d.c:3457:15: warning: unused variable 'dQty' [-Wunused-variable] dQtx, dQty, dQtz, /*ddQtx, ddQty, ddQtz,*/ ^ shim3d.c:3457:9: warning: unused variable 'dQtx' [-Wunused-variable] dQtx, dQty, dQtz, /*ddQtx, ddQty, ddQtz,*/ ^ shim3d.c:3455:14: warning: unused variable 'len' [-Wunused-variable] GLdouble len, R1x, R1y, R1z, R2x, R2y, R2z, MG[4][3], ^ shim3d.c:3454:26: warning: unused variable 'offset' [-Wunused-variable] Nlm_Int4 i, j, k, m, offset; ^ shim3d.c:3454:23: warning: unused variable 'm' [-Wunused-variable] Nlm_Int4 i, j, k, m, offset; ^ shim3d.c:3454:20: warning: unused variable 'k' [-Wunused-variable] Nlm_Int4 i, j, k, m, offset; ^ shim3d.c:3454:17: warning: unused variable 'j' [-Wunused-variable] Nlm_Int4 i, j, k, m, offset; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF odlbox.c odlbox.c: In function 'LB_onVScroll': odlbox.c:424:12: warning: variable 'IsGoUp' set but not used [-Wunused-but-set-variable] Boolean IsGoUp=FALSE; ^ rm -f libvibrant.a ar cru libvibrant.a vibbutns.o vibextra.o vibfiles.o vibforms.o vibgroup.o viblists.o vibmenus.o vibprmpt.o vibsbars.o vibslate.o vibtexts.o vibutils.o vibwndws.o vibmain.o ncbidraw.o drawing.o mapping.o picture.o viewer.o document.o table.o palette.o diagnost.o image.o pictur3d.o prim3d1.o prim3d2.o prim3d3.o prim3d4.o prim3d5.o viewer3d.o vibmouse.o netscape.o imagelst.o treeview.o shim3d.o odlbox.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libvibrant.a ../lib ranlib ../lib/libvibrant.a mv vibbutns.o vibbutns.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibbutns.c vibbutns.c: In function 'Nlm_CheckCallback': vibbutns.c:328:20: warning: variable 'c' set but not used [-Wunused-but-set-variable] Nlm_ControlTool c; ^ vibbutns.c: In function 'Nlm_RadioCallback': vibbutns.c:347:20: warning: variable 'c' set but not used [-Wunused-but-set-variable] Nlm_ControlTool c; ^ vibbutns.c: In function 'Nlm_SetButtonStatus': vibbutns.c:668:20: warning: variable 'val' set but not used [-Wunused-but-set-variable] Nlm_Int2 val; ^ vibbutns.c: In function 'Nlm_NewButton.constprop': vibbutns.c:1133:3: warning: 'call' may be used uninitialized in this function [-Wmaybe-uninitialized] XtAddCallback (c, call, Nlm_ButtonCallback, (XtPointer) b); ^ mv vibbutns.o vibbutns.glo mv vibbutns.tmp vibbutns.o mv vibextra.o vibextra.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibextra.c vibextra.c: In function 'Nlm_RGB2HSL.constprop': vibextra.c:1219:13: warning: 'min' may be used uninitialized in this function [-Wmaybe-uninitialized] i++; if ( i > 2 ) i=0; ^ mv vibextra.o vibextra.glo mv vibextra.tmp vibextra.o mv vibfiles.o vibfiles.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibfiles.c mv vibfiles.o vibfiles.glo mv vibfiles.tmp vibfiles.o mv vibforms.o vibforms.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibforms.c mv vibforms.o vibforms.glo mv vibforms.tmp vibforms.o mv vibgroup.o vibgroup.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibgroup.c mv vibgroup.o vibgroup.glo mv vibgroup.tmp vibgroup.o mv viblists.o viblists.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL viblists.c viblists.c: In function 'Nlm_SetListPosition': viblists.c:1118:15: warning: variable 'is_realized' set but not used [-Wunused-but-set-variable] Nlm_Boolean is_realized; ^ mv viblists.o viblists.glo mv viblists.tmp viblists.o mv vibmenus.o vibmenus.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibmenus.c vibmenus.c: In function 'Nlm_IsMenuItemChecked': vibmenus.c:563:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_CheckMenuItem': vibmenus.c:591:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_EnableMenuItem': vibmenus.c:1986:17: warning: variable 'itm' set but not used [-Wunused-but-set-variable] Nlm_Int2 itm; ^ vibmenus.c:1985:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_EnableChoice': vibmenus.c:2052:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_EnableChoiceGroup': vibmenus.c:2102:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_EnableChoiceItem': vibmenus.c:2146:17: warning: variable 'itm' set but not used [-Wunused-but-set-variable] Nlm_Int2 itm; ^ vibmenus.c:2144:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_DisableMenuItem': vibmenus.c:2309:17: warning: variable 'itm' set but not used [-Wunused-but-set-variable] Nlm_Int2 itm; ^ vibmenus.c:2308:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_DisableChoice': vibmenus.c:2375:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_DisableChoiceItem': vibmenus.c:2469:17: warning: variable 'itm' set but not used [-Wunused-but-set-variable] Nlm_Int2 itm; ^ vibmenus.c:2467:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_RemoveSubMenu': vibmenus.c:2607:20: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_CountMenuItems': vibmenus.c:3036:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_GetMenuItem': vibmenus.c:3219:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_GetPopListTitle': vibmenus.c:3329:18: warning: variable 'm' set but not used [-Wunused-but-set-variable] Nlm_MenU m; ^ vibmenus.c: In function 'Nlm_AppendItems': vibmenus.c:3948:17: warning: unused variable 'accel' [-Wunused-variable] Nlm_Char accel; ^ vibmenus.c: In function 'Nlm_NewPopupList': vibmenus.c:4939:19: warning: unused variable 'lbl' [-Wunused-variable] Widget lbl; ^ vibmenus.c:4937:19: warning: unused variable 'color' [-Wunused-variable] Pixel color; ^ mv vibmenus.o vibmenus.glo mv vibmenus.tmp vibmenus.o mv vibprmpt.o vibprmpt.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibprmpt.c mv vibprmpt.o vibprmpt.glo mv vibprmpt.tmp vibprmpt.o mv vibsbars.o vibsbars.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibsbars.c mv vibsbars.o vibsbars.glo mv vibsbars.tmp vibsbars.o mv vibslate.o vibslate.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibslate.c vibslate.c: In function 'Nlm_EnableSlate': vibslate.c:1199:18: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_SlateTool h; ^ vibslate.c: In function 'Nlm_DisableSlate': vibslate.c:1254:18: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_SlateTool h; ^ vibslate.c: In function 'Nlm_SelectSlate': vibslate.c:1515:5: warning: missing sentinel in function call [-Wformat=] XtVaGetValues (h, XmNbackground, &color, 0); ^ vibslate.c:1517:5: warning: missing sentinel in function call [-Wformat=] XtVaGetValues (h, XmNforeground, &color, 0); ^ vibslate.c: In function 'Nlm_SelectPanel': vibslate.c:1544:3: warning: missing sentinel in function call [-Wformat=] XtVaGetValues (h, XmNbackground, &color, 0); ^ vibslate.c:1546:3: warning: missing sentinel in function call [-Wformat=] XtVaGetValues (h, XmNforeground, &color, 0); ^ vibslate.c: In function 'Nlm_SlateClick': vibslate.c:2026:20: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_SlateTool h; ^ vibslate.c: In function 'Nlm_SlateClickCallback': vibslate.c:2157:3: warning: missing sentinel in function call [-Wformat=] XtVaGetValues (w, XmNbackground, &color, 0); ^ vibslate.c:2159:3: warning: missing sentinel in function call [-Wformat=] XtVaGetValues (w, XmNforeground, &color, 0); ^ vibslate.c: In function 'Nlm_SlateInputCallback': vibslate.c:2313:7: warning: missing sentinel in function call [-Wformat=] XtVaGetValues(w, XmNbackground, &color, 0); ^ vibslate.c:2315:7: warning: missing sentinel in function call [-Wformat=] XtVaGetValues(w, XmNforeground, &color, 0); ^ vibslate.c: In function 'Nlm_SlateDrawCallback': vibslate.c:2359:3: warning: missing sentinel in function call [-Wformat=] XtVaGetValues (w, XmNbackground, &color, 0); ^ vibslate.c:2361:3: warning: missing sentinel in function call [-Wformat=] XtVaGetValues (w, XmNforeground, &color, 0); ^ vibslate.c: In function 'Nlm_Set3DColorMap': vibslate.c:2686:17: warning: unused variable 'testvisual' [-Wunused-variable] Boolean testvisual; ^ vibslate.c:2685:13: warning: variable 'defaultdepth' set but not used [-Wunused-but-set-variable] int defaultdepth; ^ mv vibslate.o vibslate.glo mv vibslate.tmp vibslate.o mv vibtexts.o vibtexts.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibtexts.c vibtexts.c: In function 'Nlm_TextCallback': vibtexts.c:2982:24: warning: unused variable 'cbs' [-Wunused-variable] XmAnyCallbackStruct *cbs = (XmAnyCallbackStruct *)call_data; ^ vibtexts.c: In function 'Nlm_LoseFocusCallback': vibtexts.c:2999:25: warning: variable 'cbs' set but not used [-Wunused-but-set-variable] XmAnyCallbackStruct *cbs; ^ vibtexts.c: In function 'Nlm_TabCallback': vibtexts.c:3109:15: warning: variable 'event' set but not used [-Wunused-but-set-variable] XKeyEvent *event; ^ vibtexts.c: In function 'Nlm_HiddenReturnCallback': vibtexts.c:3122:15: warning: variable 'event' set but not used [-Wunused-but-set-variable] XKeyEvent *event; ^ vibtexts.c: In function 'Nlm_HiddenActivateCallback': vibtexts.c:3135:25: warning: variable 'cbs' set but not used [-Wunused-but-set-variable] XmAnyCallbackStruct *cbs; ^ mv vibtexts.o vibtexts.glo mv vibtexts.tmp vibtexts.o mv vibutils.o vibutils.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibutils.c vibutils.c: In function 'Nlm_VibMessageHook': vibutils.c:776:13: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] percent = (Nlm_Int4)Nlm_GetAppProperty( "VibrantMessageWidthMax" ); ^ mv vibutils.o vibutils.glo mv vibutils.tmp vibutils.o mv vibwndws.o vibwndws.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibwndws.c vibwndws.c: In function 'Nlm_SetColorMap': vibwndws.c:1060:13: warning: variable 'defaultdepth' set but not used [-Wunused-but-set-variable] int defaultdepth; ^ vibwndws.c: In function 'Nlm_SetWindowTitle': vibwndws.c:1567:19: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ vibwndws.c: In function 'Nlm_GetWindowTitle': vibwndws.c:1610:19: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ vibwndws.c: In function 'Nlm_NewWindow': vibwndws.c:2155:19: warning: variable 'screen_num' set but not used [-Wunused-but-set-variable] int screen_num; ^ vibwndws.c: In function 'Nlm_HideWindow': vibwndws.c:2526:19: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ vibwndws.c: In function 'Nlm_ShowNormal': vibwndws.c:2969:19: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ vibwndws.c: In function 'Nlm_ShowModal': vibwndws.c:3014:19: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ vibwndws.c: In function 'Nlm_ShowDocument': vibwndws.c:3060:19: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ vibwndws.c: In function 'Nlm_VibMainPrelude': vibwndws.c:6771:13: warning: unused variable 'retval' [-Wunused-variable] Nlm_Int2 retval; ^ vibwndws.c: In function 'Nlm_RemoveDyingWindows': vibwndws.c:6893:20: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ vibwndws.c: At top level: vibwndws.c:1318:16: warning: 'Nlm_StandardColormap' defined but not used [-Wunused-function] static Boolean Nlm_StandardColormap(Colormap *cMap, ^ mv vibwndws.o vibwndws.glo mv vibwndws.tmp vibwndws.o mv vibmain.o vibmain.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibmain.c vibmain.c:121:1: warning: return type defaults to 'int' [-Wimplicit-int] main (int argc, char *argv[]) ^ mv vibmain.o vibmain.glo mv vibmain.tmp vibmain.o mv ncbidraw.o ncbidraw.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL ncbidraw.c mv ncbidraw.o ncbidraw.glo mv ncbidraw.tmp ncbidraw.o mv drawing.o drawing.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL drawing.c mv drawing.o drawing.glo mv drawing.tmp drawing.o mv mapping.o mapping.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL mapping.c mapping.c: In function 'Nlm_MapRectToWorldBox': mapping.c:139:8: warning: variable 'curScale' set but not used [-Wunused-but-set-variable] Int4 curScale; ^ mv mapping.o mapping.glo mv mapping.tmp mapping.o mv picture.o picture.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL picture.c mv picture.o picture.glo mv picture.tmp picture.o mv viewer.o viewer.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL viewer.c mv viewer.o viewer.glo mv viewer.tmp viewer.o mv document.o document.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL document.c document.c: In function 'Nlm_PrintDocument': document.c:4413:7: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ document.c:4417:7: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ mv document.o document.glo mv document.tmp document.o mv table.o table.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL table.c mv table.o table.glo mv table.tmp table.o mv palette.o palette.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL palette.c mv palette.o palette.glo mv palette.tmp palette.o mv diagnost.o diagnost.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL diagnost.c mv diagnost.o diagnost.glo mv diagnost.tmp diagnost.o mv image.o image.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL image.c image.c: In function 'ShiftXMask': image.c:840:26: warning: suggest parentheses around '+' inside '>>' [-Wparentheses] if(!((mask >> hi + low) & (unsigned long)1)) break; ^ mv image.o image.glo mv image.tmp image.o mv pictur3d.o pictur3d.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL pictur3d.c mv pictur3d.o pictur3d.glo mv pictur3d.tmp pictur3d.o mv prim3d1.o prim3d1.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL prim3d1.c mv prim3d1.o prim3d1.glo mv prim3d1.tmp prim3d1.o mv prim3d2.o prim3d2.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL prim3d2.c mv prim3d2.o prim3d2.glo mv prim3d2.tmp prim3d2.o mv prim3d3.o prim3d3.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL prim3d3.c mv prim3d3.o prim3d3.glo mv prim3d3.tmp prim3d3.o mv prim3d4.o prim3d4.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL prim3d4.c mv prim3d4.o prim3d4.glo mv prim3d4.tmp prim3d4.o mv prim3d5.o prim3d5.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL prim3d5.c mv prim3d5.o prim3d5.glo mv prim3d5.tmp prim3d5.o mv viewer3d.o viewer3d.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL viewer3d.c mv viewer3d.o viewer3d.glo mv viewer3d.tmp viewer3d.o mv vibmouse.o vibmouse.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibmouse.c mv vibmouse.o vibmouse.glo mv vibmouse.tmp vibmouse.o mv netscape.o netscape.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL netscape.c netscape.c: In function 'NS_Obtain_lock': netscape.c:236:10: warning: variable 'waited' set but not used [-Wunused-but-set-variable] Bool waited = False; ^ mv netscape.o netscape.glo mv netscape.tmp netscape.o mv imagelst.o imagelst.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL imagelst.c mv imagelst.o imagelst.glo mv imagelst.tmp imagelst.o mv treeview.o treeview.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL treeview.c treeview.c: In function 'getNodeLength': treeview.c:177:13: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] length= (Int4)tree_getNode(cursor, TREE_NODE_FMT_DISTANCE, &size); ^ treeview.c: In function 'getIconId': treeview.c:187:8: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] a= (Int4) tree_getNode(cursor, TREE_NODE_FMT_ICON, &size); ^ mv treeview.o treeview.glo mv treeview.tmp treeview.o mv shim3d.o shim3d.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL shim3d.c shim3d.c: In function 'OGL_AddCylinder3D': shim3d.c:906:14: warning: unused variable 'iCount' [-Wunused-variable] Nlm_Int4 iCount; ^ shim3d.c: In function 'OGL_AddText3D': shim3d.c:1198:22: warning: unused variable 'i' [-Wunused-variable] Nlm_Int4 Length, i; ^ shim3d.c: In function 'OGL_Zoom_DragMA': shim3d.c:1758:16: warning: unused variable 'OGL_Data' [-Wunused-variable] TOGL_Data *OGL_Data = MAToOGL(ma); ^ shim3d.c: In function 'write_row_callback': shim3d.c:2899:15: warning: 'start' may be used uninitialized in this function [-Wmaybe-uninitialized] float start, end; ^ shim3d.c:2899:22: warning: 'end' may be used uninitialized in this function [-Wmaybe-uninitialized] float start, end; ^ shim3d.c: In function 'SetOGLFont': shim3d.c:2369:64: warning: 'closest' may be used uninitialized in this function [-Wmaybe-uninitialized] fontInfo = XLoadQueryFont(Nlm_currentXDisplay, list[closest]); ^ shim3d.c:2364:37: warning: 'mindiff' may be used uninitialized in this function [-Wmaybe-uninitialized] if (ii == 0 || diff < mindiff) { ^ shim3d.c:2369:64: warning: 'list' may be used uninitialized in this function [-Wmaybe-uninitialized] fontInfo = XLoadQueryFont(Nlm_currentXDisplay, list[closest]); ^ shim3d.c: In function 'Nlm_AddHalfWorm3D': shim3d.c:3454:26: warning: 'offset' may be used uninitialized in this function [-Wmaybe-uninitialized] Nlm_Int4 i, j, k, m, offset; ^ mv shim3d.o shim3d.glo mv shim3d.tmp shim3d.o mv odlbox.o odlbox.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL odlbox.c odlbox.c: In function 'LB_onVScroll': odlbox.c:424:12: warning: variable 'IsGoUp' set but not used [-Wunused-but-set-variable] Boolean IsGoUp=FALSE; ^ mv odlbox.o odlbox.glo mv odlbox.tmp odlbox.o rm -f libvibrantOGL.a ar cru libvibrantOGL.a vibbutns.glo vibextra.glo vibfiles.glo vibforms.glo vibgroup.glo viblists.glo vibmenus.glo vibprmpt.glo vibsbars.glo vibslate.glo vibtexts.glo vibutils.glo vibwndws.glo vibmain.glo ncbidraw.glo drawing.glo mapping.glo picture.glo viewer.glo document.glo table.glo palette.glo diagnost.glo image.glo pictur3d.glo prim3d1.glo prim3d2.glo prim3d3.glo prim3d4.glo prim3d5.glo viewer3d.glo vibmouse.glo netscape.glo imagelst.glo treeview.glo shim3d.glo odlbox.glo ar: `u' modifier ignored since `D' is the default (see `U') cp -p libvibrantOGL.a ../lib ranlib ../lib/libvibrantOGL.a gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF accentr.c accentr.c: In function 'EntrezBiostrucGet': accentr.c:2113:17: warning: unused variable 'retval' [-Wunused-variable] BiostrucPtr retval = NULL; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF accutils.c rm -f libncbiacc.a ar cru libncbiacc.a accentr.o accutils.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libncbiacc.a ../lib ranlib ../lib/libncbiacc.a gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF drawseq.c drawseq.c: In function 'AddFlatNodeSymbol': drawseq.c:811:7: warning: unused variable 'symbol_height' [-Wunused-variable] Int4 symbol_height = 8; ^ drawseq.c: In function 'AddAlignBlocks': drawseq.c:970:7: warning: variable 'c_num' set but not used [-Wunused-but-set-variable] Int2 c_num; ^ drawseq.c: In function 'AddAlignFeature': drawseq.c:1369:8: warning: unused variable 'ptype' [-Wunused-variable] Uint1 ptype = 0; ^ drawseq.c: In function 'AddAlignmentMismatch': drawseq.c:1523:7: warning: variable 'i_right' set but not used [-Wunused-but-set-variable] Int4 i_right; ^ drawseq.c: In function 'DrawRestrictionMap': drawseq.c:1811:10: warning: unused variable 'retval' [-Wunused-variable] Boolean retval = FALSE; ^ drawseq.c:1802:15: warning: variable 'center' set but not used [-Wunused-but-set-variable] Int4 x1, x2, center; ^ drawseq.c: In function 'DrawFeatures': drawseq.c:2563:7: warning: variable 'entityID' set but not used [-Wunused-but-set-variable] Int2 entityID; ^ drawseq.c: In function 'DrawOneSeqLoc': drawseq.c:3020:10: warning: variable 'show_seq_label' set but not used [-Wunused-but-set-variable] Boolean show_seq_label = TRUE; /*show the label of a sequence*/ ^ drawseq.c:3009:10: warning: variable 'ends' set but not used [-Wunused-but-set-variable] Boolean ends; ^ drawseq.c: In function 'Label_GData': drawseq.c:3439:10: warning: variable 'success' set but not used [-Wunused-but-set-variable] Boolean success = FALSE; ^ drawseq.c: In function 'DrawEquivAlign': drawseq.c:3594:8: warning: unused variable 'my_gray_color' [-Wunused-variable] Uint1 my_gray_color[]={63, 63, 63}; ^ drawseq.c: In function 'load_align_label_rectangle': drawseq.c:4352:10: warning: variable 'found_it' set but not used [-Wunused-but-set-variable] Boolean found_it; ^ drawseq.c: In function 'PicForAlignNode': drawseq.c:4558:18: warning: variable 'min_scale' set but not used [-Wunused-but-set-variable] Int4 max_width, min_scale; ^ drawseq.c: At top level: drawseq.c:3511:18: warning: 'get_map_pos' defined but not used [-Wunused-function] static MapPosPtr get_map_pos(MapLayoutPtr mlp, SeqIdPtr sip) ^ drawseq.c:3525:22: warning: 'get_ith_arp' defined but not used [-Wunused-function] static AlignRangePtr get_ith_arp(AlignRangePtr arp, Int2 i) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF dotmatrx.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF fea2seg.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF fstyle.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF smdlg1.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF smdlg2.c smdlg2.c: In function 'Nlm_CreateDlgGroup': smdlg2.c:631:12: warning: variable 'toAlign' set but not used [-Wunused-but-set-variable] Handle toAlign[3]; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF smdlg3.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF smtools.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF styleman.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF stylemui.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF glbpic.c glbpic.c: In function 'label_linear_mark': glbpic.c:1295:7: warning: unused variable 'tick_len' [-Wunused-variable] Int4 tick_len = TICK_LEN; ^ glbpic.c: In function 'add_alignment_to_global': glbpic.c:1552:8: warning: variable 'p_val' set but not used [-Wunused-but-set-variable] Uint1 p_val; ^ glbpic.c: At top level: glbpic.c:584:19: warning: 'extract_align_range' defined but not used [-Wunused-function] static ValNodePtr extract_align_range(ValNodePtr PNTR arp_list, Uint1 displayOrder) ^ glbpic.c:1748:16: warning: 'get_print_score' defined but not used [-Wunused-function] static Boolean get_print_score(FloatHi min_score, FloatHi max_score, CharPtr label, Uint1 status) ^ glbpic.c: In function 'get_circle_label_align': glbpic.c:2349:9: warning: 'align' may be used uninitialized in this function [-Wmaybe-uninitialized] return align; ^ glbpic.c: In function 'label_circle_mark': glbpic.c:2479:6: warning: 'first_align' may be used uninitialized in this function [-Wmaybe-uninitialized] switch(label_align) ^ glbpic.c:2450:5: warning: 'p_align' may be used uninitialized in this function [-Wmaybe-uninitialized] switch(label_align) ^ glbpic.c:2474:26: warning: 'first_left' may be used uninitialized in this function [-Wmaybe-uninitialized] if(ABS(first_left - left) < (t_width +3)) ^ glbpic.c:2469:28: warning: 'first_width' may be used uninitialized in this function [-Wmaybe-uninitialized] t_width = (first_width + width)/2; ^ glbpic.c:2473:24: warning: 'first_top' may be used uninitialized in this function [-Wmaybe-uninitialized] if(ABS(first_top - top )< (font_height+3)) ^ In file included from ../include/glbpic.h:7:0, from glbpic.c:23: glbpic.c: In function 'add_alignment_to_global': ../include/picture.h:520:22: warning: 'g_top' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AddTextLabel Nlm_AddTextLabel ^ glbpic.c:1560:7: note: 'g_top' was declared here Int4 g_top, g_bottom; ^ glbpic.c: In function 'Draw_Global': glbpic.c:2177:12: warning: 'seglen' may be used uninitialized in this function [-Wmaybe-uninitialized] m_stop += seglen; ^ glbpic.c:1943:8: note: 'seglen' was declared here Int4 seglen; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF layout.c layout.c: In function 'LayoutNodeFlat': layout.c:326:24: warning: variable 'prev' set but not used [-Wunused-but-set-variable] ValNodePtr vnp, next, prev; ^ layout.c: In function 'layout_uncompressed_group': layout.c:1244:20: warning: variable 'group_stop' set but not used [-Wunused-but-set-variable] Int2 group_start, group_stop; ^ layout.c: In function 'LayoutFeatNode': layout.c:1365:17: warning: variable 'y_next' set but not used [-Wunused-but-set-variable] Int4 cur_line, y_next; ^ layout.c:1364:17: warning: variable 'labelstyle' set but not used [-Wunused-but-set-variable] Int4 segstyle, labelstyle; ^ layout.c:1363:10: warning: variable 'show_trunc' set but not used [-Wunused-but-set-variable] Boolean show_trunc = FALSE; ^ layout.c:1350:10: warning: variable 'k' set but not used [-Wunused-but-set-variable] Int2 i, k; ^ layout.c: In function 'LayoutAlignNode': layout.c:2208:7: warning: unused variable 'num' [-Wunused-variable] Int4 num = 0; ^ layout.c: At top level: layout.c:1779:16: warning: 'modify_master_line' defined but not used [-Wunused-function] static Boolean modify_master_line(ValNodePtr vnp, Int4Ptr m_left, Int4Ptr m_right, Int4 maxScale, Uint1 label_align) ^ layout.c: In function 'GroupFeatNode': layout.c:636:14: warning: 'prev' may be used uninitialized in this function [-Wmaybe-uninitialized] prev->next = new; ^ layout.c:594:35: note: 'prev' was declared here ValNodePtr my_node = NULL, curr, prev, next; ^ layout.c: In function 'OrderCdsmRNA': layout.c:963:9: warning: 'm_missed' may be used uninitialized in this function [-Wmaybe-uninitialized] if(missed < m_missed) ^ layout.c:940:15: note: 'm_missed' was declared here Int2 missed, m_missed; /*number of exons missed at both end*/ ^ layout.c: In function 'LayoutFeatNode': layout.c:1503:12: warning: 'p_right' may be used uninitialized in this function [-Wmaybe-uninitialized] p_right = MAX(right, p_right); ^ layout.c:1502:11: warning: 'p_left' may be used uninitialized in this function [-Wmaybe-uninitialized] p_left = MIN(left, p_left); ^ layout.c:1504:14: warning: 'height' may be used uninitialized in this function [-Wmaybe-uninitialized] maxHeight = MAX(height, maxHeight); ^ layout.c: In function 'LayoutAlignNode': layout.c:2215:17: warning: 'next_line' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 cur_line, next_line; ^ layout.c:2251:7: warning: 'head' may be used uninitialized in this function [-Wmaybe-uninitialized] i = find_align_line_number(anp, vnp->next, ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF saldist.c saldist.c: In function 'copy_string': saldist.c:1289:12: warning: value computed is not used [-Wunused-value] *from++; ^ saldist.c:1302:11: warning: value computed is not used [-Wunused-value] *from++; ^ saldist.c: In function 'nss_ref_complength': saldist.c:1479:17: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (s1[0] != '-' && s1[1] != '-' && s1[2] != '-' && s2[0] != '-' && s2[1] != '-' && s2[2] != '-') ^ saldist.c:1455:16: warning: variable 'c2' set but not used [-Wunused-but-set-variable] c1, c2; ^ saldist.c:1455:12: warning: variable 'c1' set but not used [-Wunused-but-set-variable] c1, c2; ^ saldist.c: In function 'nss_pw_complength': saldist.c:1572:18: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (s1[0] != '-' && s1[1] != '-' && s1[2] != '-' && s2[0] != '-' && s2[1] != '-' && s2[2] != '-') ^ saldist.c:1547:16: warning: variable 'c2' set but not used [-Wunused-but-set-variable] c1, c2; ^ saldist.c:1547:12: warning: variable 'c1' set but not used [-Wunused-but-set-variable] c1, c2; ^ saldist.c: In function 'nss_gp_complength': saldist.c:1675:21: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (s1[0] != '-' && s1[1] != '-' && s1[2] != '-' && s2[0] != '-' && s2[1] != '-' && s2[2] != '-') ^ saldist.c:1640:16: warning: variable 'c2' set but not used [-Wunused-but-set-variable] c1, c2; ^ saldist.c:1640:12: warning: variable 'c1' set but not used [-Wunused-but-set-variable] c1, c2; ^ saldist.c: In function 'SortbySimProc': saldist.c:2139:31: warning: variable 'newsalpd' set but not used [-Wunused-but-set-variable] SeqAlignPtr newsalp, newsalpd; ^ In file included from ../include/sqnutils.h:51:0, from ../include/dlogutil.h:50, from ../include/salpanel.h:53, from saldist.c:49: saldist.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ saldist.c:910:14: warning: 'matrixlst' defined but not used [-Wunused-variable] static Char *matrixlst [] = {"", "idmat", ^ saldist.c:928:16: warning: 'new_matrice' defined but not used [-Wunused-function] static Boolean new_matrice (Int2 simmatrix, CharPtr path) ^ saldist.c:999:13: warning: 'AAcode' defined but not used [-Wunused-function] static Int2 AAcode(Char car) ^ saldist.c:1080:24: warning: 'FloatLomatrix' defined but not used [-Wunused-function] static FloatLoPtr PNTR FloatLomatrix (Int2 nrows, Int2 ncol) ^ saldist.c:1853:22: warning: 'scangp_calcul' defined but not used [-Wunused-function] static Int4Ptr PNTR scangp_calcul (EditAlignDataPtr adp, Int2 seq1, Int2 seq2, Int4 from, Int4 to, Int2 group, Int2 choice, Int2 win_width) ^ saldist.c: In function 'writematrixhalf.constprop': saldist.c:1225:18: warning: 'vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] vnp=vnp->next; ^ saldist.c: In function 'PwDistanceLongItem': saldist.c:1151:18: warning: 'vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] vnp=vnp->next; ^ saldist.c:1104:19: note: 'vnp' was declared here ValNodePtr vnp, ^ saldist.c: In function 'SortbyLenItem': saldist.c:2191:14: warning: 'mink' may be used uninitialized in this function [-Wmaybe-uninitialized] sortlst [mink] = j + 1; ^ saldist.c:2172:28: note: 'mink' was declared here Int2 j, k, mink; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF saled.c saled.c: In function 'ReadAlignmentForSeqEntry': saled.c:3325:21: warning: unused variable 'dirty' [-Wunused-variable] dirty = FALSE; ^ saled.c:3321:21: warning: unused variable 'salp' [-Wunused-variable] SeqAlignPtr salp=NULL, ^ In file included from ../include/sqnutils.h:51:0, from ../include/dlogutil.h:50, from ../include/salpanel.h:53, from saled.c:49: saled.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from saled.c:55: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF salfiles.c salfiles.c: In function 'NewFastaRead': salfiles.c:315:30: warning: variable 'lastsegsip' set but not used [-Wunused-but-set-variable] SeqIdPtr segsip=NULL, lastsegsip=NULL; ^ salfiles.c: In function 'ReadAlignmentToStrings': salfiles.c:664:16: warning: unused variable 'nseq' [-Wunused-variable] Int2 nseq = 0; ^ salfiles.c: In function 'MacawRead': salfiles.c:1257:15: warning: unused variable 'vnp' [-Wunused-variable] vnp = NULL; ^ salfiles.c: In function 'ReadLocalAlign': salfiles.c:1370:14: warning: variable 'tmp1' set but not used [-Wunused-but-set-variable] tmp1; ^ salfiles.c: In function 'ImportFromFile': salfiles.c:2072:20: warning: unused variable 'sep' [-Wunused-variable] SeqEntryPtr sep = NULL; ^ salfiles.c:2071:20: warning: unused variable 'sap' [-Wunused-variable] SeqAnnotPtr sap = NULL; ^ salfiles.c: In function 'sesp_to_pept': salfiles.c:2713:18: warning: unused variable 'bufferPtr' [-Wunused-variable] bufferPtr = NULL; ^ salfiles.c: In function 'SaveFeatProc': salfiles.c:3387:22: warning: variable 'handled' set but not used [-Wunused-but-set-variable] Int2 handled; ^ salfiles.c: In function 'CCReadAnythingLoop': salfiles.c:3685:16: warning: variable 'entityID' set but not used [-Wunused-but-set-variable] Uint2 entityID; ^ In file included from ../include/sqnutils.h:51:0, from ../include/dlogutil.h:50, from ../include/salpanel.h:53, from salfiles.c:48: salfiles.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ salfiles.c:501:19: warning: 'get_lens_fromseqalign' defined but not used [-Wunused-function] static ValNodePtr get_lens_fromseqalign (SeqAlignPtr salp) ^ salfiles.c: In function 'CCDownloadProc': salfiles.c:2218:7: warning: 'new_sep' may be used uninitialized in this function [-Wmaybe-uninitialized] vnp = SeqEntryToSeqLoc (sep, &n, adp->mol_type); ^ salfiles.c:2286:15: note: 'new_sep' was declared here SeqEntryPtr new_sep; ^ salfiles.c: In function 'NewFastaRead.constprop': salfiles.c:460:6: warning: 'sip' may be used uninitialized in this function [-Wmaybe-uninitialized] if (sip!=NULL) ^ salfiles.c: In function 'GapFastaRead': salfiles.c:747:25: warning: 'seqstr' may be used uninitialized in this function [-Wmaybe-uninitialized] seqstr [lgseq] = strp[j]; ^ salfiles.c:654:16: note: 'seqstr' was declared here seqstr; ^ salfiles.c:724:15: warning: 'startp' may be used uninitialized in this function [-Wmaybe-uninitialized] if (!startp) { ^ salfiles.c:660:16: note: 'startp' was declared here Boolean startp; ^ salfiles.c: In function 'ReadLocalAlignment': salfiles.c:1287:3: warning: 'seqvnp' may be used uninitialized in this function [-Wmaybe-uninitialized] ValNodeFree (seqvnp); ^ salfiles.c:1113:19: note: 'seqvnp' was declared here ValNodePtr vnp, seqvnp; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF salpanel.c salpanel.c: In function 'go_to_next_to_draw': salpanel.c:331:17: warning: statement with no effect [-Wunused-value] offsettmp; ^ salpanel.c: In function 'next_to_draw': salpanel.c:471:20: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if ( curstr != NULL ) ^ salpanel.c: In function 'AssociatePropagatedSubloc': salpanel.c:3131:16: warning: variable 'vnp' set but not used [-Wunused-but-set-variable] ValNodePtr vnp; ^ salpanel.c: In function 'FeaturePropagateForm': salpanel.c:4670:15: warning: variable 'ppt' set but not used [-Wunused-but-set-variable] PrompT ppt; ^ salpanel.c:4665:15: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ salpanel.c: In function 'OkToContinueWithFeatureApply': salpanel.c:6099:14: warning: unused variable 'num_missing' [-Wunused-variable] Int4 num_missing = 0, seq_num, start_num; ^ salpanel.c: In function 'DoApplyFeatureToAlignment': salpanel.c:6215:31: warning: unused variable 'found_null' [-Wunused-variable] Boolean found_null = FALSE; ^ salpanel.c: In function 'ApplyFeatureToAlignment': salpanel.c:6417:31: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ In file included from ../include/sqnutils.h:51:0, from ../include/dlogutil.h:50, from ../include/salpanel.h:53, from salpanel.c:45: salpanel.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from salpanel.c:52: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ salpanel.c:65:14: warning: 'diamondSym' defined but not used [-Wunused-variable] static Uint1 diamondSym [] = { ^ salpanel.c:68:14: warning: 'ovalSym' defined but not used [-Wunused-variable] static Uint1 ovalSym [] = { ^ salpanel.c:77:14: warning: 'upTriSym' defined but not used [-Wunused-variable] static Uint1 upTriSym [] = { ^ salpanel.c:80:14: warning: 'downTriSym' defined but not used [-Wunused-variable] static Uint1 downTriSym [] = { ^ salpanel.c:86:14: warning: 'diamondFillSym' defined but not used [-Wunused-variable] static Uint1 diamondFillSym [] = { ^ salpanel.c:89:14: warning: 'ovalFillSym' defined but not used [-Wunused-variable] static Uint1 ovalFillSym [] = { ^ salpanel.c:98:14: warning: 'upTriFillSym' defined but not used [-Wunused-variable] static Uint1 upTriFillSym [] = { ^ salpanel.c:101:14: warning: 'downTriFillSym' defined but not used [-Wunused-variable] static Uint1 downTriFillSym [] = { ^ salpanel.c:104:14: warning: 'rightOvalSym' defined but not used [-Wunused-variable] static Uint1 rightOvalSym [] = { ^ salpanel.c:107:14: warning: 'leftOvalSym' defined but not used [-Wunused-variable] static Uint1 leftOvalSym [] = { ^ salpanel.c:110:14: warning: 'rightOvalFillSym' defined but not used [-Wunused-variable] static Uint1 rightOvalFillSym [] = { ^ salpanel.c:113:14: warning: 'leftOvalFillSym' defined but not used [-Wunused-variable] static Uint1 leftOvalFillSym [] = { ^ salpanel.c:224:13: warning: 'get_client_rectxy' defined but not used [-Wunused-function] static void get_client_rectxy (PaneL p, RectPtr prc, Int2 x, Int2 y) ^ salpanel.c:5055:13: warning: 'BatchApplyFeatureDetailsMessage' defined but not used [-Wunused-function] static void BatchApplyFeatureDetailsMessage (DialoG d, Int2 mssg) ^ salpanel.c: In function 'draw_feat.part.11': salpanel.c:1939:17: warning: 'col1' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 col1; ^ salpanel.c: In function 'on_draw': salpanel.c:2527:23: warning: 'draw_diff' may be used uninitialized in this function [-Wmaybe-uninitialized] draw_seq (adp, curssp, from_inseq, drw_width, ptlh, curstr, draw_diff, masterstr, TRUE, itemsubtype, FALSE); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF salparam.c salparam.c: In function 'mergelst': salparam.c:1325:20: warning: variable 'val' set but not used [-Wunused-but-set-variable] Boolean val; ^ salparam.c: In function 'unmergelst': salparam.c:1340:20: warning: variable 'dbdp' set but not used [-Wunused-but-set-variable] DialogBoxDataPtr dbdp; ^ salparam.c: In function 'FormulaDialog': salparam.c:1398:36: warning: variable 'b5' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3, b4, b5; ^ salparam.c: In function 'JK_NTPattern2Ex': salparam.c:1596:19: warning: variable 'debug_str' set but not used [-Wunused-but-set-variable] CharPtr debug_str; ^ salparam.c: In function 'DotPlotBtn': salparam.c:1936:22: warning: variable 'status' set but not used [-Wunused-but-set-variable] Int2 status; ^ salparam.c: In function 'DotPlotDialog': salparam.c:1973:20: warning: variable 'bt1' set but not used [-Wunused-but-set-variable] ButtoN bt1, bt2; ^ salparam.c: In function 'DotPlotItem': salparam.c:2004:22: warning: variable 'status' set but not used [-Wunused-but-set-variable] Int2 status; ^ salparam.c: In function 'SelectSeqFunc': salparam.c:2308:20: warning: variable 'str' set but not used [-Wunused-but-set-variable] CharPtr str; ^ salparam.c: In function 'HighlightSelectionFunc': salparam.c:2344:22: warning: variable 'wdp' set but not used [-Wunused-but-set-variable] SeqEditViewFormPtr wdp; ^ salparam.c: In function 'PropagateFeatureProc': salparam.c:2623:25: warning: variable 'iID' set but not used [-Wunused-but-set-variable] Uint2 eID, iID, ^ salparam.c:2614:20: warning: variable 'salp' set but not used [-Wunused-but-set-variable] SeqAlignPtr salp; ^ In file included from ../include/sqnutils.h:51:0, from ../include/dlogutil.h:50, from ../include/salpanel.h:53, from salparam.c:49: salparam.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from salparam.c:58: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ salparam.c: In function 'FileInProc': salparam.c:782:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fp, "%d %ld", &n, &lens); ^ salparam.c: In function 'DotPlotBtn': salparam.c:1951:13: warning: 'sep' may be used uninitialized in this function [-Wmaybe-uninitialized] bsp = (BioseqPtr) sep->data.ptrvalue; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF salsa.c salsa.c: In function 'SelectSubsProc': salsa.c:2140:23: warning: variable 'svpp' set but not used [-Wunused-but-set-variable] SeqEditViewProcsPtr svpp=NULL; ^ salsa.c: In function 'SetSeqInfo': salsa.c:3195:17: warning: unused variable 'vnp' [-Wunused-variable] ValNodePtr vnp = NULL; ^ salsa.c: In function 'SetupAlignDataSap': salsa.c:3410:16: warning: variable 'entityID_sap' set but not used [-Wunused-but-set-variable] Uint2 entityID_sap; ^ salsa.c: In function 'get_bestpos_formerge': salsa.c:4304:17: warning: variable 'insert_after' set but not used [-Wunused-but-set-variable] insert_after=FALSE; ^ salsa.c:4303:17: warning: variable 'insert_before' set but not used [-Wunused-but-set-variable] Boolean insert_before=FALSE, ^ salsa.c: In function 'CreateSeqAlignViewForm': salsa.c:4689:22: warning: variable 'mergebtn' set but not used [-Wunused-but-set-variable] ButtoN mergebtn; ^ salsa.c: In function 'AlgEditFunc': salsa.c:4988:23: warning: unused variable 'wdp' [-Wunused-variable] SeqEditViewFormPtr wdp = NULL; ^ salsa.c:4986:23: warning: unused variable 'w' [-Wunused-variable] WindoW w = NULL; ^ salsa.c: In function 'OldAlignmentEditor': salsa.c:5118:16: warning: variable 'rval' set but not used [-Wunused-but-set-variable] Int2 rval; ^ salsa.c: In function 'LaunchAnnotAlignEditor': salsa.c:5305:20: warning: variable 'handled' set but not used [-Wunused-but-set-variable] Int2 handled; ^ salsa.c: In function 'LaunchAlignEditor': salsa.c:5322:20: warning: variable 'handled' set but not used [-Wunused-but-set-variable] Int2 handled; ^ salsa.c: In function 'LaunchAlignViewer': salsa.c:5339:20: warning: variable 'handled' set but not used [-Wunused-but-set-variable] Int2 handled; ^ salsa.c: In function 'LaunchAlignEditorFromDesktop': salsa.c:5354:20: warning: variable 'ompcp' set but not used [-Wunused-but-set-variable] OMProcControlPtr ompcp; ^ salsa.c: In function 'LaunchAlignEditorFromDesktop2': salsa.c:5371:20: warning: variable 'ompcp' set but not used [-Wunused-but-set-variable] OMProcControlPtr ompcp; ^ salsa.c: In function 'LaunchAlignEditorFromDesktop3': salsa.c:5390:20: warning: variable 'entityID' set but not used [-Wunused-but-set-variable] Uint2 entityID; ^ salsa.c: In function 'LaunchAlignEditorFromDesktop4': salsa.c:5417:20: warning: variable 'ompcp' set but not used [-Wunused-but-set-variable] OMProcControlPtr ompcp; ^ salsa.c: In function 'InsertSeqProc': salsa.c:5587:17: warning: variable 'cnclbt' set but not used [-Wunused-but-set-variable] ButtoN insbt, cnclbt; ^ salsa.c:5585:10: warning: variable 'insprt' set but not used [-Wunused-but-set-variable] PrompT insprt; ^ salsa.c: In function 'SeqAlignBestHit': salsa.c:5654:22: warning: variable 'last' set but not used [-Wunused-but-set-variable] Int4 last; ^ salsa.c: In function 'SeqAlignStartUpdate': salsa.c:5839:22: warning: variable 'k' set but not used [-Wunused-but-set-variable] Int2 index, k, j; ^ salsa.c:5838:15: warning: variable 'start' set but not used [-Wunused-but-set-variable] start; ^ salsa.c:5837:15: warning: variable 'len_sum' set but not used [-Wunused-but-set-variable] Int4 len_sum, ^ salsa.c:5834:15: warning: variable 'lenp' set but not used [-Wunused-but-set-variable] Int4Ptr lenp, ^ salsa.c:5833:15: warning: variable 'pre' set but not used [-Wunused-but-set-variable] SeqIdPtr pre, sip, next; ^ salsa.c: In function 'CCNormalizeSeqAlignId': salsa.c:6788:23: warning: unused variable 'gi' [-Wunused-variable] Int4 gi = 0; ^ salsa.c:6787:17: warning: unused variable 'missing_fmt' [-Wunused-variable] CharPtr missing_fmt = "The alignment contains %s that can not be found in GenBank.\nPlease check the accession number.\n"; ^ salsa.c:6786:17: warning: unused variable 'missing_cont_fmt' [-Wunused-variable] CharPtr missing_cont_fmt = "The alignment contains %s that can not be found in GenBank.\nPlease check the accession number.\nContinue anyway?\n"; ^ salsa.c: In function 'ValidateSeqAlignandACCEx': salsa.c:7145:16: warning: variable 'ans' set but not used [-Wunused-but-set-variable] MsgAnswer ans; ^ In file included from ../include/sqnutils.h:51:0, from ../include/dlogutil.h:50, from ../include/salpanel.h:53, from salsa.c:48: salsa.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from salsa.c:52:0: ../include/salprop.h:50:16: warning: 'GBFeat' defined but not used [-Wunused-variable] static CharPtr GBFeat[number_GBFeat] = { ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from salsa.c:68: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ salsa.c:87:13: warning: 'InsertSequenceDlg' declared 'static' but never defined [-Wunused-function] static void InsertSequenceDlg (ButtoN b); ^ salsa.c:1760:13: warning: 'AcceptCloseWindowButton' defined but not used [-Wunused-function] static void AcceptCloseWindowButton (ButtoN b) ^ salsa.c:2356:13: warning: 'MakeCdRgnProc' defined but not used [-Wunused-function] static void MakeCdRgnProc (IteM i) { ^ salsa.c:2360:13: warning: 'MakeCdRgnrProc' defined but not used [-Wunused-function] static void MakeCdRgnrProc (IteM i) { ^ salsa.c:4884:16: warning: 'DeltaLitOnly' defined but not used [-Wunused-function] static Boolean DeltaLitOnly (BioseqPtr bsp) ^ salsa.c:6021:13: warning: 'SWPrintFarpointerAln' defined but not used [-Wunused-function] static void SWPrintFarpointerAln(SeqAlignPtr sap, FILE *fp) ^ In file included from ../include/ncbi.h:65:0, from ../include/salsa.h:48, from salsa.c:43: salsa.c: In function 'ExportFASTAForUnselectedUpdates': ../include/ncbifile.h:138:19: warning: 'fp' may be used uninitialized in this function [-Wmaybe-uninitialized] #define FileClose Nlm_FileClose ^ salsa.c:6398:23: note: 'fp' was declared here FILE *fp; ^ In file included from ../include/ncbi.h:65:0, from ../include/salsa.h:48, from salsa.c:43: salsa.c: In function 'ExportBadAlignments': ../include/ncbifile.h:138:19: warning: 'fp' may be used uninitialized in this function [-Wmaybe-uninitialized] #define FileClose Nlm_FileClose ^ salsa.c:6366:23: note: 'fp' was declared here FILE *fp; ^ salsa.c: In function 'SeqAlignBestHit.isra.10': salsa.c:5795:23: warning: 'nctr' may be used uninitialized in this function [-Wmaybe-uninitialized] *nonly = nctr+beg+end; ^ salsa.c:5795:27: warning: 'end' may be used uninitialized in this function [-Wmaybe-uninitialized] *nonly = nctr+beg+end; ^ salsa.c:5795:23: warning: 'beg' may be used uninitialized in this function [-Wmaybe-uninitialized] *nonly = nctr+beg+end; ^ salsa.c: In function 'BioseqEditMsgFunc': salsa.c:912:51: warning: 'anp' may be used uninitialized in this function [-Wmaybe-uninitialized] ssp = SelStructNew (anp->seq_entityID, anp->bsp_itemID, OBJ_BIOSEQ, from, to, anp->sip, Seq_strand_plus, FALSE); ^ salsa.c:890:20: note: 'anp' was declared here AlignNodePtr anp; ^ salsa.c: In function 'DeleteProc': salsa.c:1955:165: warning: 'sap' may be used uninitialized in this function [-Wmaybe-uninitialized] if ((adp->sap1_original && (FindSeqIdinSeqAlign ((SeqAlignPtr)adp->sap1_original->data, SeqLocId(slp))) > 0) || (FindSeqIdinSeqAlign ((SeqAlignPtr)sap->data, SeqLocId(slp))) > 0) ^ salsa.c: In function 'SkipThisWindowProc': salsa.c:4591:6: warning: 'salp' may be used uninitialized in this function [-Wmaybe-uninitialized] LaunchAlignViewer(salp); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF seqfltr.c seqfltr.c: In function 'FilterSeq': seqfltr.c:259:21: warning: 'fptr' may be used uninitialized in this function [-Wmaybe-uninitialized] sgp->values = (Pointer) fptr; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF seqgraph.c seqgraph.c: In function 'EndPointDialogToEndPointValNode': seqgraph.c:140:10: warning: 'eplist' may be used uninitialized in this function [-Wmaybe-uninitialized] return (Pointer) eplist; ^ seqgraph.c: In function 'SeqLocGraphViewProc': seqgraph.c:1155:17: warning: 'eplist' may be used uninitialized in this function [-Wmaybe-uninitialized] if (eplist->next == NULL) ^ seqgraph.c: In function 'MarkPrims': seqgraph.c:911:11: warning: 'fval' may be used uninitialized in this function [-Wmaybe-uninitialized] val = fval/2; ^ seqgraph.c: In function 'CutOffProc': seqgraph.c:1050:20: warning: 'eplist' may be used uninitialized in this function [-Wmaybe-uninitialized] eplist->next = NULL; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF seqgrphx.c seqgrphx.c:28:25: warning: 'MatrixMsgFunc' defined but not used [-Wunused-function] static Int2 LIBCALLBACK MatrixMsgFunc (OMMsgStructPtr ommsp) ^ seqgrphx.c: In function 'FilterMsgFunc': seqgrphx.c:224:12: warning: 's' may be used uninitialized in this function [-Wmaybe-uninitialized] if (s == NULL) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF seqmtrx.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF seqpcc.c seqpcc.c: In function 'PCCProc': seqpcc.c:229:6: warning: 'pbsp' may be used uninitialized in this function [-Wmaybe-uninitialized] if ((spp = SeqPortNew (pbsp, start, end, 0, Seq_code_iupacaa)) != NULL) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF seqanal.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF aacomp.c aacomp.c:86:20: warning: 'AACGraph' defined but not used [-Wunused-function] static SeqGraphPtr AACGraph (SeqPortPtr spp, Int4 start, Int4 end, Int4 window, ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF seqscrl.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF valdlg.c valdlg.c: In function 'ClickRulesDoc': valdlg.c:373:22: warning: unused variable 'scroll_pos' [-Wunused-variable] Int2 scroll_pos = 0; ^ valdlg.c:372:22: warning: unused variable 'sb_vert' [-Wunused-variable] BaR sb_vert = NULL; ^ valdlg.c: In function 'UpdateRuleList': valdlg.c:479:26: warning: unused variable 'last_cr' [-Wunused-variable] CommentRulePtr new_cr, last_cr = NULL; ^ valdlg.c: In function 'SaveRuleChanges': valdlg.c:540:23: warning: variable 'dlg' set but not used [-Wunused-but-set-variable] CommentSetDlgPtr dlg; ^ valdlg.c: In function 'LaunchCommentRulesEditor': valdlg.c:553:23: warning: unused variable 'm' [-Wunused-variable] MenU m; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF vsm.c vsm.c: In function 'VSMAboutProc': vsm.c:1492:8: warning: variable 'p' set but not used [-Wunused-but-set-variable] PaneL p; ^ vsm.c: In function 'VSeqMgrCreateMainWindow': vsm.c:1601:12: warning: variable 'omp' set but not used [-Wunused-but-set-variable] ObjMgrPtr omp; ^ vsm.c: In function 'VSeqMgrPopulateMain': vsm.c:1742:13: warning: variable 'atp' set but not used [-Wunused-but-set-variable] AsnTypePtr atp; ^ vsm.c: In function 'VSMGatherPictProc': vsm.c:2225:15: warning: variable 'bssp' set but not used [-Wunused-but-set-variable] BioseqSetPtr bssp; ^ vsm.c:2220:30: warning: variable 'bottom' set but not used [-Wunused-but-set-variable] Int4 top, lineheight, left, bottom, width, maxwidth; ^ vsm.c: In function 'VSMAddPictureToEntity': vsm.c:2853:10: warning: variable 'ptr' set but not used [-Wunused-but-set-variable] Pointer ptr; ^ vsm.c:2852:13: warning: variable 'vnp' set but not used [-Wunused-but-set-variable] ValNodePtr vnp; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF vsmfile.c vsmfile.c: In function 'VSMGenericBinAsnOpen': vsmfile.c:259:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ vsmfile.c: In function 'VSMGenericFastaSave': vsmfile.c:395:11: warning: variable 'code' set but not used [-Wunused-but-set-variable] Uint1 code; ^ vsmfile.c: In function 'VSMFastaProtSaveWithProduct': vsmfile.c:527:11: warning: variable 'code' set but not used [-Wunused-but-set-variable] Uint1 code; ^ vsmfile.c: In function 'VSMSaveSetsAsFiles': vsmfile.c:1365:20: warning: variable 'ompcp' set but not used [-Wunused-but-set-variable] OMProcControlPtr ompcp; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF vsmutil.c vsmutil.c: In function 'GetDocPosForError': vsmutil.c:1657:18: warning: variable 'val' set but not used [-Wunused-but-set-variable] Int2 val; ^ vsmutil.c: At top level: vsmutil.c:387:20: warning: 'GetSeqDescGivenIDs' defined but not used [-Wunused-function] static SeqDescrPtr GetSeqDescGivenIDs (Uint2 entityID, Uint4 itemID, Uint2 itemtype) ^ vsmutil.c:1542:16: warning: 'MakeFieldReports' defined but not used [-Wunused-function] static Boolean MakeFieldReports (ValNodePtr report_list, ValNodePtr field_list, FILE *fp) ^ vsmutil.c: In function 'ContinueProc': vsmutil.c:2157:23: warning: iteration 6u invokes undefined behavior [-Waggressive-loop-optimizations] vep->counts [i] = 0; ^ vsmutil.c:2156:5: note: containing loop for (i = SEV_NONE; i <= SEV_MAX; i++) { ^ vsmutil.c: In function 'RevalidateProc': vsmutil.c:2124:23: warning: iteration 6u invokes undefined behavior [-Waggressive-loop-optimizations] vep->counts [i] = 0; ^ vsmutil.c:2123:5: note: containing loop for (i = SEV_NONE; i <= SEV_MAX; i++) { ^ vsmutil.c: In function 'SetVerbosityAndRepopulate': vsmutil.c:2198:23: warning: iteration 6u invokes undefined behavior [-Waggressive-loop-optimizations] vep->counts [i] = 0; ^ vsmutil.c:2197:5: note: containing loop for (i = SEV_NONE; i <= SEV_MAX; i++) { ^ vsmutil.c: In function 'ClearValidateWindow': vsmutil.c:613:27: warning: iteration 6u invokes undefined behavior [-Waggressive-loop-optimizations] vep->counts [sev] = 0; ^ vsmutil.c:612:7: note: containing loop for (sev = SEV_NONE; sev <= SEV_MAX; sev++) { ^ vsmutil.c: In function 'CreateValidateWindowExExEx': vsmutil.c:2521:27: warning: iteration 6u invokes undefined behavior [-Waggressive-loop-optimizations] vep->counts [i] = 0; ^ vsmutil.c:2520:9: note: containing loop for (i = SEV_NONE; i <= SEV_MAX; i++) { ^ vsmutil.c: In function 'MakeValidatorReport': vsmutil.c:879:17: warning: 'ch_2' may be used uninitialized in this function [-Wmaybe-uninitialized] *feat_end = ch_2; ^ vsmutil.c:838:17: note: 'ch_2' was declared here Char ch, ch_2; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF udvgraph.c udvgraph.c: In function 'UDV_click_item': udvgraph.c:877:9: warning: unused variable 'IsTransNeeded' [-Wunused-variable] Boolean IsTransNeeded=FALSE; ^ udvgraph.c: In function 'UDV_SendBSPSelectMsg': udvgraph.c:1230:13: warning: variable 'bDeselectAll' set but not used [-Wunused-but-set-variable] Boolean bDeselectAll=TRUE; ^ udvgraph.c:1226:30: warning: variable 'bsp_coord_old' set but not used [-Wunused-but-set-variable] Int4 first_bsp_coord, bsp_coord_old,old_pos; ^ udvgraph.c: In function 'UDV_draw_helixDNA': udvgraph.c:1827:15: warning: variable 'cyChar_2' set but not used [-Wunused-but-set-variable] Int2 cxChar_2,cyChar_2; ^ udvgraph.c: In function 'draw_logo': udvgraph.c:1940:38: warning: variable 'cyGlobal' set but not used [-Wunused-but-set-variable] Int2 pos,cxChar=7,cyChar=13,cxGlobal,cyGlobal; ^ udvgraph.c: In function 'UDV_draw_CDS_minus': udvgraph.c:2337:9: warning: variable 'bGiForProductOk' set but not used [-Wunused-but-set-variable] Boolean bGiForProductOk=FALSE; ^ udvgraph.c:2332:5: warning: variable 'numivals2' set but not used [-Wunused-but-set-variable] numivals2=0, ^ udvgraph.c: In function 'UDV_draw_CDS_plus': udvgraph.c:2461:9: warning: variable 'bGiForProductOk' set but not used [-Wunused-but-set-variable] Boolean bGiForProductOk=FALSE; ^ udvgraph.c: In function 'UDV_draw_panel': udvgraph.c:4041:21: warning: unused variable 'vnp_seqinfo' [-Wunused-variable] ValNodePtr vnp_seqinfo=NULL; ^ udvgraph.c:4035:45: warning: variable 'nLinesDraw' set but not used [-Wunused-but-set-variable] Int4 decal_haut,from_row,to_row,nTotRow,nLinesDraw; ^ udvgraph.c:4035:37: warning: variable 'nTotRow' set but not used [-Wunused-but-set-variable] Int4 decal_haut,from_row,to_row,nTotRow,nLinesDraw; ^ In file included from ../include/asn2ff6.h:142:0, from udvgraph.c:180: udvgraph.c: At top level: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ udvgraph.c:948:13: warning: 'UDV_draw_vert_cursor' defined but not used [-Wunused-function] static void UDV_draw_vert_cursor(RecT rcClip,PoinT pos) ^ udvgraph.c:971:14: warning: 'UDV_draw_horz_cursor' defined but not used [-Wunused-function] static void UDV_draw_horz_cursor(UnDViewerGraphDataPtr GrData, ^ udvgraph.c:1298:13: warning: 'UDV_AutoSelectAllSeq' defined but not used [-Wunused-function] static void UDV_AutoSelectAllSeq(ViewerDialogDataPtr vdp,Boolean bSelect) ^ udvgraph.c:3433:14: warning: 'UDV_Draw_features_label' defined but not used [-Wunused-function] static void UDV_Draw_features_label(UnDViewerGraphDataPtr GrData, ^ udvgraph.c:3921:14: warning: 'UDV_calc_decalRC' defined but not used [-Wunused-function] static Int4 UDV_calc_decalRC(ValNodePtr ParaG,Int4 ScrollPos, ^ udvgraph.c: In function 'UDV_GetCurrentDispRange': udvgraph.c:638:15: warning: 'pgp' may be used uninitialized in this function [-Wmaybe-uninitialized] *from_bsp=pgp->StartLetter; ^ udvgraph.c: In function 'UDV_Draw_features': udvgraph.c:3203:45: warning: 'idx6' may be used uninitialized in this function [-Wmaybe-uninitialized] UDV_draw_thin_line((Int2)(start_x+idx5),(Int2)(stop_x+idx6),y, ^ udvgraph.c:3203:24: warning: 'idx5' may be used uninitialized in this function [-Wmaybe-uninitialized] UDV_draw_thin_line((Int2)(start_x+idx5),(Int2)(stop_x+idx6),y, ^ udvgraph.c:3196:47: warning: 'idx4' may be used uninitialized in this function [-Wmaybe-uninitialized] stop2=_min_(pgp->StopLetter,context->ivals[idx4]); ^ udvgraph.c:3189:45: warning: 'idx3' may be used uninitialized in this function [-Wmaybe-uninitialized] UDV_draw_thin_line((Int2)(start_x+idx2),(Int2)(stop_x+idx3),y, ^ udvgraph.c:3189:24: warning: 'idx2' may be used uninitialized in this function [-Wmaybe-uninitialized] UDV_draw_thin_line((Int2)(start_x+idx2),(Int2)(stop_x+idx3),y, ^ udvgraph.c:3182:49: warning: 'idx1' may be used uninitialized in this function [-Wmaybe-uninitialized] start2=_max_(pgp->StartLetter,context->ivals[idx1]); ^ In file included from ../include/udviewer.h:225:0, from udvgraph.c:177: ../include/udvdef.h:187:40: warning: 'stop_x2' may be used uninitialized in this function [-Wmaybe-uninitialized] #define _max_(a,b) ((a)>=(b)?(a):(b)) ^ udvgraph.c:2803:21: note: 'stop_x2' was declared here Int2 start_x,stop_x,stop_x2, /*id. but in pixels*/ ^ udvgraph.c: In function 'UDV_ClickProc': udvgraph.c:1461:8: warning: 'vmp' may be used uninitialized in this function [-Wmaybe-uninitialized] UDV_SelectFeatInFeatDlg(vmp,entityID,itemID); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF udvopen.c udvopen.c: In function 'UDV_FileOpen': udvopen.c:875:16: warning: variable 'b2' set but not used [-Wunused-but-set-variable] ButtoN b,b1,b2; ^ udvopen.c:875:11: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b,b1,b2; ^ udvopen.c: In function 'UDV_CreateListBioseqDlg': udvopen.c:1180:9: warning: the address of 'szName' will always evaluate as 'true' [-Waddress] if (szName){ ^ udvopen.c: In function 'UDV_FOpenCancelProc': udvopen.c:792:23: warning: 'vmp' may be used uninitialized in this function [-Wmaybe-uninitialized] UDV_set_PullMenus(&vmp->MainMenu,TRUE); ^ udvopen.c: In function 'UDV_analyze_SEP_for_open': udvopen.c:325:15: warning: 'entityID' may be used uninitialized in this function [-Wmaybe-uninitialized] vmp->entityID=entityID; ^ udvopen.c:327:14: warning: 'dataptr' may be used uninitialized in this function [-Wmaybe-uninitialized] vmp->dataptr=dataptr; ^ udvopen.c: In function 'UDV_FOpenAcceptProc': udvopen.c:855:23: warning: 'vmp' may be used uninitialized in this function [-Wmaybe-uninitialized] UDV_set_PullMenus(&vmp->MainMenu,TRUE); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF udvpanel.c udvpanel.c: In function 'UDV_GotoBtnProc': udvpanel.c:2080:22: warning: variable 'old_ivalue' set but not used [-Wunused-but-set-variable] Int4 iValue,old_ivalue,line_num,from_bsp,to_bsp, ^ udvpanel.c:2079:15: warning: variable 'vnp' set but not used [-Wunused-but-set-variable] ValNodePtr vnp; ^ udvpanel.c: In function 'CreateMainControls': udvpanel.c:2165:8: warning: variable 'cxChar' set but not used [-Wunused-but-set-variable] Int2 cxChar,cyChar,Margins; ^ udvpanel.c: In function 'UDV_SearchFeatForKey': udvpanel.c:3478:14: warning: variable 'b2' set but not used [-Wunused-but-set-variable] ButtoN b1,b2; ^ udvpanel.c: At top level: udvpanel.c:2773:28: warning: 'FeaturesListBoxScan' defined but not used [-Wunused-function] static Boolean LIBCALLBACK FeaturesListBoxScan (SeqFeatPtr sfp, ^ In file included from ../include/vibrant.h:130:0, from ../include/udviewer.h:220, from udvpanel.c:197: udvpanel.c: In function 'InitFeaturesListDlg': ../include/vibdefns.h:315:19: warning: 'pop' may be used uninitialized in this function [-Wmaybe-uninitialized] #define PopupItem Nlm_PopupItem ^ udvpanel.c:3194:7: note: 'pop' was declared here PopuP pop; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF dotvibrant.c dotvibrant.c: In function 'DOT_DisplayHits': dotvibrant.c:564:18: warning: variable 'ycomp' set but not used [-Wunused-but-set-variable] Int4 ycomp, xcomp; ^ dotvibrant.c: In function 'DOT_VscrlProc': dotvibrant.c:918:16: warning: variable 'visLines' set but not used [-Wunused-but-set-variable] Int2 visLines, vmargin, hmargin; ^ dotvibrant.c: In function 'DOT_HscrlProc': dotvibrant.c:972:20: warning: variable 'visLines' set but not used [-Wunused-but-set-variable] Int2 dx, visLines, offset, hmargin, vmargin; ^ dotvibrant.c: In function 'DOT_VCrossHairs': dotvibrant.c:1402:10: warning: unused variable 'cursor_size' [-Wunused-variable] Int4 cursor_size =15; ^ dotvibrant.c: In function 'DOT_HCrossHairs': dotvibrant.c:1427:9: warning: unused variable 'cursor_size' [-Wunused-variable] Int4 cursor_size = 15; ^ dotvibrant.c: In function 'DOT_MoveCrossHairs': dotvibrant.c:1453:18: warning: variable 'data' set but not used [-Wunused-but-set-variable] DOTSelDataPtr data; ^ dotvibrant.c:1452:10: warning: unused variable 'cursor_size' [-Wunused-variable] Int4 cursor_size = 15; ^ dotvibrant.c: In function 'DOT_DrawXAxis': dotvibrant.c:1532:38: warning: unused variable 'title' [-Wunused-variable] Char scale_buf[15] = {""}, title[50]={""}; /*scale value*/ ^ dotvibrant.c: In function 'DOT_DrawYAxis': dotvibrant.c:1642:38: warning: unused variable 'title' [-Wunused-variable] Char scale_buf[15] = {""}, title[50]={""}; /*scale value*/ ^ dotvibrant.c:1641:55: warning: variable 'Fh_4' set but not used [-Wunused-but-set-variable] Int4 pos, ylen, x, y, scale_pos, i, j, Fh_2,Fh_4; ^ dotvibrant.c: In function 'DOT_SVDisplayDiags': dotvibrant.c:1770:28: warning: variable 'aln_diag' set but not used [-Wunused-but-set-variable] Int4 diag, aln_diag; ^ dotvibrant.c:1770:22: warning: variable 'diag' set but not used [-Wunused-but-set-variable] Int4 diag, aln_diag; ^ dotvibrant.c:1766:22: warning: variable 'width' set but not used [-Wunused-but-set-variable] Int4 width, height; ^ dotvibrant.c:1765:31: warning: variable 'p_HFrom' set but not used [-Wunused-but-set-variable] Int4 p_VFrom, p_HFrom; ^ dotvibrant.c:1765:22: warning: variable 'p_VFrom' set but not used [-Wunused-but-set-variable] Int4 p_VFrom, p_HFrom; ^ dotvibrant.c:1762:28: warning: unused variable 'cutoff' [-Wunused-variable] Int4 stop, cutoff=0, q_start, s_start, length; ^ dotvibrant.c:1760:34: warning: variable 'seg3' set but not used [-Wunused-but-set-variable] SegmenT seg1, seg2, seg3, seg4; ^ dotvibrant.c: In function 'DOT_FillNewSeqBufs': dotvibrant.c:2197:19: warning: unused variable 'alp' [-Wunused-variable] DOTAlignInfoPtr alp=NULL; ^ dotvibrant.c: In function 'DOT_InitCInfo': dotvibrant.c:2258:14: warning: unused variable 'colBuf' [-Wunused-variable] Char colBuf[12]={""}; ^ dotvibrant.c: In function 'DOT_SVDisplaySequence': dotvibrant.c:2379:16: warning: variable 'matrix' set but not used [-Wunused-but-set-variable] Int4Ptr PNTR matrix; ^ dotvibrant.c:2367:14: warning: variable 'vis_2' set but not used [-Wunused-but-set-variable] Int4 vis_2, buf_len; ^ dotvibrant.c:2364:14: warning: unused variable 'prot_threshold' [-Wunused-variable] Int4 prot_threshold=0, bloc_cntr; ^ dotvibrant.c:2350:24: warning: variable 'mip2' set but not used [-Wunused-but-set-variable] DOTMainDataPtr mip1, mip2; ^ dotvibrant.c: In function 'DOT_SVClickProc': dotvibrant.c:2807:17: warning: unused variable 'handled' [-Wunused-variable] Int2 handled=0; ^ dotvibrant.c: In function 'DOT_ResizeFeatWindow': dotvibrant.c:3016:63: warning: variable 'SubjectHeight' set but not used [-Wunused-but-set-variable] Int2 height,width,vsbWidth,in,gap,hsbHeight,QueryHeight,SubjectHeight, halfw; ^ dotvibrant.c:3016:51: warning: variable 'QueryHeight' set but not used [-Wunused-but-set-variable] Int2 height,width,vsbWidth,in,gap,hsbHeight,QueryHeight,SubjectHeight, halfw; ^ dotvibrant.c:3016:37: warning: variable 'gap' set but not used [-Wunused-but-set-variable] Int2 height,width,vsbWidth,in,gap,hsbHeight,QueryHeight,SubjectHeight, halfw; ^ dotvibrant.c: In function 'DOT_ResizeSequenceWindow': dotvibrant.c:3098:25: warning: variable 'is_visible2' set but not used [-Wunused-but-set-variable] Boolean is_visible1, is_visible2; ^ dotvibrant.c:3098:12: warning: variable 'is_visible1' set but not used [-Wunused-but-set-variable] Boolean is_visible1, is_visible2; ^ dotvibrant.c:3095:51: warning: variable 'V1Height' set but not used [-Wunused-but-set-variable] Int2 height,width,gap,vsbWidth,in,hsbHeight,V1Height,V2Height, goHeight; ^ dotvibrant.c: In function 'DOT_HideFeatDlg': dotvibrant.c:3745:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ dotvibrant.c: In function 'DOT_SVBuildDiagViewer': dotvibrant.c:4031:18: warning: variable 'mip' set but not used [-Wunused-but-set-variable] DOTMainDataPtr mip; ^ dotvibrant.c:4029:28: warning: unused variable 'str2' [-Wunused-variable] Char str1[41]={""}, str2[41]={""}; ^ dotvibrant.c:4029:13: warning: unused variable 'str1' [-Wunused-variable] Char str1[41]={""}, str2[41]={""}; ^ dotvibrant.c:4022:18: warning: variable 'pr2' set but not used [-Wunused-but-set-variable] PrompT pr1, pr2; ^ dotvibrant.c:4022:13: warning: variable 'pr1' set but not used [-Wunused-but-set-variable] PrompT pr1, pr2; ^ dotvibrant.c: In function 'DOT_UpdateDataRects': dotvibrant.c:4166:19: warning: variable 'dy' set but not used [-Wunused-but-set-variable] Int4 comp, dx, dy, xstart, ystart; ^ dotvibrant.c:4166:15: warning: variable 'dx' set but not used [-Wunused-but-set-variable] Int4 comp, dx, dy, xstart, ystart; ^ dotvibrant.c: In function 'DOT_MsgFunc': dotvibrant.c:4215:17: warning: variable 'vdp2' set but not used [-Wunused-but-set-variable] DOTVibDataPtr vdp2 = NULL; ^ dotvibrant.c: In function 'DOT_ReleaseProc': dotvibrant.c:4373:32: warning: unused variable 'yaxis_incr' [-Wunused-variable] Boolean xaxis_incr=TRUE, yaxis_incr=TRUE; ^ dotvibrant.c:4373:15: warning: unused variable 'xaxis_incr' [-Wunused-variable] Boolean xaxis_incr=TRUE, yaxis_incr=TRUE; ^ dotvibrant.c:4371:19: warning: variable 'alp' set but not used [-Wunused-but-set-variable] DOTAlignInfoPtr alp=NULL; ^ dotvibrant.c:4370:18: warning: variable 'mip1' set but not used [-Wunused-but-set-variable] DOTMainDataPtr mip1=NULL; ^ dotvibrant.c: In function 'DOT_StartDOTPLOT': dotvibrant.c:4891:23: warning: variable 'vdp' set but not used [-Wunused-but-set-variable] DOTVibDataPtr vdp; ^ dotvibrant.c: In function 'DOT_DoZoom': dotvibrant.c:5106:18: warning: variable 'data' set but not used [-Wunused-but-set-variable] DOTSelDataPtr data; ^ dotvibrant.c: In function 'DOT_ZoomProc': dotvibrant.c:5204:23: warning: variable 'temport' set but not used [-Wunused-but-set-variable] WindoW temport, w; ^ dotvibrant.c: In function 'AlnMgr2GetNextLine': dotvibrant.c:5315:3: warning: value computed is not used [-Wunused-value] *n++; ^ dotvibrant.c: In function 'DOT_GetAlign': dotvibrant.c:5332:44: warning: variable 'n' set but not used [-Wunused-but-set-variable] Int4 x1, y1, x2, y2, numlines=0, n=0, i=0; ^ dotvibrant.c: In function 'DOT_FillAlignInfoPointer': dotvibrant.c:5565:16: warning: unused variable 'i' [-Wunused-variable] Int4 i=0, n=0; ^ dotvibrant.c: In function 'DOT_Prob_FillAlignInfoPointer': dotvibrant.c:5681:16: warning: unused variable 'i' [-Wunused-variable] Int4 i=0, n=0; ^ dotvibrant.c:5680:16: warning: unused variable 'numsaps' [-Wunused-variable] Int4 numsaps = 0, numlines = 0; ^ dotvibrant.c:5678:37: warning: unused variable 'sap_tmp' [-Wunused-variable] SeqAlignPtr sap=NULL, salp=NULL, sap_tmp=NULL; ^ dotvibrant.c: In function 'DOT_DoBlast': dotvibrant.c:5918:23: warning: unused variable 'eval' [-Wunused-variable] Char eval[11]={""}; ^ dotvibrant.c:5917:23: warning: variable 'is_local' set but not used [-Wunused-but-set-variable] Boolean is_local; ^ dotvibrant.c:5915:23: warning: unused variable 'entityID' [-Wunused-variable] Uint2 entityID=0; ^ dotvibrant.c: In function 'DOT_CreateWindowDetails': dotvibrant.c:6214:27: warning: variable 'pr2' set but not used [-Wunused-but-set-variable] PrompT pr1, pr2; ^ dotvibrant.c:6214:22: warning: variable 'pr1' set but not used [-Wunused-but-set-variable] PrompT pr1, pr2; ^ dotvibrant.c:6207:21: warning: variable 'g1' set but not used [-Wunused-but-set-variable] GrouP g, g1, g2; ^ dotvibrant.c: In function 'DOT_ResizeMainWindow': dotvibrant.c:6273:35: warning: variable 'gap' set but not used [-Wunused-but-set-variable] Int2 height, width, in , gap; ^ dotvibrant.c: In function 'DOT_FindAlignment': dotvibrant.c:6662:29: warning: unused variable 'rb_fixed' [-Wunused-variable] Boolean lt_fixed=FALSE, rb_fixed=FALSE; ^ dotvibrant.c:6662:13: warning: unused variable 'lt_fixed' [-Wunused-variable] Boolean lt_fixed=FALSE, rb_fixed=FALSE; ^ dotvibrant.c:6661:17: warning: variable 'data' set but not used [-Wunused-but-set-variable] DOTSelDataPtr data; ^ dotvibrant.c: In function 'SCP_CompareOrderOrganizeBioseqs': dotvibrant.c:6792:25: warning: variable 'itemID' set but not used [-Wunused-but-set-variable] Uint4 itemID=0; ^ dotvibrant.c: In function 'SCP_OrganizeAlnsInSet': dotvibrant.c:6873:21: warning: variable 'indextype' set but not used [-Wunused-but-set-variable] Int4 indextype; ^ In file included from ../include/sqnutils.h:51:0, from ../include/alignmgr2.h:111, from ../include/actutils.h:105, from ../include/dotviewer.h:32, from dotvibrant.c:84: dotvibrant.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from ../include/actutils.h:105, from ../include/dotviewer.h:32, from dotvibrant.c:84: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ dotvibrant.c:2760:16: warning: 'DOT_SVGetDiag' defined but not used [-Wunused-function] static Boolean DOT_SVGetDiag (Uint2 segID, Uint2 primID, VoidPtr userdata) ^ dotvibrant.c:2954:13: warning: 'DOT_SVChangeLabels' defined but not used [-Wunused-function] static void DOT_SVChangeLabels (GrouP g) ^ dotvibrant.c:3318:13: warning: 'DOT_AddFeatureToSegment' defined but not used [-Wunused-function] static void DOT_AddFeatureToSegment(SeqMgrFeatContextPtr context, ^ dotvibrant.c:3688:13: warning: 'DOT_HideAcceptProc' defined but not used [-Wunused-function] static void DOT_HideAcceptProc(ButtoN b) ^ dotvibrant.c:4213:25: warning: 'DOT_MsgFunc' defined but not used [-Wunused-function] static Int2 LIBCALLBACK DOT_MsgFunc (OMMsgStructPtr ommsp) ^ dotvibrant.c:4749:13: warning: 'DOT_GetInfoProc' defined but not used [-Wunused-function] static void DOT_GetInfoProc (IteM i) ^ dotvibrant.c:4767:13: warning: 'DOT_FeatAnalysisProc' defined but not used [-Wunused-function] static void DOT_FeatAnalysisProc(ButtoN b) ^ dotvibrant.c:5281:16: warning: 'AlnMgr2GetNextLine' defined but not used [-Wunused-function] static Boolean AlnMgr2GetNextLine(SeqAlignPtr sap, AlnMsg2Ptr amp1, AlnMsg2Ptr amp2, Int4Ptr x1, Int4Ptr y1, Int4Ptr x2, Int4Ptr y2, Int4Ptr n) ^ dotvibrant.c:5325:16: warning: 'DOT_GetAlign' defined but not used [-Wunused-function] static Boolean DOT_GetAlign (DOTAlignInfoPtr alp) ^ dotvibrant.c:5894:16: warning: 'DOT_get_eval' defined but not used [-Wunused-function] static FloatHi DOT_get_eval(Int4 exp) ^ dotvibrant.c:6346:13: warning: 'DOT_NewAnalysis' defined but not used [-Wunused-function] static void DOT_NewAnalysis (ButtoN b) ^ dotvibrant.c:6642:16: warning: 'DOT_DeselectPrim' defined but not used [-Wunused-function] static Boolean DOT_DeselectPrim (SegmenT seg, PrimitivE prim, Uint2 segID,Uint2 primID, Uint2 primCt, VoidPtr userdata) ^ dotvibrant.c: In function 'DOT_GetNthSeqFromAlign': dotvibrant.c:5087:3: warning: 'spp' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqPortFree(spp); ^ dotvibrant.c: In function 'DOT_SVPopulateSequenceViewer': dotvibrant.c:2611:19: warning: 'strand2' may be used uninitialized in this function [-Wmaybe-uninitialized] DOT_DrawScale(sbSeg, strand1, strand2, rc, margin, res_cnt, bloc_cntr, Fh, q_pos, s_pos, chw_2, chw_4); ^ dotvibrant.c:2380:23: note: 'strand2' was declared here Uint1 strand1, strand2; ^ dotvibrant.c:2611:19: warning: 'strand1' may be used uninitialized in this function [-Wmaybe-uninitialized] DOT_DrawScale(sbSeg, strand1, strand2, rc, margin, res_cnt, bloc_cntr, Fh, q_pos, s_pos, chw_2, chw_4); ^ dotvibrant.c:2380:14: note: 'strand1' was declared here Uint1 strand1, strand2; ^ dotvibrant.c:2560:45: warning: 'residue_names' may be used uninitialized in this function [-Wmaybe-uninitialized] qBuf[c]=*residue_names[(int)*q]; ^ dotvibrant.c:2378:16: note: 'residue_names' was declared here CharPtr PNTR residue_names; ^ dotvibrant.c:2611:19: warning: 's_pos' may be used uninitialized in this function [-Wmaybe-uninitialized] DOT_DrawScale(sbSeg, strand1, strand2, rc, margin, res_cnt, bloc_cntr, Fh, q_pos, s_pos, chw_2, chw_4); ^ dotvibrant.c:2370:42: note: 's_pos' was declared here Int4 hit_start, hit_stop, q_pos, s_pos; ^ dotvibrant.c:2611:19: warning: 'q_pos' may be used uninitialized in this function [-Wmaybe-uninitialized] DOT_DrawScale(sbSeg, strand1, strand2, rc, margin, res_cnt, bloc_cntr, Fh, q_pos, s_pos, chw_2, chw_4); ^ dotvibrant.c:2370:35: note: 'q_pos' was declared here Int4 hit_start, hit_stop, q_pos, s_pos; ^ dotvibrant.c:2504:11: warning: 'hit_stop' may be used uninitialized in this function [-Wmaybe-uninitialized] hit_stop+=hit_stop/10; ^ dotvibrant.c:2370:25: note: 'hit_stop' was declared here Int4 hit_start, hit_stop, q_pos, s_pos; ^ dotvibrant.c:2570:26: warning: 'hit_start' may be used uninitialized in this function [-Wmaybe-uninitialized] if (hit_start<=i && i<=(hit_stop+bloc_size)) ^ dotvibrant.c:2370:14: note: 'hit_start' was declared here Int4 hit_start, hit_stop, q_pos, s_pos; ^ dotvibrant.c:2503:16: warning: 'buf_len' may be used uninitialized in this function [-Wmaybe-uninitialized] end=s+buf_len-1; ^ dotvibrant.c:2367:21: note: 'buf_len' was declared here Int4 vis_2, buf_len; ^ dotvibrant.c:2545:18: warning: 'is_na' may be used uninitialized in this function [-Wmaybe-uninitialized] if (is_na) ^ dotvibrant.c:2361:27: note: 'is_na' was declared here Boolean ambig=FALSE, is_na; ^ dotvibrant.c:2503:6: warning: 's' may be used uninitialized in this function [-Wmaybe-uninitialized] end=s+buf_len-1; ^ dotvibrant.c:2357:14: note: 's' was declared here Uint1Ptr s; ^ dotvibrant.c:2626:16: warning: 'q' may be used uninitialized in this function [-Wmaybe-uninitialized] q++; ^ dotvibrant.c:2356:14: note: 'q' was declared here Uint1Ptr q; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF dlgutil1.c dlgutil1.c: In function 'IsAuthList': dlgutil1.c:3008:8: warning: variable 'len' set but not used [-Wunused-but-set-variable] Int4 len; ^ dlgutil1.c: In function 'TestAuthorDialog': dlgutil1.c:3357:20: warning: unused variable 'cp' [-Wunused-variable] CharPtr cp; ^ dlgutil1.c: In function 'TestIntervalEditor': dlgutil1.c:5318:20: warning: variable 'fuzz_to' set but not used [-Wunused-but-set-variable] Int2 fuzz_to; ^ dlgutil1.c:5317:20: warning: variable 'fuzz_from' set but not used [-Wunused-but-set-variable] Int2 fuzz_from; ^ dlgutil1.c:5316:41: warning: variable 'fuzz_before' set but not used [-Wunused-but-set-variable] Boolean isInterval, isPoint, fuzz_before, fuzz_after; ^ dlgutil1.c: In function 'CreateStandardEditMenu': dlgutil1.c:9189:8: warning: variable 'i' set but not used [-Wunused-but-set-variable] IteM i; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from dlgutil1.c:55: dlgutil1.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ dlgutil1.c:8061:16: warning: 'ParseSpecimenVoucherOk' defined but not used [-Wunused-function] static Boolean ParseSpecimenVoucherOk (CharPtr str) ^ dlgutil1.c:8378:25: warning: 'GetNthNameValuePair' defined but not used [-Wunused-function] static NameValuePairPtr GetNthNameValuePair (Int4 n, ValNodePtr list) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF dlgutil2.c dlgutil2.c: In function 'CreateImportFields': dlgutil2.c:1401:19: warning: variable 'is_gap' set but not used [-Wunused-but-set-variable] Boolean is_gap = FALSE; ^ dlgutil2.c: In function 'UpdateTableDisplayDialogScrollBars': dlgutil2.c:3532:11: warning: variable 'y' set but not used [-Wunused-but-set-variable] Int4 x, y; ^ dlgutil2.c:3532:8: warning: variable 'x' set but not used [-Wunused-but-set-variable] Int4 x, y; ^ dlgutil2.c: In function 'GetTableDisplayCell': dlgutil2.c:3931:8: warning: variable 'start_row' set but not used [-Wunused-but-set-variable] Int4 start_row, start_col; ^ dlgutil2.c: In function 'NewCreateInferenceDialog': dlgutil2.c:7600:19: warning: variable 'fnt' set but not used [-Wunused-but-set-variable] FonT fnt; ^ dlgutil2.c: In function 'ClickableListOnKey': dlgutil2.c:10202:20: warning: variable 'clp' set but not used [-Wunused-but-set-variable] ClickableListPtr clp; ^ dlgutil2.c: In function 'GetSelectedClickableListText': dlgutil2.c:10874:36: warning: variable 'char_offset' set but not used [-Wunused-but-set-variable] Int2 item, row, col, char_offset; ^ dlgutil2.c: In function 'AutomatchFeatures': dlgutil2.c:13840:36: warning: variable 's3' set but not used [-Wunused-but-set-variable] SeqIntPtr s1, s2, s3; ^ dlgutil2.c: At top level: dlgutil2.c:1672:16: warning: 'GetNameForFeature' defined but not used [-Wunused-function] static CharPtr GetNameForFeature (SeqFeatPtr sfp) ^ dlgutil2.c:8577:13: warning: 'GetCategoryNumFromName' defined but not used [-Wunused-function] static Int4 GetCategoryNumFromName (CharPtr category) ^ dlgutil2.c:10039:13: warning: 'DrawClickableListItem' defined but not used [-Wunused-function] static void DrawClickableListItem (DoC d, RectPtr r, Int2 item, Int2 firstLine) ^ dlgutil2.c:10059:13: warning: 'ClickClickableListItem' defined but not used [-Wunused-function] static void ClickClickableListItem (DoC d, PoinT pt) ^ dlgutil2.c:11993:16: warning: 'ParseMultiListQualOk' defined but not used [-Wunused-function] static Boolean ParseMultiListQualOk (CharPtr val) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF e2trmlst.c e2trmlst.c: In function 'ReadAFew': e2trmlst.c:2230:61: warning: left-hand operand of comma expression has no effect [-Wunused-value] for (row = 1, termPtr = e2TermListPtr->list; row <= *count, termPtr != NULL; row++, termPtr = termPtr->next) { ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF e2docsum.c e2docsum.c: In function 'FormatCdsSeq': e2docsum.c:1523:22: warning: variable 'gene' set but not used [-Wunused-but-set-variable] SeqFeatPtr gene = NULL; ^ e2docsum.c: In function 'FetchSequence': e2docsum.c:1591:16: warning: variable 'currDbName' set but not used [-Wunused-but-set-variable] CharPtr currDbName; ^ e2docsum.c:1580:16: warning: variable 'group_segs' set but not used [-Wunused-but-set-variable] Uint1 group_segs = 0; ^ e2docsum.c: In function 'SaveDocsumProject': e2docsum.c:3606:16: warning: variable 'sfp' set but not used [-Wunused-but-set-variable] SummFormPtr sfp; ^ e2docsum.c: In function 'RetrieveGeneration': e2docsum.c:4135:19: warning: variable 'e2ip' set but not used [-Wunused-but-set-variable] Entrez2InfoPtr e2ip; ^ e2docsum.c: In function 'SetupMenus': e2docsum.c:4849:16: warning: variable 'c' set but not used [-Wunused-but-set-variable] ChoicE c; ^ In file included from ../include/sqnutils.h:51:0, from ../include/dlogutil.h:50, from ../include/bspview.h:48, from e2docsum.c:53: e2docsum.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strucapi.h:52:0, from e2docsum.c:62: ../include/objmime.h:145:29: warning: 'Data_dataFree' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataFree PROTO ((Data_dataPtr )); ^ ../include/objmime.h:146:29: warning: 'Data_dataAsnRead' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:147:24: warning: 'Data_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Data_dataAsnWrite PROTO (( Data_dataPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:285:47: warning: 'SeqAlignData_seq_align_dataFree' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataFree PROTO ((SeqAlignData_seq_align_dataPtr )); ^ ../include/objmime.h:286:47: warning: 'SeqAlignData_seq_align_dataAsnRead' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:287:24: warning: 'SeqAlignData_seq_align_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL SeqAlignData_seq_align_dataAsnWrite PROTO (( SeqAlignData_seq_align_dataPtr , AsnIoPtr, AsnTypePtr)); ^ e2docsum.c:2154:20: warning: 'cddDocProcs' defined but not used [-Wunused-variable] static DocPrntProc cddDocProcs [] = { Query_FetchDocSum, Query_FetchFields, FetchUid, NULL }; ^ e2docsum.c:2850:13: warning: 'GetBiostrucComplexity' defined but not used [-Wunused-function] static Int4 GetBiostrucComplexity (void) ^ e2docsum.c:2883:13: warning: 'GetBiostrucMaxModels' defined but not used [-Wunused-function] static Int4 GetBiostrucMaxModels (void) ^ e2docsum.c: In function 'LaunchStructureViewer': e2docsum.c:2981:3: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ e2docsum.c: In function 'LaunchSequin': e2docsum.c:2838:3: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF asn2graphic.c asn2graphic.c: In function 'ParseFilterItem': asn2graphic.c:1191:21: warning: variable 'j' set but not used [-Wunused-but-set-variable] Int2 i, j; ^ asn2graphic.c: In function 'GeneProductsLayoutInternal': asn2graphic.c:3730:36: warning: variable 'featureStart' set but not used [-Wunused-but-set-variable] Int4 newLeft, featureStart, rowMaxRight; ^ asn2graphic.c: In function 'ScaleSntDrawProc': asn2graphic.c:4401:28: warning: variable 'r' set but not used [-Wunused-but-set-variable] RecT r; ^ asn2graphic.c: In function 'GphSentProc': asn2graphic.c:4996:16: warning: variable 'scaleY' set but not used [-Wunused-but-set-variable] Int4 scaleY; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from asn2graphic.c:46: asn2graphic.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ asn2graphic.c: In function 'ProcessRows': asn2graphic.c:4361:13: warning: 'SegmentTreeBot' may be used uninitialized in this function [-Wmaybe-uninitialized] if (! EnsureFeatureHasSegment (FPSP, featdeftype, SegmentTreeBot)) return 0; ^ asn2graphic.c:4353:24: warning: 'SegmentTreeMid' may be used uninitialized in this function [-Wmaybe-uninitialized] SegmentTreeBot = CreateSegment (SegmentTreeMid, 0, 0); ^ asn2graphic.c:4349:24: warning: 'SegmentTreeTop' may be used uninitialized in this function [-Wmaybe-uninitialized] SegmentTreeMid = CreateSegment (SegmentTreeTop , 0, 0); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF medview.c medview.c: In function 'PrintMedlineViewForm': medview.c:588:7: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF bspview.c In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from bspview.c:61: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from bspview.c:61: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from bspview.c:61: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from bspview.c:61: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF gbfview.c gbfview.c: In function 'RelModeFailText': gbfview.c:1004:22: warning: variable 'hasPubs' set but not used [-Wunused-but-set-variable] Boolean hasPubs; ^ gbfview.c: In function 'PopulateFlatFile': gbfview.c:1289:22: warning: variable 'doColors' set but not used [-Wunused-but-set-variable] Boolean doColors; ^ gbfview.c: In function 'PopulateFasta': gbfview.c:1714:33: warning: left-hand operand of comma expression has no effect [-Wunused-value] if (ISA_na (bsp->mol)) {TRUE, ^ gbfview.c:1646:20: warning: variable 'group_segs' set but not used [-Wunused-but-set-variable] Uint1 group_segs; ^ gbfview.c: In function 'PopulateAsnOrXML': gbfview.c:1969:16: warning: variable 'lookupFar' set but not used [-Wunused-but-set-variable] Boolean lookupFar = FALSE; ^ gbfview.c:1968:16: warning: variable 'lockFar' set but not used [-Wunused-but-set-variable] Boolean lockFar = FALSE; ^ gbfview.c: At top level: gbfview.c:289:16: warning: 'ColorIcon' defined but not used [-Wunused-function] static Boolean ColorIcon ( ^ gbfview.c:944:13: warning: 'LookForPubs' defined but not used [-Wunused-function] static void LookForPubs (BioseqPtr bsp, Pointer userdata) ^ gbfview.c:1212:13: warning: 'LookForFarBsp' defined but not used [-Wunused-function] static void LookForFarBsp ( ^ gbfview.c:1231:13: warning: 'LookForFarProds' defined but not used [-Wunused-function] static void LookForFarProds ( ^ gbfview.c: In function 'PrintFlatFileFastaOrAsn': gbfview.c:2491:5: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ gbfview.c: In function 'ReleaseIcon': gbfview.c:667:21: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF gphview.c gphview.c: In function 'ReleaseAlignment': gphview.c:1306:18: warning: variable 'slp' set but not used [-Wunused-but-set-variable] SeqLocPtr slp; ^ gphview.c: In function 'DrawAlignOnAllSequences': gphview.c:1391:10: warning: variable 'vn' set but not used [-Wunused-but-set-variable] ValNode vn; ^ gphview.c: In function 'ReleaseDesktop': gphview.c:1836:18: warning: variable 'seg' set but not used [-Wunused-but-set-variable] SegmenT seg; ^ gphview.c: In function 'AutoScrollGeneName': gphview.c:2100:21: warning: variable 'num' set but not used [-Wunused-but-set-variable] Int2 num; ^ gphview.c: In function 'DisplayGeneChoiceWindow': gphview.c:2426:22: warning: variable 'p' set but not used [-Wunused-but-set-variable] PrompT p; ^ gphview.c: In function 'PrintGraphical': gphview.c:3268:14: warning: unused variable 'ans' [-Wunused-variable] MsgAnswer ans; ^ gphview.c: In function 'PopulateAsn2GphGraphic': gphview.c:3868:16: warning: variable 'min' set but not used [-Wunused-but-set-variable] Int4 min; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF gphdraw.c gphdraw.c: In function 'GraphSentProc': gphdraw.c:195:18: warning: variable 'scaleY' set but not used [-Wunused-but-set-variable] Int4 scaleY; ^ gphdraw.c: In function 'DrawGraphToPanel': gphdraw.c:453:27: warning: variable 'xp' set but not used [-Wunused-but-set-variable] Int4Ptr xpoints, xp; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF gxydraw.c gxydraw.c: In function 'DotXYPlot': gxydraw.c:259:19: warning: 'xaxiscount' may be used uninitialized in this function [-Wmaybe-uninitialized] gsp->xaxiscount = xaxiscount; ^ gxydraw.c:182:19: note: 'xaxiscount' was declared here Int4 xaxiscount, yaxiscount; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF gtrdraw.c In file included from ../include/vibrant.h:130:0, from gtrdraw.c:53: gtrdraw.c: In function 'TreeSentProc': ../include/vibdefns.h:655:20: warning: 'f' may be used uninitialized in this function [-Wmaybe-uninitialized] #define DeleteFont Nlm_DeleteFont ^ gtrdraw.c:82:11: note: 'f' was declared here FonT f, fx; ^ In file included from ../include/vibrant.h:130:0, from gtrdraw.c:53: ../include/vibdefns.h:643:20: warning: 'fx' may be used uninitialized in this function [-Wmaybe-uninitialized] #define SelectFont Nlm_SelectFont ^ gtrdraw.c:82:14: note: 'fx' was declared here FonT f, fx; ^ In file included from ../include/vibrant.h:130:0, from gtrdraw.c:53: ../include/vibdefns.h:623:21: warning: 'curR' may be used uninitialized in this function [-Wmaybe-uninitialized] #define SelectColor Nlm_SelectColor ^ gtrdraw.c:83:11: note: 'curR' was declared here Uint1 curR, curG, curB; ^ In file included from ../include/vibrant.h:130:0, from gtrdraw.c:53: ../include/vibdefns.h:623:21: warning: 'curG' may be used uninitialized in this function [-Wmaybe-uninitialized] #define SelectColor Nlm_SelectColor ^ gtrdraw.c:83:17: note: 'curG' was declared here Uint1 curR, curG, curB; ^ In file included from ../include/vibrant.h:130:0, from gtrdraw.c:53: ../include/vibdefns.h:623:21: warning: 'curB' may be used uninitialized in this function [-Wmaybe-uninitialized] #define SelectColor Nlm_SelectColor ^ gtrdraw.c:83:23: note: 'curB' was declared here Uint1 curR, curG, curB; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF seqpanel.c seqpanel.c: In function 'FillFeatureInfo': seqpanel.c:427:18: warning: variable 'stop' set but not used [-Wunused-but-set-variable] Int4 j, start, stop; ^ seqpanel.c:427:11: warning: variable 'start' set but not used [-Wunused-but-set-variable] Int4 j, start, stop; ^ seqpanel.c: In function 'DrawFeatureCodonLines': seqpanel.c:1897:21: warning: variable 'tmp' set but not used [-Wunused-but-set-variable] Char tmp[2]; ^ seqpanel.c: In function 'DrawFeature': seqpanel.c:2127:21: warning: variable 'prot_len' set but not used [-Wunused-but-set-variable] Int4 prot_len; ^ seqpanel.c: In function 'GetSeqChapterFeatureInfo': seqpanel.c:3136:18: warning: variable 'stop' set but not used [-Wunused-but-set-variable] Int4 j, start, stop; ^ seqpanel.c:3136:11: warning: variable 'start' set but not used [-Wunused-but-set-variable] Int4 j, start, stop; ^ seqpanel.c: In function 'onSeqEdVScrollBarSeqPanel': seqpanel.c:3406:17: warning: variable 'totallines' set but not used [-Wunused-but-set-variable] Int4 totallines; ^ seqpanel.c: In function 'PrintFeature': seqpanel.c:3812:28: warning: variable 'fRight' set but not used [-Wunused-but-set-variable] Int4 fLeft, fRight, swap; ^ seqpanel.c:3812:21: warning: variable 'fLeft' set but not used [-Wunused-but-set-variable] Int4 fLeft, fRight, swap; ^ seqpanel.c: In function 'PrintTranslatedFrame': seqpanel.c:3966:17: warning: variable 'tmp' set but not used [-Wunused-but-set-variable] Char tmp[2]; ^ seqpanel.c: In function 'ExportSequenceText': seqpanel.c:4372:34: warning: pointer targets in passing argument 1 of 'complement_string' differ in signedness [-Wpointer-sign] complement_string (file_line + SEQ_ED_PRINT_SEQ_OFFSET); ^ In file included from ../include/alignmgr2.h:112:0, from seqpanel.c:39: ../include/salutil.h:78:20: note: expected 'Nlm_CharPtr {aka char *}' but argument is of type 'Nlm_Uint1Ptr {aka unsigned char *}' NLM_EXTERN CharPtr complement_string (CharPtr str); ^ seqpanel.c:4236:17: warning: variable 'curr_para_strings' set but not used [-Wunused-but-set-variable] ValNodePtr curr_para_strings = NULL; ^ seqpanel.c:4229:17: warning: variable 'buf' set but not used [-Wunused-but-set-variable] Uint1Ptr buf; ^ seqpanel.c: In function 'SeqEdOnClick': seqpanel.c:4946:21: warning: variable 'direction' set but not used [-Wunused-but-set-variable] Int4 direction; ^ seqpanel.c: In function 'SeqAlnOnDrag': seqpanel.c:5685:34: warning: variable 'is_ctrl' set but not used [-Wunused-but-set-variable] Boolean is_double_click, is_ctrl; ^ seqpanel.c:5685:17: warning: variable 'is_double_click' set but not used [-Wunused-but-set-variable] Boolean is_double_click, is_ctrl; ^ seqpanel.c: In function 'ResizeSeqEdView': seqpanel.c:5760:8: warning: variable 'sequence_pos' set but not used [-Wunused-but-set-variable] Int4 sequence_pos = 0; ^ seqpanel.c:5755:8: warning: variable 'height' set but not used [-Wunused-but-set-variable] Int4 height, width; ^ seqpanel.c: In function 'WriteAlignmentInterleaveToFileEx': seqpanel.c:8664:22: warning: passing argument 1 of 'fputs' from incompatible pointer type [-Wincompatible-pointer-types] fputs (fp, printed_line); ^ In file included from ../include/ncbilcl.h:154:0, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from ../include/bspview.h:48, from seqpanel.c:33: /usr/include/stdio.h:689:12: note: expected 'const char * restrict' but argument is of type 'FILE * {aka struct _IO_FILE *}' extern int fputs (const char *__restrict __s, FILE *__restrict __stream); ^ seqpanel.c:8664:26: warning: passing argument 2 of 'fputs' from incompatible pointer type [-Wincompatible-pointer-types] fputs (fp, printed_line); ^ In file included from ../include/ncbilcl.h:154:0, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from ../include/bspview.h:48, from seqpanel.c:33: /usr/include/stdio.h:689:12: note: expected 'FILE * restrict {aka struct _IO_FILE * restrict}' but argument is of type 'Nlm_CharPtr {aka char *}' extern int fputs (const char *__restrict __s, FILE *__restrict __stream); ^ seqpanel.c: In function 'WriteAlignmentContiguousToFile': seqpanel.c:8760:20: warning: passing argument 1 of 'fputs' from incompatible pointer type [-Wincompatible-pointer-types] fputs (fp, printed_line); ^ In file included from ../include/ncbilcl.h:154:0, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from ../include/bspview.h:48, from seqpanel.c:33: /usr/include/stdio.h:689:12: note: expected 'const char * restrict' but argument is of type 'FILE * {aka struct _IO_FILE *}' extern int fputs (const char *__restrict __s, FILE *__restrict __stream); ^ seqpanel.c:8760:24: warning: passing argument 2 of 'fputs' from incompatible pointer type [-Wincompatible-pointer-types] fputs (fp, printed_line); ^ In file included from ../include/ncbilcl.h:154:0, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from ../include/bspview.h:48, from seqpanel.c:33: /usr/include/stdio.h:689:12: note: expected 'FILE * restrict {aka struct _IO_FILE * restrict}' but argument is of type 'Nlm_CharPtr {aka char *}' extern int fputs (const char *__restrict __s, FILE *__restrict __stream); ^ seqpanel.c: In function 'ReverseSequenceStrandsInAlignment': seqpanel.c:9007:17: warning: variable 'sep' set but not used [-Wunused-but-set-variable] SeqEntryPtr sep; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from seqpanel.c:39: seqpanel.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ seqpanel.c:1171:16: warning: 'GetAlignmentColumnPercentIDsForAlignmentSection' defined but not used [-Wunused-function] static double *GetAlignmentColumnPercentIDsForAlignmentSection (BioseqViewPtr bvp, Int4 line, Int4 aln_idx) ^ In file included from ../include/vibrant.h:130:0, from ../include/dlogutil.h:48, from ../include/bspview.h:48, from seqpanel.c:33: seqpanel.c: In function 'SeqEdFindPatternDialog': ../include/vibdefns.h:505:22: warning: 'g1' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AlignObjects Nlm_AlignObjects ^ seqpanel.c:7632:25: note: 'g1' was declared here GrouP h, g1, g2; ^ In file included from ../include/ncbi.h:62:0, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from ../include/bspview.h:48, from seqpanel.c:33: seqpanel.c: In function 'PrintFeature': ../include/ncbistr.h:331:19: warning: 'str_prot' may be used uninitialized in this function [-Wmaybe-uninitialized] #define StringLen Nlm_StringLen ^ seqpanel.c:3810:21: note: 'str_prot' was declared here CharPtr str_prot; ^ seqpanel.c: In function 'SeqEdOnClick': seqpanel.c:5026:10: warning: 'is_left_end' may be used uninitialized in this function [-Wmaybe-uninitialized] if (is_left_end) ^ seqpanel.c:5030:15: warning: 'is_right_end' may be used uninitialized in this function [-Wmaybe-uninitialized] else if (is_right_end) ^ seqpanel.c: In function 'SeqEdExportProc': seqpanel.c:4353:13: warning: 'seq_pos' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqEdPrintTextLineToFile ((CharPtr)file_line, from, to, seq_pos, fp); ^ seqpanel.c:4233:17: note: 'seq_pos' was declared here Int4 seq_pos; ^ seqpanel.c: In function 'onDrawSeqPanel': seqpanel.c:1301:24: warning: 'alnbuf' may be used uninitialized in this function [-Wmaybe-uninitialized] MemCpy(buf, alnbuf + from, len); ^ seqpanel.c:2466:33: note: 'alnbuf' was declared here Uint1Ptr buf, seqbuf, alnbuf; ^ seqpanel.c:1252:3: warning: 'seqbuf' may be used uninitialized in this function [-Wmaybe-uninitialized] AlignmentIntervalToString (tmp_salp, row, start, stop, bvp->TargetRow, ^ seqpanel.c:2466:25: note: 'seqbuf' was declared here Uint1Ptr buf, seqbuf, alnbuf; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ingengraph.c ingengraph.c: In function 'Ing_BigEncodeIdxFeat': ingengraph.c:262:2: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] return *((Uint8Ptr) index_g); ^ ingengraph.c: In function 'Ing_AddOneAlignToOverviewPage': ingengraph.c:347:13: warning: unused variable 'bsp' [-Wunused-variable] BioseqPtr bsp=NULL; ^ ingengraph.c: In function 'Ing_AddAlignsToOverviewPage': ingengraph.c:372:18: warning: unused variable 'buf' [-Wunused-variable] Char buf[41]={""}; ^ ingengraph.c:367:18: warning: variable 'NewLine' set but not used [-Wunused-but-set-variable] Boolean NewLine=FALSE; ^ ingengraph.c: In function 'Ing_DrawOverviewPage': ingengraph.c:492:14: warning: variable 'offset' set but not used [-Wunused-but-set-variable] Int4 offset; ^ In file included from ../include/vibrant.h:130:0, from ../include/ingengraph.h:54, from ingengraph.c:45: ../include/vibdefns.h:438:17: warning: unused variable 'Nlm_Visible' [-Wunused-variable] #define Visible Nlm_Visible ^ ingengraph.c:488:14: note: in expansion of macro 'Visible' Boolean Visible=FALSE; ^ ingengraph.c: In function 'Ing_PopOverviewPage': ingengraph.c:715:16: warning: variable 'margin' set but not used [-Wunused-but-set-variable] Int4 margin, len; ^ ingengraph.c:714:16: warning: unused variable 'buf' [-Wunused-variable] Char buf[50]={""}; ^ ingengraph.c:708:16: warning: unused variable 'sanp' [-Wunused-variable] SeqAnnotPtr sanp=NULL; ^ ingengraph.c: In function 'Ing_PopDetailedPage': ingengraph.c:1437:16: warning: variable 'CurrentSeg' set but not used [-Wunused-but-set-variable] SegmenT CurrentSeg=NULL; ^ ingengraph.c: In function 'Ing_ExploreSegments': ingengraph.c:1829:22: warning: unused variable 'isDraft' [-Wunused-variable] Boolean isDraft = FALSE; ^ ingengraph.c:1827:22: warning: unused variable 'vnp' [-Wunused-variable] ValNodePtr vnp = NULL; ^ ingengraph.c:1826:22: warning: unused variable 'gbp' [-Wunused-variable] GBBlockPtr gbp = NULL; ^ ingengraph.c:1824:33: warning: variable 'black' set but not used [-Wunused-but-set-variable] Uint1 orange[3], black[3]; ^ ingengraph.c:1823:33: warning: variable 'lime' set but not used [-Wunused-but-set-variable] Uint1 indigo[3], lime[3]; ^ ingengraph.c:1823:22: warning: variable 'indigo' set but not used [-Wunused-but-set-variable] Uint1 indigo[3], lime[3]; ^ ingengraph.c: In function 'Ing_AddGCRect': ingengraph.c:1933:17: warning: variable 'comp2' set but not used [-Wunused-but-set-variable] FloatHi comp2, comp_prev; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from ../include/ingengraph.h:63, from ingengraph.c:45: ingengraph.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ ingengraph.c:71:13: warning: 'Ing_GetNamesZoomedVal' declared 'static' but never defined [-Wunused-function] static void Ing_GetNamesZoomedVal(VieweR vNames,Int4Ptr from, Int4Ptr to, ^ ingengraph.c:583:24: warning: 'Ing_SortByChoice' defined but not used [-Wunused-function] static int LIBCALLBACK Ing_SortByChoice (VoidPtr ptr1, VoidPtr ptr2) ^ ingengraph.c:602:28: warning: 'Ing_CollectFeatures1' defined but not used [-Wunused-function] static Boolean LIBCALLBACK Ing_CollectFeatures1(SeqFeatPtr sfp, SeqMgrFeatContextPtr sfc) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ingenext.c ingenext.c: In function 'Ing_KeepTheBestAlignments': ingenext.c:167:20: warning: variable 'amaip' set but not used [-Wunused-but-set-variable] AMAlignIndex2Ptr amaip = NULL; ^ ingenext.c: In function 'Ing_HandleQBlastResults': ingenext.c:272:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (dataptr = ReadAsnFastaOrFlatFile(fp, &datatype, NULL, FALSE, TRUE, TRUE, TRUE)){ ^ ingenext.c: In function 'Ing_HandleResults': ingenext.c:535:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (dataptr = ReadAsnFastaOrFlatFile(fp, &datatype, NULL, FALSE, TRUE, TRUE, TRUE)){ ^ ingenext.c: In function 'Ing_AccepttRNAargsProc': ingenext.c:739:18: warning: unused variable 'paramlist' [-Wunused-variable] ValNodePtr paramlist = NULL; ^ ingenext.c: In function 'Ing_tRNAscanProc': ingenext.c:915:22: warning: unused variable 'moveMe' [-Wunused-variable] ValNodePtr moveMe = NULL; ^ ingenext.c:906:22: warning: unused variable 'first' [-Wunused-variable] TexT first = NULL; ^ ingenext.c:902:22: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ ingenext.c:896:17: warning: unused variable 'args' [-Wunused-variable] CharPtr args = NULL; ^ ingenext.c: In function 'Ing_ReadtRNAConfigFile': ingenext.c:1125:15: warning: variable 'demomode' set but not used [-Wunused-but-set-variable] Boolean demomode = FALSE; ^ ingenext.c: In function 'Ing_DoBlast2Seqs': ingenext.c:1312:23: warning: variable 'is_local' set but not used [-Wunused-but-set-variable] Boolean is_local, first_bsp=TRUE; ^ ingenext.c: In function 'Ing_CreateDotMatrixForm': ingenext.c:1834:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (dataptr = ReadAsnFastaOrFlatFile(fp, &datatype, NULL, FALSE, FALSE, TRUE, FALSE)) ^ ingenext.c: In function 'Ing_RunSpidey': ingenext.c:1994:20: warning: unused variable 'sanp' [-Wunused-variable] SeqAnnotPtr sanp = NULL; ^ ingenext.c:1993:20: warning: unused variable 'spidp_next' [-Wunused-variable] SPI_mRNAPtr spidp_next = NULL; ^ ingenext.c:1992:20: warning: unused variable 'spidp_head' [-Wunused-variable] SPI_mRNAPtr spidp_head = NULL; ^ ingenext.c: In function 'Ing_ReadmRNAs_ext': ingenext.c:2025:4: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (dataptr = ReadAsnFastaOrFlatFile(fp, &datatype, NULL, FALSE, FALSE, TRUE, FALSE)) ^ ingenext.c: In function 'Ing_DeleteInsertInGenomic': ingenext.c:2522:16: warning: unused variable 'newsegs' [-Wunused-variable] Int2 newsegs = 0, offset = 0; ^ ingenext.c: In function 'Ing_ReplaceAllMismatchedInLocation': ingenext.c:2615:21: warning: unused variable 'str' [-Wunused-variable] Char str[200] = {""}; ^ ingenext.c:2612:22: warning: unused variable 'amaip' [-Wunused-variable] AMAlignIndex2Ptr amaip = NULL; ^ ingenext.c: In function 'Ing_MismatchProc': ingenext.c:3025:15: warning: unused variable 'sip' [-Wunused-variable] SeqIdPtr sip = NULL; ^ ingenext.c: In function 'Ing_PrintSpideyReport': ingenext.c:3471:27: warning: variable 'gmis' set but not used [-Wunused-but-set-variable] Int4 mmis, gmis, miscount = 0; ^ ingenext.c: In function 'Ing_PrintBlastReport': ingenext.c:3853:18: warning: unused variable 'more' [-Wunused-variable] Boolean more = FALSE; ^ In file included from ../include/vibrant.h:130:0, from ../include/dlogutil.h:48, from ../include/import.h:48, from ../include/ingenwin.h:64, from ../include/ingenext.h:53, from ingenext.c:46: ../include/vibdefns.h:622:16: warning: variable 'Nlm_DkGray' set but not used [-Wunused-but-set-variable] #define DkGray Nlm_DkGray ^ ingenext.c:3850:18: note: in expansion of macro 'DkGray' Uint1 DkGray[3]; ^ ingenext.c: In function 'Ing_PopulateReport': ingenext.c:4328:20: warning: unused variable 'sip' [-Wunused-variable] SeqIdPtr sip=NULL; ^ ingenext.c:4324:20: warning: unused variable 'temp' [-Wunused-variable] CharPtr temp = NULL; ^ ingenext.c: In function 'Ing_ResizeReportWindow': ingenext.c:4484:12: warning: variable 'hsb' set but not used [-Wunused-but-set-variable] BaR hsb; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from ../include/actutils.h:105, from ../include/ingenwin.h:60, from ../include/ingenext.h:53, from ingenext.c:46: ingenext.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ingenwin.h:61, from ../include/ingenext.h:53, from ingenext.c:46: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ingenwin.h:61, from ../include/ingenext.h:53, from ingenext.c:46: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ingenwin.h:61, from ../include/ingenext.h:53, from ingenext.c:46: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ingenwin.h:61, from ../include/ingenext.h:53, from ingenext.c:46: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/netblap3.h:134:0, from ../include/ingenwin.h:62, from ../include/ingenext.h:53, from ingenext.c:46: ../include/blstspc.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "blstspc.h23"; ^ ../include/blstspc.h:227:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^ ../include/blstspc.h:228:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/blstspc.h:229:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ In file included from ../include/netblap3.h:135:0, from ../include/ingenwin.h:62, from ../include/ingenext.h:53, from ingenext.c:46: ../include/objblst3.h:180:35: warning: 'Cutoff2_cutoff2Free' declared 'static' but never defined [-Wunused-function] static Cutoff2_cutoff2Ptr LIBCALL Cutoff2_cutoff2Free PROTO ((Cutoff2_cutoff2Ptr )); ^ ../include/objblst3.h:181:35: warning: 'Cutoff2_cutoff2AsnRead' declared 'static' but never defined [-Wunused-function] static Cutoff2_cutoff2Ptr LIBCALL Cutoff2_cutoff2AsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:182:24: warning: 'Cutoff2_cutoff2AsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Cutoff2_cutoff2AsnWrite PROTO (( Cutoff2_cutoff2Ptr , AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:199:33: warning: 'Cutoff_cutoffFree' declared 'static' but never defined [-Wunused-function] static Cutoff_cutoffPtr LIBCALL Cutoff_cutoffFree PROTO ((Cutoff_cutoffPtr )); ^ ../include/objblst3.h:200:33: warning: 'Cutoff_cutoffAsnRead' declared 'static' but never defined [-Wunused-function] static Cutoff_cutoffPtr LIBCALL Cutoff_cutoffAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:201:24: warning: 'Cutoff_cutoffAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Cutoff_cutoffAsnWrite PROTO (( Cutoff_cutoffPtr , AsnIoPtr, AsnTypePtr)); ^ ingenext.c:59:28: warning: 'Ing_BlastCallback' defined but not used [-Wunused-function] static Boolean LIBCALLBACK Ing_BlastCallback (BlastResponse *brp, ^ ingenext.c:129:13: warning: 'querytimerlimit' defined but not used [-Wunused-variable] static Int4 querytimerlimit = 100; ^ ingenext.c:130:13: warning: 'querytimercount' defined but not used [-Wunused-variable] static Int4 querytimercount = 0; ^ ingenext.c: In function 'Ing_DoBlast2Seqs': ingenext.c:1457:17: warning: 'e_head' may be used uninitialized in this function [-Wmaybe-uninitialized] e_tmp->next=e_head; ^ ingenext.c: In function 'Ing_MismatchProc': ingenext.c:3170:32: warning: 'gstart' may be used uninitialized in this function [-Wmaybe-uninitialized] gstart = start + (stop - gstart); ^ ingenext.c:3206:23: warning: 'mstart' may be used uninitialized in this function [-Wmaybe-uninitialized] else if (mstart == R1 || mstart == R2 || mstart == R3){ ^ ingenext.c: In function 'Ing_ReplaceAllMismatchedInLocation': ingenext.c:2617:33: warning: 'nmismatches' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 gmis, mmis, nmismatches, nkeep = 0; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ingenwin.c ingenwin.c: In function 'Ing_PopulateDetailedPage': ingenwin.c:134:22: warning: unused variable 'bSelected' [-Wunused-variable] Boolean bSelected = FALSE; ^ ingenwin.c: In function 'Ing_DoRange': ingenwin.c:394:22: warning: variable 'bsp' set but not used [-Wunused-but-set-variable] BioseqPtr bsp; ^ ingenwin.c: In function 'Ing_PopulateCpG': ingenwin.c:576:19: warning: variable 'nchars' set but not used [-Wunused-but-set-variable] Int2 cxChar, nchars; ^ ingenwin.c: In function 'Ing_ResizeCpGWindow': ingenwin.c:642:12: warning: variable 'hsb' set but not used [-Wunused-but-set-variable] BaR hsb; ^ ingenwin.c: In function 'Ing_PopulateMotif': ingenwin.c:718:26: warning: variable 'nchars' set but not used [-Wunused-but-set-variable] Int2 cxChar, nchars; ^ ingenwin.c:717:24: warning: variable 'swidth' set but not used [-Wunused-but-set-variable] Int4 slen, swidth; ^ ingenwin.c:717:18: warning: variable 'slen' set but not used [-Wunused-but-set-variable] Int4 slen, swidth; ^ ingenwin.c: In function 'Ing_ResizeMotifWindow': ingenwin.c:785:12: warning: unused variable 'name' [-Wunused-variable] CharPtr name = NULL; ^ ingenwin.c:783:12: warning: variable 'hsb' set but not used [-Wunused-but-set-variable] BaR hsb; ^ ingenwin.c: In function 'Ing_ShowComplexity': ingenwin.c:1270:10: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] while ((Boolean)(slp_feat=SeqLocFindNext(slp_dust,slp_feat))){ ^ ingenwin.c: In function 'Ing_CreateNewFeature': ingenwin.c:1301:22: warning: unused variable 'rnatype' [-Wunused-variable] Uint1 rnatype=0; ^ ingenwin.c: In function 'Ing_GetAlignmentIntervals': ingenwin.c:1418:20: warning: unused variable 'master' [-Wunused-variable] SeqIdPtr master = NULL; ^ ingenwin.c: In function 'Ing_OldGetAlignmentIntervals': ingenwin.c:1494:20: warning: unused variable 'master' [-Wunused-variable] SeqIdPtr master = NULL; ^ ingenwin.c: In function 'Ing_OldMakeLocListFromSAP': ingenwin.c:1613:26: warning: unused variable 'slp2' [-Wunused-variable] SeqLocPtr slp1 = NULL, slp2 = NULL; ^ ingenwin.c:1613:13: warning: unused variable 'slp1' [-Wunused-variable] SeqLocPtr slp1 = NULL, slp2 = NULL; ^ ingenwin.c: In function 'Ing_OM_MsgFunc': ingenwin.c:2380:15: warning: the address of 'sfc' will always evaluate as 'true' [-Waddress] if (&sfc) ^ ingenwin.c:2284:22: warning: unused variable 'segID' [-Wunused-variable] Uint2 segID=0; ^ ingenwin.c:2280:22: warning: unused variable 'sep' [-Wunused-variable] SeqEntryPtr sep=NULL; ^ ingenwin.c:2271:31: warning: unused variable 'number' [-Wunused-variable] Int4 score=0, number=0; ^ ingenwin.c:2271:22: warning: unused variable 'score' [-Wunused-variable] Int4 score=0, number=0; ^ ingenwin.c:2270:34: warning: unused variable 'n' [-Wunused-variable] Int4 s1=0, s2=0, n=1; ^ ingenwin.c:2270:28: warning: unused variable 's2' [-Wunused-variable] Int4 s1=0, s2=0, n=1; ^ ingenwin.c:2270:22: warning: unused variable 's1' [-Wunused-variable] Int4 s1=0, s2=0, n=1; ^ ingenwin.c: In function 'Ing_MoveCursor': ingenwin.c:2631:9: warning: variable 'grayClr2' set but not used [-Wunused-but-set-variable] Uint1 grayClr2[3]; ^ ingenwin.c: In function 'Ing_FeatViewerClickProc': ingenwin.c:2814:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (subSeg=FindSegPrim(v, pt, NULL, NULL, &prim)){ ^ ingenwin.c:2804:14: warning: unused variable 'slp' [-Wunused-variable] SeqLocPtr slp=NULL; ^ ingenwin.c: In function 'Ing_SequenceClickProc': ingenwin.c:2908:22: warning: variable 'ssp' set but not used [-Wunused-but-set-variable] SelStructPtr ssp=NULL; ^ ingenwin.c: In function 'Ing_ReadInBlastAsn': ingenwin.c:3077:19: warning: unused variable 'Report' [-Wunused-variable] IngReportPtr Report=NULL; ^ ingenwin.c:3075:19: warning: unused variable 'sip' [-Wunused-variable] SeqIdPtr sip=NULL; ^ ingenwin.c:3074:19: warning: unused variable 'salp' [-Wunused-variable] SeqAlignPtr salp=NULL; ^ ingenwin.c:3073:19: warning: unused variable 'n_sap' [-Wunused-variable] SeqAlignPtr n_sap=NULL; ^ ingenwin.c: In function 'Ing_ParseSeqIdFile': ingenwin.c:3142:20: warning: unused variable 'bsp' [-Wunused-variable] BioseqPtr bsp=NULL; ^ ingenwin.c: In function 'Ing_ReadInFeatureTable': ingenwin.c:3194:20: warning: variable 'sanp' set but not used [-Wunused-but-set-variable] SeqAnnotPtr sanp; ^ ingenwin.c: In function 'Ing_AssembleGenscanInfo': ingenwin.c:3258:17: warning: unused variable 'slp' [-Wunused-variable] SeqLocPtr slp=NULL; ^ ingenwin.c: In function 'Ing_ReadInGenscan': ingenwin.c:3300:33: warning: unused variable 'str' [-Wunused-variable] CharPtr letter=NULL, str=NULL; ^ ingenwin.c:3300:20: warning: unused variable 'letter' [-Wunused-variable] CharPtr letter=NULL, str=NULL; ^ ingenwin.c:3298:33: warning: unused variable 'first_pass' [-Wunused-variable] Boolean found=FALSE, first_pass=FALSE; ^ ingenwin.c: In function 'Ing_AssembleTabDelimited': ingenwin.c:3519:17: warning: variable 'score' set but not used [-Wunused-but-set-variable] Int4 score; ^ ingenwin.c:3516:17: warning: unused variable 'tmp' [-Wunused-variable] CharPtr tmp=NULL; ^ ingenwin.c: In function 'Ing_ReadInTabDelimited': ingenwin.c:3659:40: warning: variable 'label_str' set but not used [-Wunused-but-set-variable] CharPtr tmp=NULL, str=NULL, label_str=NULL; ^ ingenwin.c:3659:20: warning: unused variable 'tmp' [-Wunused-variable] CharPtr tmp=NULL, str=NULL, label_str=NULL; ^ ingenwin.c:3653:20: warning: unused variable 'lip_tmp' [-Wunused-variable] IngInfoPtr lip_tmp=NULL; ^ ingenwin.c:3650:20: warning: unused variable 'letter' [-Wunused-variable] CharPtr letter=NULL; ^ ingenwin.c: In function 'Ing_FileOpenSpecial': ingenwin.c:3984:16: warning: unused variable 'Report' [-Wunused-variable] IngReportPtr Report=NULL; ^ ingenwin.c: In function 'Ing_FileOpenMain': ingenwin.c:4078:21: warning: unused variable 'sep_orig' [-Wunused-variable] SeqEntryPtr sep_orig=NULL, sep=NULL; ^ ingenwin.c: In function 'Ing_ResizeMainWindow': ingenwin.c:4187:25: warning: variable 'InfoHeight' set but not used [-Wunused-but-set-variable] Int2 RulerHeight, InfoHeight; ^ ingenwin.c: In function 'Ing_OpenFromFileORNetwork': ingenwin.c:4491:25: warning: variable 'b2' set but not used [-Wunused-but-set-variable] ButtoN b,b2; ^ ingenwin.c: In function 'Ing_EditFeature': ingenwin.c:4640:22: warning: variable 'igvp' set but not used [-Wunused-but-set-variable] IngGenomeViewerPtr igvp=NULL; ^ ingenwin.c: In function 'Ing_MarkSeqAnnot': ingenwin.c:4713:16: warning: unused variable 'bNoParent' [-Wunused-variable] Boolean bNoParent = FALSE; ^ ingenwin.c: In function 'Ing_CreateMismatchedDialog': ingenwin.c:4924:31: warning: 'main' is usually a function [-Wmain] GrouP g, g1, g2, main; ^ ingenwin.c: In function 'Ing_PropagateClickProc': ingenwin.c:5064:22: warning: unused variable 'primID' [-Wunused-variable] Uint2 primID=0; ^ ingenwin.c:5063:22: warning: unused variable 'itemtype' [-Wunused-variable] Uint2 itemtype=0; ^ ingenwin.c:5062:22: warning: unused variable 'itemID' [-Wunused-variable] Uint4 itemID=0; ^ ingenwin.c:5061:22: warning: unused variable 'entityID' [-Wunused-variable] Uint2 entityID=0; ^ ingenwin.c:5060:22: warning: unused variable 'ssp' [-Wunused-variable] SelStructPtr ssp=NULL; ^ ingenwin.c:5059:22: warning: unused variable 'igvp' [-Wunused-variable] IngGenomeViewerPtr igvp=NULL; ^ ingenwin.c: In function 'Ing_PrintCompProteins': ingenwin.c:5146:32: warning: unused variable 'str2' [-Wunused-variable] Char str1[200] = {""}, str2[10] = {""}; ^ ingenwin.c: In function 'Ing_PropagateReport': ingenwin.c:5282:14: warning: variable 'ARROW' set but not used [-Wunused-but-set-variable] Uint1 ARROW=NO_ARROW; ^ ingenwin.c:5279:14: warning: unused variable 'stringwidth' [-Wunused-variable] Int4 stringwidth = 0; ^ ingenwin.c:5277:14: warning: unused variable 'left' [-Wunused-variable] Int4 left = 10; ^ ingenwin.c:5276:14: warning: variable 'prim' set but not used [-Wunused-but-set-variable] PrimitivE prim; ^ ingenwin.c: In function 'Ing_DoPropagate': ingenwin.c:5596:14: warning: unused variable 'strErr' [-Wunused-variable] Char strErr[50]={""}; ^ ingenwin.c: In function 'Ing_GetFromNetwork': ingenwin.c:7518:11: warning: unused variable 'szAppName' [-Wunused-variable] Char szAppName [10]={"Ingenue"}; ^ ingenwin.c: In function 'Ing_SetupMainWindow': ingenwin.c:7761:16: warning: unused variable 'szAppName' [-Wunused-variable] Char szAppName [10]={"Ingenue"}; ^ ingenwin.c:7760:48: warning: unused variable 'str2' [-Wunused-variable] Char title[100]={""}, str1[20]={""}, str2[20]={""}; ^ ingenwin.c:7760:33: warning: unused variable 'str1' [-Wunused-variable] Char title[100]={""}, str1[20]={""}, str2[20]={""}; ^ ingenwin.c:7760:16: warning: unused variable 'title' [-Wunused-variable] Char title[100]={""}, str1[20]={""}, str2[20]={""}; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from ../include/actutils.h:105, from ../include/ingenwin.h:60, from ingenwin.c:45: ingenwin.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ingenwin.h:61, from ingenwin.c:45: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ingenwin.h:61, from ingenwin.c:45: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ingenwin.h:61, from ingenwin.c:45: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ingenwin.h:61, from ingenwin.c:45: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/netblap3.h:134:0, from ../include/ingenwin.h:62, from ingenwin.c:45: ../include/blstspc.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "blstspc.h23"; ^ ../include/blstspc.h:227:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^ ../include/blstspc.h:228:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/blstspc.h:229:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ In file included from ../include/netblap3.h:135:0, from ../include/ingenwin.h:62, from ingenwin.c:45: ../include/objblst3.h:180:35: warning: 'Cutoff2_cutoff2Free' declared 'static' but never defined [-Wunused-function] static Cutoff2_cutoff2Ptr LIBCALL Cutoff2_cutoff2Free PROTO ((Cutoff2_cutoff2Ptr )); ^ ../include/objblst3.h:181:35: warning: 'Cutoff2_cutoff2AsnRead' declared 'static' but never defined [-Wunused-function] static Cutoff2_cutoff2Ptr LIBCALL Cutoff2_cutoff2AsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:182:24: warning: 'Cutoff2_cutoff2AsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Cutoff2_cutoff2AsnWrite PROTO (( Cutoff2_cutoff2Ptr , AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:199:33: warning: 'Cutoff_cutoffFree' declared 'static' but never defined [-Wunused-function] static Cutoff_cutoffPtr LIBCALL Cutoff_cutoffFree PROTO ((Cutoff_cutoffPtr )); ^ ../include/objblst3.h:200:33: warning: 'Cutoff_cutoffAsnRead' declared 'static' but never defined [-Wunused-function] static Cutoff_cutoffPtr LIBCALL Cutoff_cutoffAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:201:24: warning: 'Cutoff_cutoffAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Cutoff_cutoffAsnWrite PROTO (( Cutoff_cutoffPtr , AsnIoPtr, AsnTypePtr)); ^ ingenwin.c:1869:16: warning: 'Ing_DeSelectPrim' defined but not used [-Wunused-function] static Boolean Ing_DeSelectPrim (SegmenT seg, PrimitivE prim, Uint2 segID, Uint2 primID, Uint2 primCt, VoidPtr userdata) ^ ingenwin.c:1487:23: warning: 'Ing_OldGetAlignmentIntervals' defined but not used [-Wunused-function] static IngIvalInfoPtr Ing_OldGetAlignmentIntervals (SeqAlignPtr sap, Int4 from_row, Int4 to_row, Int4 from, Int4 to, Uint1 strand) ^ ingenwin.c:1610:18: warning: 'Ing_OldMakeLocListFromSAP' defined but not used [-Wunused-function] static SeqLocPtr Ing_OldMakeLocListFromSAP(SeqAlignPtr sap) ^ ingenwin.c:5535:16: warning: 'Ing_KeywordAlreadyInList' defined but not used [-Wunused-function] static Boolean Ing_KeywordAlreadyInList (ValNodePtr head, CharPtr kwd) ^ ingenwin.c:6717:13: warning: 'Ing_BspListProc' defined but not used [-Wunused-function] static void Ing_BspListProc(IteM i) ^ ingenwin.c:7552:13: warning: 'Ing_ItemtoNetwork' defined but not used [-Wunused-function] static void Ing_ItemtoNetwork(IteM i){ ^ ingenwin.c: In function 'Ing_ReplaceMismatchedProc': ingenwin.c:4902:3: warning: 'stop' may be used uninitialized in this function [-Wmaybe-uninitialized] Ing_ReplaceAllMismatchedInLocation(igvp, rmp->sap, start, stop, GetStatus(rmp->all), GetStatus(rmp->gaps), GetStatus(rmp->inserts)); ^ ingenwin.c:4902:3: warning: 'start' may be used uninitialized in this function [-Wmaybe-uninitialized] ingenwin.c: In function 'Ing_FileOpenSpecial': ingenwin.c:3290:13: warning: 'strand' may be used uninitialized in this function [-Wmaybe-uninitialized] slp_list=Ing_MakeSlpList(NULL, n/2, ivals, strand, igvp->bsp->id); ^ ingenwin.c:3255:17: note: 'strand' was declared here Uint1 strand; ^ ingenwin.c: In function 'Ing_KozakProc': ingenwin.c:1048:6: warning: 'ans' may be used uninitialized in this function [-Wmaybe-uninitialized] if (ans == ANS_NO) ^ In file included from ../include/vibrant.h:130:0, from ../include/dlogutil.h:48, from ../include/import.h:48, from ../include/ingenwin.h:64, from ingenwin.c:45: ../include/vibdefns.h:446:16: warning: 'ReportW' may be used uninitialized in this function [-Wmaybe-uninitialized] #define Select Nlm_Select ^ ingenwin.c:1006:22: note: 'ReportW' was declared here WindoW ReportW; ^ ingenwin.c: In function 'Ing_SignalPeptideProc': ingenwin.c:1099:6: warning: 'ans' may be used uninitialized in this function [-Wmaybe-uninitialized] if (ans == ANS_NO) ^ In file included from ../include/vibrant.h:130:0, from ../include/dlogutil.h:48, from ../include/import.h:48, from ../include/ingenwin.h:64, from ingenwin.c:45: ../include/vibdefns.h:446:16: warning: 'ReportW' may be used uninitialized in this function [-Wmaybe-uninitialized] #define Select Nlm_Select ^ ingenwin.c:1057:22: note: 'ReportW' was declared here WindoW ReportW; ^ ingenwin.c: In function 'Ing_RepeatsProc': ingenwin.c:997:6: warning: 'ans' may be used uninitialized in this function [-Wmaybe-uninitialized] if (ans == ANS_NO) ^ In file included from ../include/vibrant.h:130:0, from ../include/dlogutil.h:48, from ../include/import.h:48, from ../include/ingenwin.h:64, from ingenwin.c:45: ../include/vibdefns.h:446:16: warning: 'ReportW' may be used uninitialized in this function [-Wmaybe-uninitialized] #define Select Nlm_Select ^ ingenwin.c:955:22: note: 'ReportW' was declared here WindoW ReportW; ^ ingenwin.c: In function 'Ing_PolyAProc': ingenwin.c:946:6: warning: 'ans' may be used uninitialized in this function [-Wmaybe-uninitialized] if (ans == ANS_NO) ^ In file included from ../include/vibrant.h:130:0, from ../include/dlogutil.h:48, from ../include/import.h:48, from ../include/ingenwin.h:64, from ingenwin.c:45: ../include/vibdefns.h:446:16: warning: 'ReportW' may be used uninitialized in this function [-Wmaybe-uninitialized] #define Select Nlm_Select ^ ingenwin.c:904:22: note: 'ReportW' was declared here WindoW ReportW; ^ ingenwin.c: In function 'Ing_CpGProc': ingenwin.c:895:6: warning: 'ans' may be used uninitialized in this function [-Wmaybe-uninitialized] if (ans == ANS_NO) ^ In file included from ../include/vibrant.h:130:0, from ../include/dlogutil.h:48, from ../include/import.h:48, from ../include/ingenwin.h:64, from ingenwin.c:45: ../include/vibdefns.h:446:16: warning: 'ReportW' may be used uninitialized in this function [-Wmaybe-uninitialized] #define Select Nlm_Select ^ ingenwin.c:857:22: note: 'ReportW' was declared here WindoW ReportW; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF macrodlg.c macrodlg.c: In function 'CloseMacroEditorWindowProc': macrodlg.c:99:11: warning: unused variable 'do_remove' [-Wunused-variable] Boolean do_remove = FALSE; ^ macrodlg.c: In function 'ExistingTextDialog': macrodlg.c:1908:22: warning: variable 'ppt' set but not used [-Wunused-but-set-variable] PrompT ppt; ^ macrodlg.c: In function 'SourceQualChoiceDialog': macrodlg.c:3725:48: warning: variable 'b4' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3 = NULL, b4 = NULL; ^ macrodlg.c:3725:37: warning: variable 'b3' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3 = NULL, b4 = NULL; ^ macrodlg.c:3725:33: warning: variable 'b2' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3 = NULL, b4 = NULL; ^ macrodlg.c:3725:29: warning: variable 'b1' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3 = NULL, b4 = NULL; ^ macrodlg.c: In function 'SourceConstraintDialog': macrodlg.c:3963:37: warning: variable 'b3' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3; ^ macrodlg.c:3963:33: warning: variable 'b2' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3; ^ macrodlg.c:3963:29: warning: variable 'b1' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3; ^ macrodlg.c: In function 'CDSGeneProtQualConstraintDialog': macrodlg.c:4277:37: warning: variable 'b3' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3; ^ macrodlg.c:4277:33: warning: variable 'b2' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3; ^ macrodlg.c:4277:29: warning: variable 'b1' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3; ^ macrodlg.c: In function 'FeatureFieldTypeFromComplexConstraintType': macrodlg.c:10273:3: warning: enumeration value 'eComplexConstraintType_seqid' not handled in switch [-Wswitch] switch (constraint_type) { ^ macrodlg.c:10273:3: warning: enumeration value 'eComplexConstraintType_string' not handled in switch [-Wswitch] macrodlg.c:10273:3: warning: enumeration value 'eComplexConstraintType_loc' not handled in switch [-Wswitch] macrodlg.c: In function 'TestApplyActionDialog': macrodlg.c:12680:8: warning: variable 'field_type' set but not used [-Wunused-but-set-variable] Int2 field_type = 0; ^ macrodlg.c: In function 'TestEditActionDialog': macrodlg.c:12854:8: warning: variable 'field_type' set but not used [-Wunused-but-set-variable] Int2 field_type = 0; ^ macrodlg.c: In function 'TestRemoveOutsideActionDialog': macrodlg.c:13012:8: warning: variable 'field_type' set but not used [-Wunused-but-set-variable] Int2 field_type = 0; ^ macrodlg.c: In function 'AddMacroActions': macrodlg.c:19633:25: warning: variable 'rval' set but not used [-Wunused-but-set-variable] Boolean rval = FALSE; ^ macrodlg.c: In function 'PointerToSampleDialog': macrodlg.c:19769:19: warning: variable 'max_char_per_line' set but not used [-Wunused-but-set-variable] Int4 max_char_per_line; ^ macrodlg.c: In function 'SampleDialogCopy': macrodlg.c:19889:53: warning: variable 'last_col' set but not used [-Wunused-but-set-variable] Int2 start_col = 0, end_col = 0, first_col, last_col; ^ macrodlg.c:19889:42: warning: variable 'first_col' set but not used [-Wunused-but-set-variable] Int2 start_col = 0, end_col = 0, first_col, last_col; ^ macrodlg.c: In function 'SingleMacroAcceptButton': macrodlg.c:21177:33: warning: variable 'num_features' set but not used [-Wunused-but-set-variable] Int4 num_fields, num_features; ^ macrodlg.c:21177:21: warning: variable 'num_fields' set but not used [-Wunused-but-set-variable] Int4 num_fields, num_features; ^ macrodlg.c: In function 'LaunchMacroTemplateEditor': macrodlg.c:22877:23: warning: variable 'bfp' set but not used [-Wunused-but-set-variable] BaseFormPtr bfp; ^ macrodlg.c: At top level: macrodlg.c:9778:15: warning: 'LocOrStringConstraintDialog' defined but not used [-Wunused-function] static DialoG LocOrStringConstraintDialog (GrouP h, Nlm_ChangeNotifyProc change_notify, Pointer change_userdata) ^ macrodlg.c: In function 'ApplyProductUpdateTableBtn': macrodlg.c:26278:7: warning: 'lip' may be used uninitialized in this function [-Wmaybe-uninitialized] FreeLog (lip); ^ macrodlg.c: In function 'RemoveSequencesActionDialog': macrodlg.c:6490:15: warning: 'p' may be used uninitialized in this function [-Wmaybe-uninitialized] dlg->dialog = (DialoG) p; ^ macrodlg.c: In function 'ActionToSingleMacroActionForm': macrodlg.c:21322:25: warning: 'val' may be used uninitialized in this function [-Wmaybe-uninitialized] Int2 val, i; ^ In file included from ../include/vibrant.h:130:0, from ../include/vibforms.h:46, from macrodlg.c:48: macrodlg.c: In function 'BuildEditMacroActionWindow': ../include/vibdefns.h:505:22: warning: 'indexer_only_group' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AlignObjects Nlm_AlignObjects ^ macrodlg.c:14910:47: note: 'indexer_only_group' was declared here GrouP p, g, parts_group, x, indexer_only_group; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF biosrc.c biosrc.c: In function 'CreateBioSourceDialog': biosrc.c:3506:18: warning: variable 'y' set but not used [-Wunused-but-set-variable] PrompT y; ^ biosrc.c: At top level: biosrc.c:2459:13: warning: 'OrgModPtrToOrgmodDialog' defined but not used [-Wunused-function] static void OrgModPtrToOrgmodDialog (DialoG d, Pointer data) ^ biosrc.c:2508:16: warning: 'OrgmodDialogToOrgModPtr' defined but not used [-Wunused-function] static Pointer OrgmodDialogToOrgModPtr (DialoG d) ^ biosrc.c:2568:13: warning: 'SubSourcePtrToSubsourceDialog' defined but not used [-Wunused-function] static void SubSourcePtrToSubsourceDialog (DialoG d, Pointer data) ^ biosrc.c:2991:16: warning: 'SubsourceDialogToSubSourcePtr' defined but not used [-Wunused-function] static Pointer SubsourceDialogToSubSourcePtr (DialoG d) ^ biosrc.c:3182:26: warning: 'EnumListFromQualNameAssoc' defined but not used [-Wunused-function] static EnumFieldAssocPtr EnumListFromQualNameAssoc (Nlm_QualNameAssocPtr qp) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF cdrgn.c cdrgn.c: In function 'ProductToSeqLocPtr': cdrgn.c:1318:19: warning: variable 'rfp' set but not used [-Wunused-but-set-variable] RnaFormPtr rfp = NULL; ^ cdrgn.c: In function 'CreateCodeBreakAlist': cdrgn.c:1951:20: warning: variable 'first' set but not used [-Wunused-but-set-variable] Uint1 first; ^ cdrgn.c: In function 'CodeBreakPtrToCodeBreakDialog': cdrgn.c:2002:19: warning: variable 'aa' set but not used [-Wunused-but-set-variable] Uint1 aa; ^ cdrgn.c: In function 'PopulateAAPopup': cdrgn.c:7044:20: warning: variable 'first' set but not used [-Wunused-but-set-variable] Uint1 first; ^ cdrgn.c: At top level: cdrgn.c:2174:13: warning: 'AccessionToGi' defined but not used [-Wunused-function] static Int4 AccessionToGi (CharPtr string) ^ cdrgn.c:6253:14: warning: 'check_rna_type' defined but not used [-Wunused-function] static Uint1 check_rna_type (Uint1 type) ^ cdrgn.c:6330:15: warning: 'CreateMrnaUserObjectDialog' defined but not used [-Wunused-function] static DialoG CreateMrnaUserObjectDialog (GrouP h, CharPtr label, SeqEntryPtr sep, BaseFormPtr bfp) ^ cdrgn.c:6773:18: warning: 'FindOrAddQual' defined but not used [-Wunused-function] static GBQualPtr FindOrAddQual (SeqFeatPtr sfp, CharPtr qual_name) ^ cdrgn.c:6792:13: warning: 'RemoveQualByName' defined but not used [-Wunused-function] static void RemoveQualByName (SeqFeatPtr sfp, CharPtr qual_name) ^ cdrgn.c:6854:13: warning: 'ConvertRnaRefNameToProductQual' defined but not used [-Wunused-function] static void ConvertRnaRefNameToProductQual (SeqFeatPtr sfp) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF import.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF pubdesc.c pubdesc.c: In function 'SetPubdescImportExportItems': pubdesc.c:2859:37: warning: comparison between pointer and integer &&& pfp->currentPage == 1) { ^ pubdesc.c: In function 'MakeReplaceAuthorsForm': pubdesc.c:4289:24: warning: variable 'pepp' set but not used [-Wunused-but-set-variable] PubdescEditProcsPtr pepp; ^ pubdesc.c: In function 'DisplayDocSum': pubdesc.c:4851:9: warning: variable 'lineheight' set but not used [-Wunused-but-set-variable] Int2 lineheight; ^ pubdesc.c: At top level: pubdesc.c:5363:13: warning: 'Quit' defined but not used [-Wunused-function] static void Quit (ButtoN b) ^ pubdesc.c:5099:14: warning: 'AddAll' defined but not used [-Wunused-function] static void AddAll(Entrez2RequestPtr e2rp, CharPtr term, Boolean is_1st) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF seqsub.c seqsub.c: In function 'SeqSubmitFromTemplateEditor': seqsub.c:3250:20: warning: variable 'omdp' set but not used [-Wunused-but-set-variable] ObjMgrDataPtr omdp; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF mapgene.c mapgene.c: In function 'load_new_align': mapgene.c:79:17: warning: variable 'match_slp' set but not used [-Wunused-but-set-variable] SeqLocPtr slp, match_slp, t_slp; ^ mapgene.c: In function 'figure_loc_by_position': mapgene.c:1039:20: warning: variable 'center' set but not used [-Wunused-but-set-variable] Int4 start, stop, center; ^ mapgene.c: In function 'cvt_loc_for_single_gene': mapgene.c:1958:29: warning: variable 'p_align_offset' set but not used [-Wunused-but-set-variable] Int4 offset, align_offset, p_align_offset; ^ mapgene.c:1957:7: warning: unused variable 'shift' [-Wunused-variable] Int4 shift = 0; ^ mapgene.c: In function 'print_header_for_center': mapgene.c:2693:10: warning: variable 'link' set but not used [-Wunused-but-set-variable] CharPtr link; ^ mapgene.c: In function 'PrintGeneticMarkerForOneMap': mapgene.c:3635:10: warning: variable 'link' set but not used [-Wunused-but-set-variable] CharPtr link; ^ mapgene.c: At top level: mapgene.c:27:13: warning: 'print_this_id' defined but not used [-Wunused-function] static void print_this_id (SeqIdPtr sip) ^ mapgene.c:200:13: warning: 'get_center_pointer' defined but not used [-Wunused-function] static Int4 get_center_pointer(SeqLocPtr slp) ^ mapgene.c:1280:13: warning: 'change_anchor_to_front' defined but not used [-Wunused-function] static void change_anchor_to_front(ValNodePtr msp_list, SeqIdPtr anchor_id) ^ mapgene.c:1748:16: warning: 'merge_slp_list' defined but not used [-Wunused-function] static Boolean merge_slp_list(ValNodePtr PNTR gene_slp_list, ValNodePtr slp_list) ^ mapgene.c:1788:13: warning: 'adjust_slp_list' defined but not used [-Wunused-function] static void adjust_slp_list(ValNodePtr slp_list) ^ mapgene.c:3207:16: warning: 'convert_center_name_to_gifname' defined but not used [-Wunused-function] static Boolean convert_center_name_to_gifname (CharPtr center_name, CharPtr gif_name) ^ mapgene.c: In function 'PrintContigForOneMap': mapgene.c:3152:7: warning: 'yac_num' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 yac_num; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF prtgene.c prtgene.c: In function 'print_store_for_html': prtgene.c:749:7: warning: variable 'white_sp' set but not used [-Wunused-but-set-variable] Char white_sp; ^ rm -f libncbidesk.a ar cru libncbidesk.a drawseq.o dotmatrx.o fea2seg.o fstyle.o smdlg1.o smdlg2.o smdlg3.o smtools.o styleman.o stylemui.o glbpic.o layout.o saldist.o saled.o salfiles.o salpanel.o salparam.o salsa.o seqfltr.o seqgraph.o seqgrphx.o seqmtrx.o seqpcc.o seqanal.o aacomp.o seqscrl.o valdlg.o vsm.o vsmfile.o vsmutil.o udvgraph.o udvopen.o udvpanel.o dotvibrant.o dlgutil1.o dlgutil2.o e2trmlst.o e2docsum.o asn2graphic.o medview.o bspview.o gbfview.o gphview.o gphdraw.o gxydraw.o gtrdraw.o seqpanel.o ingengraph.o ingenext.o ingenwin.o macrodlg.o biosrc.o cdrgn.o import.o pubdesc.o seqsub.o mapgene.o prtgene.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libncbidesk.a ../lib ranlib ../lib/libncbidesk.a gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ddvclick.c ddvclick.c: In function 'DDV_SendBSPSelectMsg_OLD': ddvclick.c:979:13: warning: variable 'bDeselectAll' set but not used [-Wunused-but-set-variable] Boolean bDeselectAll=TRUE; ^ ddvclick.c: In function 'DDV_SendBSPSelectMsg': ddvclick.c:1090:18: warning: variable 'bDeselectAll' set but not used [-Wunused-but-set-variable] Boolean bDeselectAll=TRUE; ^ ddvclick.c: In function 'DDV_DragProc': ddvclick.c:2013:13: warning: unused variable 'cur_pgp' [-Wunused-variable] ParaGPtr cur_pgp=NULL; ^ ddvclick.c: In function 'DDV_HoldProc': ddvclick.c:2494:13: warning: unused variable 'Scroll' [-Wunused-variable] Boolean Scroll=FALSE; ^ ddvclick.c:2490:13: warning: unused variable 'cur_pgp' [-Wunused-variable] ParaGPtr cur_pgp=NULL; ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ../include/ddvmain.h:202, from ../include/ddvpanel.h:150, from ddvclick.c:252: ddvclick.c: At top level: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ../include/ddvmain.h:202, from ../include/ddvpanel.h:150, from ddvclick.c:252: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ../include/ddvmain.h:202, from ../include/ddvpanel.h:150, from ddvclick.c:252: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ../include/ddvmain.h:202, from ../include/ddvpanel.h:150, from ddvclick.c:252: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ ddvclick.c:1823:13: warning: 'EraseOutline' defined but not used [-Wunused-function] static void EraseOutline(PaneL p) { ^ ddvclick.c:1811:16: warning: 'RectanglesAreSame' defined but not used [-Wunused-function] static Boolean RectanglesAreSame(RecT rc1, RecT rc2) { ^ ddvclick.c:611:13: warning: 'DDV_GetSeqAlignCoordGivenCol' defined but not used [-Wunused-function] static Int4 DDV_GetSeqAlignCoordGivenCol(DdvMainPtr dmp, Int4 Disp_coord) { ^ ddvclick.c:970:13: warning: 'DDV_SendBSPSelectMsg_OLD' defined but not used [-Wunused-function] static void DDV_SendBSPSelectMsg_OLD(DdvMainPtr dmp,Int4 bsp_coord,Int4 SeqAlign_coord, ^ ddvclick.c: In function 'DDV_GetSeqNameGivenRow': ddvclick.c:956:6: warning: 'sip' may be used uninitialized in this function [-Wmaybe-uninitialized] if (!sip) ^ ddvclick.c: In function 'DDV_ReleaseProc': ddvclick.c:1127:9: warning: 'pgp' may be used uninitialized in this function [-Wmaybe-uninitialized] slp = SeqLocIntNew (bsp_coord_start, bsp_coord_stop, direction, pgp->sip); ^ ddvclick.c:1091:18: note: 'pgp' was declared here ParaGPtr pgp; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ddvgraph.c ddvgraph.c: In function 'DDV_DrawSequence': ddvgraph.c:701:31: warning: unused variable 'pos' [-Wunused-variable] Int2 decal=1,i,x,y,pos=0; ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ../include/ddvmain.h:202, from ddvgraph.c:215: ddvgraph.c: At top level: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ../include/ddvmain.h:202, from ddvgraph.c:215: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ../include/ddvmain.h:202, from ddvgraph.c:215: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ../include/ddvmain.h:202, from ddvgraph.c:215: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ddvopen.c ddvopen.c: In function 'DDV_GetAndCheckSeqAlign': ddvopen.c:1739:8: warning: variable 'nRet' set but not used [-Wunused-but-set-variable] Uint2 nRet=DVV_MSG_M_OK; ^ ddvopen.c: In function 'DDV_FOpenAcceptProc': ddvopen.c:1932:11: warning: variable 'nRet' set but not used [-Wunused-but-set-variable] Uint2 nRet=DVV_MSG_M_OK,The_entityID; ^ ddvopen.c: In function 'DDV_NetOpen_okProc': ddvopen.c:2141:8: warning: variable 'AccessType' set but not used [-Wunused-but-set-variable] Int2 AccessType,procval; ^ ddvopen.c: In function 'DDV_ImportBioseqDlg': ddvopen.c:2819:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ ddvopen.c: In function 'DDV_HideDlg': ddvopen.c:3135:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ In file included from ../include/sqnutils.h:51:0, from ../include/udviewer.h:219, from ddvopen.c:376: ddvopen.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/samutil.h:234:0, from ../include/udviewer.h:228, from ddvopen.c:376: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ddvopen.c:377: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ddvopen.c:377: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ddvopen.c:377: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ddvopen.c:377: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ ddvopen.c:1272:13: warning: 'DDV_Convert' defined but not used [-Wunused-function] static void DDV_Convert(ButtoN g) { ^ ddvopen.c:1285:13: warning: 'DDV_NoConvert' defined but not used [-Wunused-function] static void DDV_NoConvert(ButtoN g) { ^ ddvopen.c:2111:16: warning: 'DDV_IsInt' defined but not used [-Wunused-function] static Boolean DDV_IsInt(CharPtr szAccess) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ddvpanel.c ddvpanel.c: In function 'DDV_CreateViewerPanel': ddvpanel.c:1177:8: warning: variable 'cxChar' set but not used [-Wunused-but-set-variable] Int2 cxChar,cyChar; ^ ddvpanel.c: In function 'DDV_DispStyles_OkProc': ddvpanel.c:1543:21: warning: unused variable 'szBuf' [-Wunused-variable] Char szBuf[15]={""}; ^ ddvpanel.c: In function 'DDV_ExportTexte': ddvpanel.c:2799:40: warning: variable 'browse' set but not used [-Wunused-but-set-variable] ButtoN chk2,chk3,chk4,chk5,chk6,browse,ok; ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ../include/ddvmain.h:202, from ../include/ddvpanel.h:150, from ddvpanel.c:392: ddvpanel.c: At top level: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ../include/ddvmain.h:202, from ../include/ddvpanel.h:150, from ddvpanel.c:392: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ../include/ddvmain.h:202, from ../include/ddvpanel.h:150, from ddvpanel.c:392: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ../include/ddvmain.h:202, from ../include/ddvpanel.h:150, from ddvpanel.c:392: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ ddvpanel.c:3024:13: warning: 'DDV_DeleteRow' defined but not used [-Wunused-function] static void DDV_DeleteRow(IteM i) ^ ddvpanel.c:3266:13: warning: 'DDV_MoveRowLeft' defined but not used [-Wunused-function] static void DDV_MoveRowLeft(IteM i) ^ ddvpanel.c:3272:13: warning: 'DDV_MoveRowRight' defined but not used [-Wunused-function] static void DDV_MoveRowRight(IteM i) ^ ddvpanel.c:3278:13: warning: 'DDV_MoveLeftBoundaryLeft' defined but not used [-Wunused-function] static void DDV_MoveLeftBoundaryLeft(IteM i) ^ ddvpanel.c:3284:13: warning: 'DDV_MoveLeftBoundaryRight' defined but not used [-Wunused-function] static void DDV_MoveLeftBoundaryRight(IteM i) ^ ddvpanel.c:3290:13: warning: 'DDV_MoveRightBoundaryLeft' defined but not used [-Wunused-function] static void DDV_MoveRightBoundaryLeft(IteM i) ^ ddvpanel.c:3296:13: warning: 'DDV_MoveRightBoundaryRight' defined but not used [-Wunused-function] static void DDV_MoveRightBoundaryRight(IteM i) ^ ddvpanel.c:3377:13: warning: 'write_annot' defined but not used [-Wunused-function] static void write_annot(SeqAlignPtr align) ^ ddvpanel.c: In function 'DDVExportTexteOkProc': ddvpanel.c:2647:5: warning: 'bPrintGap' may be used uninitialized in this function [-Wmaybe-uninitialized] DDV_DumpSAPInFastaFile(&(dmp->MSA_d.pgp_l),&dob, hFile,bPrintGap); ^ ddvpanel.c: In function 'DDV_SortPGPLineNum': ddvpanel.c:2441:9: warning: 'pgp' may be used uninitialized in this function [-Wmaybe-uninitialized] n+=pgp->nLines; ^ rm -f libddvlib.a ar cru libddvlib.a ddvclick.o ddvgraph.o ddvopen.o ddvpanel.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libddvlib.a ../lib ranlib ../lib/libddvlib.a gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF corematx.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF dvncode.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objmmdb1.c objmmdb1.c: In function 'BiostrucAsnRead': objmmdb1.c:90:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c: In function 'BiostrucIdFree': objmmdb1.c:323:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb1.c: In function 'BiostrucIdAsnRead': objmmdb1.c:358:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'BiostrucSetAsnRead': objmmdb1.c:547:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c: In function 'BiostrucAnnotSetAsnRead': objmmdb1.c:716:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c: In function 'BiostrucResidueGraphSetAsnRead': objmmdb1.c:885:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c: In function 'BiostrucDescrFree': objmmdb1.c:1015:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb1.c: In function 'BiostrucDescrAsnRead': objmmdb1.c:1059:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'BiostrucHistoryAsnRead': objmmdb1.c:1270:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c:1269:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'BiostrucReplaceAsnRead': objmmdb1.c:1450:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c:1449:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'VersionOfDatabase_version_of_databaseFree': objmmdb1.c:1618:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb1.c: In function 'BiostrucSourceAsnRead': objmmdb1.c:1652:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c: In function 'VersionOfDatabase_version_of_databaseAsnRead': objmmdb1.c:1753:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'BiostrucGraphAsnRead': objmmdb1.c:2000:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c: In function 'BiomolDescrFree': objmmdb1.c:2138:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb1.c: In function 'BiomolDescrAsnRead': objmmdb1.c:2188:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'ResidueGraphAsnRead': objmmdb1.c:2445:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c: In function 'MoleculeGraphAsnRead': objmmdb1.c:2652:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c: In function 'InterResidueBondAsnRead': objmmdb1.c:2853:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c:2852:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'ResidueAsnRead': objmmdb1.c:3033:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c:3032:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'ResidueGraphPntrFree': objmmdb1.c:3172:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb1.c: In function 'ResidueGraphPntrAsnRead': objmmdb1.c:3207:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'BiostrucGraphPntrAsnRead': objmmdb1.c:3394:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c:3393:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'BiostrucResidueGraphSetPntrAsnRead': objmmdb1.c:3559:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c:3558:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'AtomAsnRead': objmmdb1.c:3725:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c: In function 'IntraResidueBondAsnRead': objmmdb1.c:3916:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c:3915:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'ChiralCenterAsnRead': objmmdb1.c:4088:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c:4087:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'AtomPntrAsnRead': objmmdb1.c:4276:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c:4275:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'AtomPntrSetAsnRead': objmmdb1.c:4430:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ In file included from ../include/strimprt.h:73:0, from objmmdb1.c:5: objmmdb1.c: At top level: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from objmmdb1.c:5: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ objmmdb1.c: In function 'BiostrucDescrAsnRead': objmmdb1.c:1126:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb1.c: In function 'BiomolDescrAsnRead': objmmdb1.c:2283:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objmmdb2.c objmmdb2.c: In function 'BiostrucModelAsnRead': objmmdb2.c:88:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'ModelDescrFree': objmmdb2.c:241:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb2.c: In function 'ModelDescrAsnRead': objmmdb2.c:288:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb2.c: In function 'ModelSpaceAsnRead': objmmdb2.c:511:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c:510:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb2.c: In function 'Coordinates_coordinatesFree': objmmdb2.c:707:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb2.c: In function 'ModelCoordinateSetAsnRead': objmmdb2.c:741:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'Coordinates_coordinatesAsnRead': objmmdb2.c:829:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb2.c: In function 'ReferenceFrameAsnRead': objmmdb2.c:1060:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c:1059:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb2.c: In function 'CoordinatesFree': objmmdb2.c:1190:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb2.c: In function 'CoordinatesAsnRead': objmmdb2.c:1228:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb2.c: In function 'AtomicCoordinatesAsnRead': objmmdb2.c:1417:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'Surface_surfaceFree': objmmdb2.c:1636:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb2.c: In function 'SurfaceCoordinatesAsnRead': objmmdb2.c:1682:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c:1681:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb2.c: In function 'Surface_surfaceAsnRead': objmmdb2.c:1762:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb2.c: In function 'DensityCoordinatesAsnRead': objmmdb2.c:2026:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'ModelSpacePointsAsnRead': objmmdb2.c:2258:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'AtomicTemperatureFactorsFree': objmmdb2.c:2398:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb2.c: In function 'AtomicTemperatureFactorsAsnRead': objmmdb2.c:2433:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb2.c: In function 'AtomicOccupanciesAsnRead': objmmdb2.c:2609:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'AlternateConformationIdsAsnRead': objmmdb2.c:2753:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'ConformationEnsembleAsnRead': objmmdb2.c:2883:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'IsotropicTemperatureFactorsAsnRead': objmmdb2.c:3046:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'AnisotropicTemperatureFactorsAsnRead': objmmdb2.c:3212:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'TMeshAsnRead': objmmdb2.c:3416:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'TrianglesAsnRead': objmmdb2.c:3615:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ In file included from ../include/strimprt.h:72:0, from objmmdb2.c:5: objmmdb2.c: At top level: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from objmmdb2.c:5: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from objmmdb2.c:5: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ objmmdb2.c: In function 'ModelDescrAsnRead': objmmdb2.c:365:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb2.c: In function 'CoordinatesAsnRead': objmmdb2.c:1278:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb2.c: In function 'AtomicTemperatureFactorsAsnRead': objmmdb2.c:2479:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb2.c: In function 'ModelCoordinateSetAsnRead': objmmdb2.c:875:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb2.c:828:10: note: 'choice' was declared here Uint1 choice; ^ objmmdb2.c: In function 'SurfaceCoordinatesAsnRead': objmmdb2.c:1824:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb2.c:1761:10: note: 'choice' was declared here Uint1 choice; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objmmdb3.c objmmdb3.c: In function 'BiostrucFeatureSetAsnRead': objmmdb3.c:87:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'ChemGraphPntrsFree': objmmdb3.c:219:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb3.c: In function 'AtomPntrsAsnRead': objmmdb3.c:442:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'ChemGraphAlignmentAsnRead': objmmdb3.c:624:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'ChemGraphInteractionAsnRead': objmmdb3.c:821:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'SphereAsnRead': objmmdb3.c:1020:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'ConeAsnRead': objmmdb3.c:1188:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'CylinderAsnRead': objmmdb3.c:1368:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'BrickAsnRead': objmmdb3.c:1553:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'TransformAsnRead': objmmdb3.c:1792:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'BiostrucFeatureSetDescrFree': objmmdb3.c:1916:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb3.c: In function 'Location_locationFree': objmmdb3.c:2156:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb3.c: In function 'BiostrucFeatureAsnRead': objmmdb3.c:2201:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'Property_propertyFree': objmmdb3.c:2716:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb3.c: In function 'ColorPropAsnRead': objmmdb3.c:2792:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'CameraAsnRead': objmmdb3.c:2979:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'BiostrucScriptAsnRead': objmmdb3.c:3163:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'RegionPntrsAsnRead': objmmdb3.c:3322:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'RegionSimilarityAsnRead': objmmdb3.c:3639:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'OtherFeatureAsnRead': objmmdb3.c:3815:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'BiostrucMoleculePntrAsnRead': objmmdb3.c:3988:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'MoleculePntrsAsnRead': objmmdb3.c:4330:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'ResidueExplicitPntrsAsnRead': objmmdb3.c:4492:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'ResidueIntervalPntrAsnRead': objmmdb3.c:4659:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'RegionCoordinatesAsnRead': objmmdb3.c:4830:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'RegionBoundaryFree': objmmdb3.c:4965:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb3.c: In function 'AlignStatsAsnRead': objmmdb3.c:5196:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'RealValueAsnRead': objmmdb3.c:5437:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'ModelSpacePointAsnRead': objmmdb3.c:5597:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'MoveFree': objmmdb3.c:5740:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb3.c: In function 'RotMatrixAsnRead': objmmdb3.c:5948:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'TransMatrixAsnRead': objmmdb3.c:6180:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'GLMatrixAsnRead': objmmdb3.c:6358:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'BiostrucScriptStepAsnRead': objmmdb3.c:6658:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ In file included from ../include/strimprt.h:72:0, from objmmdb3.c:5: objmmdb3.c: At top level: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from objmmdb3.c:5: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from objmmdb3.c:5: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ objmmdb3.c: In function 'ChemGraphPntrsAsnRead': objmmdb3.c:306:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb3.c: In function 'BiostrucFeatureSetDescrAsnRead': objmmdb3.c:2019:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb3.c: In function 'RegionBoundaryAsnRead': objmmdb3.c:5059:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb3.c: In function 'MoveAsnRead': objmmdb3.c:5820:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb3.c: In function 'RegionPntrsAsnRead': objmmdb3.c:3456:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb3.c:3401:10: note: 'choice' was declared here Uint1 choice; ^ objmmdb3.c: In function 'BiostrucFeatureAsnRead': objmmdb3.c:2365:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb3.c:2303:10: note: 'choice' was declared here Uint1 choice; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objcn3d.c objcn3d.c: In function 'Cn3dStyleDictionaryAsnRead': objcn3d.c:87:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c: In function 'Cn3dUserAnnotationsAsnRead': objcn3d.c:251:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c: In function 'Cn3dColorAsnRead': objcn3d.c:415:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c:414:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcn3d.c: In function 'Cn3dBackboneStyleAsnRead': objcn3d.c:604:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c:603:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcn3d.c: In function 'Cn3dGeneralStyleAsnRead': objcn3d.c:787:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c:786:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcn3d.c: In function 'Cn3dBackboneLabelStyleAsnRead': objcn3d.c:969:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c:968:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcn3d.c: In function 'Cn3dStyleSettingsAsnRead': objcn3d.c:1171:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c:1170:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcn3d.c: In function 'Cn3dStyleSettingsSetAsnRead': objcn3d.c:1573:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c: In function 'Cn3dStyleTableItemAsnRead': objcn3d.c:1702:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c:1701:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcn3d.c: In function 'Cn3dResidueRangeAsnRead': objcn3d.c:1866:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c:1865:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcn3d.c: In function 'Cn3dMoleculeLocationAsnRead': objcn3d.c:2028:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c: In function 'Cn3dObjectLocationAsnRead': objcn3d.c:2190:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c: In function 'Cn3dUserAnnotationAsnRead': objcn3d.c:2355:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c: In function 'Cn3dGLMatrixAsnRead': objcn3d.c:2546:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c:2545:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcn3d.c: In function 'Cn3dVectorAsnRead': objcn3d.c:2833:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c:2832:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcn3d.c: In function 'Cn3dViewSettingsAsnRead': objcn3d.c:3005:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c:3004:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ In file included from ../include/mapcn3d.h:8:0, from objcn3d.c:5: objcn3d.c: At top level: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/mapcn3d.h:8:0, from objcn3d.c:5: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF mmdbapi.c mmdbapi.c: In function 'MakeAModelstruc': mmdbapi.c:192:11: warning: unused variable 'iCount' [-Wunused-variable] Int4 iCount = 0; ^ mmdbapi.c:189:11: warning: unused variable 'pdnmsCount' [-Wunused-variable] PDNMS pdnmsCount = NULL; ^ mmdbapi.c: In function 'AddPFBSelect': mmdbapi.c:532:11: warning: unused variable 'pmsdStruc' [-Wunused-variable] PMSD pmsdStruc = NULL; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF mmdbapi1.c mmdbapi1.c: In function 'FreeAtomicModelAsnLists': mmdbapi1.c:1037:21: warning: unused variable 'pcoThis' [-Wunused-variable] CoordinatesPtr pcoThis = NULL; ^ mmdbapi1.c: In function 'FetchBS': mmdbapi1.c:1242:13: warning: unused variable 'bIsNetwork' [-Wunused-variable] Boolean bIsNetwork = FALSE; ^ mmdbapi1.c: In function 'FreeSurfaceModelAsnList': mmdbapi1.c:1627:16: warning: variable 'pvnX' set but not used [-Wunused-but-set-variable] ValNodePtr pvnX = NULL; ^ mmdbapi1.c: In function 'MakeChemGraphNodeList': mmdbapi1.c:2343:16: warning: variable 'pvnThis' set but not used [-Wunused-but-set-variable] ValNodePtr pvnThis = NULL; ^ mmdbapi1.c: In function 'DoApplyTransform': mmdbapi1.c:2573:8: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ mmdbapi1.c: In function 'DoReverseTransform': mmdbapi1.c:2713:8: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ mmdbapi1.c: In function 'InstBSAnnotSet': mmdbapi1.c:2860:8: warning: unused variable 'psfsThis' [-Wunused-variable] PSFS psfsThis = NULL; ^ mmdbapi1.c:2859:22: warning: unused variable 'pbsfThis' [-Wunused-variable] BiostrucFeaturePtr pbsfThis = NULL; ^ mmdbapi1.c:2855:9: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ mmdbapi1.c: In function 'BiosToSeq': mmdbapi1.c:2978:19: warning: unused variable 'loc1' [-Wunused-variable] ValNodePtr loc1 = NULL; ^ mmdbapi1.c:2967:22: warning: unused variable 'pbsf' [-Wunused-variable] BiostrucFeaturePtr pbsf=NULL; ^ mmdbapi1.c: In function 'fnPBSFtoPSA': mmdbapi1.c:3174:19: warning: unused variable 'loc1' [-Wunused-variable] ValNodePtr loc1 = NULL; ^ mmdbapi1.c: In function 'BiostrToSeqAnnotSet': mmdbapi1.c:3408:19: warning: unused variable 'loc1' [-Wunused-variable] ValNodePtr loc1 = NULL; ^ mmdbapi1.c:3397:22: warning: unused variable 'pbsf' [-Wunused-variable] BiostrucFeaturePtr pbsf=NULL; ^ mmdbapi1.c: In function 'InstallAlignedSlave': mmdbapi1.c:3877:9: warning: variable 'iTest' set but not used [-Wunused-but-set-variable] Int2 iTest; ^ mmdbapi1.c:3874:9: warning: unused variable 'psfsThis' [-Wunused-variable] PSFS psfsThis = NULL; ^ mmdbapi1.c: In function 'BiostrucAddFeature': mmdbapi1.c:4184:11: warning: variable 'ncbiVast' set but not used [-Wunused-but-set-variable] Boolean ncbiVast = FALSE; ^ mmdbapi1.c:4182:11: warning: variable 'pdbFootnote' set but not used [-Wunused-but-set-variable] Boolean pdbFootnote = FALSE; ^ mmdbapi1.c:4181:11: warning: variable 'pdbSite' set but not used [-Wunused-but-set-variable] Boolean pdbSite = FALSE; ^ mmdbapi1.c:4172:15: warning: unused variable 'pdvnThis' [-Wunused-variable] DValNodePtr pdvnThis = NULL; ^ mmdbapi1.c: In function 'BiostrucAsnGet': mmdbapi1.c:5289:18: warning: variable 'aop' set but not used [-Wunused-but-set-variable] AsnOptionPtr aop; ^ mmdbapi1.c: In function 'BiosToSeq': mmdbapi1.c:3127:20: warning: 'slavesip' may be used uninitialized in this function [-Wmaybe-uninitialized] dsp->ids->next = slavesip; ^ mmdbapi1.c: In function 'BiostrToSeqAnnotSet': mmdbapi1.c:3559:20: warning: 'slavesip' may be used uninitialized in this function [-Wmaybe-uninitialized] dsp->ids->next = slavesip; ^ mmdbapi1.c: In function 'InstBSAnnotSet': mmdbapi1.c:2885:13: warning: 'iMMDBId' may be used uninitialized in this function [-Wmaybe-uninitialized] pdnmsThis = FindLoadedBiostruc(NULL, iMMDBId); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF mmdbapi2.c mmdbapi2.c: In function 'GetAtomLocs': mmdbapi2.c:1471:9: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (pmadThis) ^ mmdbapi2.c: In function 'AssignAtomLocId': mmdbapi2.c:1537:10: warning: variable 'iTest' set but not used [-Wunused-but-set-variable] Int2 iTest = 0; ^ mmdbapi2.c: In function 'AssignBackBone': mmdbapi2.c:1686:10: warning: variable 'iTest' set but not used [-Wunused-but-set-variable] Int2 iTest = 0; ^ mmdbapi2.c: In function 'AssignVirtual': mmdbapi2.c:1790:10: warning: variable 'iTest' set but not used [-Wunused-but-set-variable] Int2 iTest = 0; ^ mmdbapi2.c: In function 'AssignIons': mmdbapi2.c:1846:10: warning: variable 'iTest' set but not used [-Wunused-but-set-variable] Int2 iTest = 0; ^ mmdbapi2.c: In function 'MolFromPDBChain': mmdbapi2.c:1931:10: warning: variable 'iTest' set but not used [-Wunused-but-set-variable] Int2 iTest; ^ mmdbapi2.c: In function 'SeqStringFromMol': mmdbapi2.c:1948:9: warning: unused variable 'iTest' [-Wunused-variable] Int4 iTest =0; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF mmdbapi3.c mmdbapi3.c: In function 'WritePDBHeader': mmdbapi3.c:840:7: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if(org) ^ mmdbapi3.c: In function 'WritePDBRemarks': mmdbapi3.c:1389:8: warning: unused variable 'len' [-Wunused-variable] int len; ^ mmdbapi3.c:1388:9: warning: unused variable 'pcThis' [-Wunused-variable] Char pcThis[81]; ^ mmdbapi3.c:1387:21: warning: unused variable 'pbsdrLast' [-Wunused-variable] BiostrucDescrPtr pbsdrLast = NULL; ^ mmdbapi3.c:1386:21: warning: unused variable 'pbsdrThis' [-Wunused-variable] BiostrucDescrPtr pbsdrThis = NULL; ^ mmdbapi3.c: In function 'WritePDBConnect': mmdbapi3.c:1610:9: warning: variable 'iTest' set but not used [-Wunused-but-set-variable] Int2 iTest; ^ mmdbapi3.c: In function 'WritePDBModelList': mmdbapi3.c:1625:10: warning: variable 'iCount' set but not used [-Wunused-but-set-variable] Int4 iCount; ^ mmdbapi3.c: In function 'WriteKinAtom': mmdbapi3.c:2287:11: warning: unused variable 'pcElName' [-Wunused-variable] CharPtr pcElName = NULL; ^ mmdbapi3.c: In function 'WriteFASTAMolecule': mmdbapi3.c:3537:9: warning: variable 'iTest' set but not used [-Wunused-but-set-variable] Int4 iTest =0; ^ mmdbapi3.c: In function 'WriteKinAtom': mmdbapi3.c:2314:12: warning: 'iTemp' may be used uninitialized in this function [-Wmaybe-uninitialized] if (iTemp < TempsKine[(iIndex-1)]) return; /* too low */ ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF mmdbapi4.c mmdbapi4.c: In function 'RefreshSurface': mmdbapi4.c:147:10: warning: unused variable 'iVal' [-Wunused-variable] Int4 iVal = 0; ^ mmdbapi4.c: In function 'FreeCoordinatesAsnLists': mmdbapi4.c:335:28: warning: variable 'pdcThis' set but not used [-Wunused-but-set-variable] DensityCoordinatesPtr pdcThis = NULL; ^ mmdbapi4.c: In function 'FreeRedundantAsn': mmdbapi4.c:371:10: warning: unused variable 'pmmdThis' [-Wunused-variable] PMMD pmmdThis = NULL; ^ mmdbapi4.c:370:11: warning: unused variable 'pdnmmThis' [-Wunused-variable] PDNMM pdnmmThis = NULL; ^ mmdbapi4.c:367:22: warning: unused variable 'pbsmThis' [-Wunused-variable] BiostrucModelPtr pbsmThis = NULL; ^ mmdbapi4.c: In function 'RefreshModelAsnMem': mmdbapi4.c:474:13: warning: unused variable 'iCoordSets' [-Wunused-variable] Int4 iCoordSets = 0; ^ mmdbapi4.c:465:20: warning: unused variable 'pappThis' [-Wunused-variable] AtomPntrsPtr pappThis = NULL; ^ mmdbapi4.c:464:27: warning: unused variable 'pmspThis' [-Wunused-variable] ModelSpacePointsPtr pmspThis = NULL; ^ mmdbapi4.c:463:28: warning: unused variable 'pocThis' [-Wunused-variable] AtomicOccupanciesPtr pocThis = NULL; ^ mmdbapi4.c:458:34: warning: unused variable 'paciThis' [-Wunused-variable] AlternateConformationIdsPtr paciThis = NULL; ^ mmdbapi4.c: In function 'RebuildChemGraphAsn': mmdbapi4.c:931:15: warning: unused variable 'bOK' [-Wunused-variable] Boolean bOK = TRUE; ^ mmdbapi4.c: In function 'WriteASNChemGraphOnly': mmdbapi4.c:1192:10: warning: unused variable 'iHash' [-Wunused-variable] Int4 iHash = 0; ^ mmdbapi4.c: In function 'FreeSingleModel': mmdbapi4.c:1336:11: warning: unused variable 'pdnml' [-Wunused-variable] PDNML pdnml = NULL; ^ mmdbapi4.c:1332:22: warning: unused variable 'pbsmTemp' [-Wunused-variable] BiostrucModelPtr pbsmTemp = NULL; ^ mmdbapi4.c: In function 'WriteAsnModelList': mmdbapi4.c:1505:14: warning: unused variable 'paioAIP' [-Wunused-variable] AsnIoPtr paioAIP = NULL; ^ mmdbapi4.c:1502:11: warning: unused variable 'pmldThis' [-Wunused-variable] PMLD pmldThis = NULL; ^ mmdbapi4.c:1498:11: warning: unused variable 'pdnmlThis' [-Wunused-variable] PDNML pdnmlThis = NULL; ^ mmdbapi4.c:1496:22: warning: unused variable 'pbsmThis' [-Wunused-variable] BiostrucModelPtr pbsmThis = NULL; ^ mmdbapi4.c:1495:17: warning: unused variable 'pBSThis' [-Wunused-variable] BiostrucPtr pBSThis = NULL; ^ mmdbapi4.c:1494:13: warning: unused variable 'bFirst' [-Wunused-variable] Boolean bFirst = TRUE; ^ mmdbapi4.c:1493:10: warning: unused variable 'iTest' [-Wunused-variable] Int2 iTest = 0; ^ mmdbapi4.c: In function 'BiostrucAnnotSetToSeqAnnot': mmdbapi4.c:1741:19: warning: unused variable 'loc1' [-Wunused-variable] ValNodePtr loc1 = NULL; ^ mmdbapi4.c: In function 'WriteAsnModelList': mmdbapi4.c:1632:13: warning: 'bRet' may be used uninitialized in this function [-Wmaybe-uninitialized] return bRet; ^ mmdbapi4.c: In function 'BiostrucAnnotSetToSeqAnnot': mmdbapi4.c:1872:20: warning: 'slavesip' may be used uninitialized in this function [-Wmaybe-uninitialized] dsp->ids->next = slavesip; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF mmdbentr.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF vastsubs.c vastsubs.c: In function 'LoadSubsetTable': vastsubs.c:212:2: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fd, "%d", &ndoms); ^ vastsubs.c:239:2: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fd, "%d", &nsubs); ^ vastsubs.c:258:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fd, "%d", &j); ^ vastsubs.c:287:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fd, "%8c", domid); ^ vastsubs.c:296:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fd, "%d", &n); ^ vastsubs.c:302:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fd, "%d %d %d", &subset[j], &grps[j], &ranks[j]); ^ vastsubs.c:304:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fd, "\n"); ^ vastsubs.c:202:16: warning: 'len' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 i, j, n, len, strindex, ndoms, nsubs; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF prunebsc.c prunebsc.c: In function 'PruneFeatureSet': prunebsc.c:220:22: warning: variable 'bsfpDie' set but not used [-Wunused-but-set-variable] BiostrucFeaturePtr bsfpDie, bsfp, bsfpnew = NULL; ^ prunebsc.c: In function 'PruneModel': prunebsc.c:272:30: warning: variable 'mcsDie' set but not used [-Wunused-but-set-variable] ModelCoordinateSetPtr mcs, mcsDie, mcsnew = NULL; ^ prunebsc.c: In function 'PruneBiostruc': prunebsc.c:559:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (vnp = ValNodeFindNext(currentbp->descr, NULL, BiomolDescr_name)) ^ prunebsc.c:574:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (vnp = ValNodeFindNext(het->descr, NULL, BiomolDescr_name)) ^ prunebsc.c:663:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (vnp = ValNodeFindNext(bsfsp->descr, NULL, BiostrucFeatureSetDescr_name)) ^ In file included from ../include/ncbi.h:62:0, from ../include/prunebsc.h:10, from prunebsc.c:34: ../include/ncbistr.h:339:20: warning: 'feature_name' may be used uninitialized in this function [-Wmaybe-uninitialized] #define StringICmp Nlm_StringICmp ^ prunebsc.c:522:25: note: 'feature_name' was declared here CharPtr chnid, hetid, feature_name; ^ prunebsc.c:649:23: warning: 'pirbnew' may be used uninitialized in this function [-Wmaybe-uninitialized] pirbnew->next = pirb; ^ prunebsc.c:591:26: warning: 'currenthet' may be used uninitialized in this function [-Wmaybe-uninitialized] currenthet->next = het; ^ prunebsc.c:701:24: warning: 'mol_id' may be used uninitialized in this function [-Wmaybe-uninitialized] bsmpTail->next = PruneModel(bsmp, pvnIds, mol_id); ^ prunebsc.c:562:16: warning: 'chnid' may be used uninitialized in this function [-Wmaybe-uninitialized] if (*chnid == *chain) ^ prunebsc.c:182:7: warning: 'mtype' may be used uninitialized in this function [-Wmaybe-uninitialized] switch(mtype) ^ prunebsc.c:173:8: note: 'mtype' was declared here Int4 mtype, molecule_id; ^ prunebsc.c:110:7: warning: 'mtype' may be used uninitialized in this function [-Wmaybe-uninitialized] switch(mtype) ^ prunebsc.c:102:8: note: 'mtype' was declared here Int4 mtype; ^ prunebsc.c:127:25: warning: 'currentbp' may be used uninitialized in this function [-Wmaybe-uninitialized] currentbp->next = newbp; ^ prunebsc.c:100:38: note: 'currentbp' was declared here MoleculeGraphPtr newbp, bp = NULL, currentbp; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objcdd.c objcdd.c: In function 'CddIdFree': objcdd.c:53:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objcdd.c: In function 'CddIdAsnRead': objcdd.c:85:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'CddIdSetAsnRead': objcdd.c:248:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:245:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddIdSetAsnWrite': objcdd.c:301:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddAsnRead': objcdd.c:401:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c: In function 'CddSetAsnRead': objcdd.c:796:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:793:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddSetAsnWrite': objcdd.c:849:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddTreeAsnRead': objcdd.c:932:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:931:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'CddTreeSetAsnRead': objcdd.c:1143:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:1140:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddTreeSetAsnWrite': objcdd.c:1196:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddPrefNodesAsnRead': objcdd.c:1276:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:1275:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'CddPrefNodesAsnWrite': objcdd.c:1365:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddProjectAsnRead': objcdd.c:1472:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c: In function 'CddOrgRefAsnRead': objcdd.c:1661:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:1660:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'CddOrgRefSetAsnRead': objcdd.c:1830:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:1827:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddOrgRefSetAsnWrite': objcdd.c:1883:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddPrefNodeDescrFree': objcdd.c:1923:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objcdd.c: In function 'CddPrefNodeDescrAsnRead': objcdd.c:1958:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'CddPrefNodeDescrSetAsnRead': objcdd.c:2121:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:2118:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddPrefNodeDescrSetAsnWrite': objcdd.c:2174:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'GlobalIdAsnRead': objcdd.c:2253:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:2252:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'CddRepeatAsnRead': objcdd.c:2439:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:2438:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'CddBookRefAsnRead': objcdd.c:2615:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:2614:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'CddDescrSetAsnRead': objcdd.c:3170:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:3167:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddDescrSetAsnWrite': objcdd.c:3223:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'MatrixAsnRead': objcdd.c:3301:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c: In function 'TriangleAsnRead': objcdd.c:3489:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c: In function 'UpdateCommentFree': objcdd.c:3625:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objcdd.c: In function 'UpdateCommentAsnRead': objcdd.c:3669:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'UpdateAlignAsnRead': objcdd.c:3873:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c: In function 'RejectIdAsnRead': objcdd.c:4047:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c: In function 'RejectIdAsnWrite': objcdd.c:4122:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'FeatureEvidenceFree': objcdd.c:4170:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objcdd.c: In function 'FeatureEvidenceAsnRead': objcdd.c:4214:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'AlignAnnotAsnRead': objcdd.c:4419:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c: In function 'AlignAnnotSetAsnRead': objcdd.c:4587:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:4584:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'AlignAnnotSetAsnWrite': objcdd.c:4640:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'DomainParentAsnRead': objcdd.c:4718:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:4717:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'SequenceTreeAsnRead': objcdd.c:4898:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:4897:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'AlgorithmTypeAsnRead': objcdd.c:5085:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:5084:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'SeqTreeNodeAsnRead': objcdd.c:5387:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:5386:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'Children_footprintAsnRead': objcdd.c:5572:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:5571:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'NodeAnnotationAsnRead': objcdd.c:5862:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:5861:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'CddViewerRectAsnRead': objcdd.c:6027:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:6026:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'CddViewerAsnRead': objcdd.c:6208:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c: In function 'CddScriptAsnRead': objcdd.c:6382:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:6381:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ In file included from objcdd.c:6:0: objcdd.c: At top level: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from objcdd.c:6:0: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from objcdd.c:7:0: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ objcdd.c: In function 'CddDescrAsnRead': objcdd.c:2994:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF cddutil.c cddutil.c: In function 'CddGetPmIds': cddutil.c:649:17: warning: unused variable 'bRefOpen' [-Wunused-variable] Boolean bRefOpen = FALSE; ^ cddutil.c: In function 'CddGetAnnotNames': cddutil.c:807:19: warning: variable 'vnp' set but not used [-Wunused-but-set-variable] ValNodePtr vnp, vnpHead = NULL; ^ cddutil.c: In function 'CddCheckForRepeats': cddutil.c:1034:7: warning: the address of 'CddHasConsensus' will always evaluate as 'true' [-Waddress] if (!CddHasConsensus) return FALSE; ^ cddutil.c:1013:23: warning: variable 'iStatus' set but not used [-Wunused-but-set-variable] Int2 iStatus; ^ cddutil.c: In function 'CddMSLDenDiagToMSLDenSeg': cddutil.c:1663:30: warning: variable 'lasts' set but not used [-Wunused-but-set-variable] Int4 lastm, lasts; ^ cddutil.c:1663:23: warning: variable 'lastm' set but not used [-Wunused-but-set-variable] Int4 lastm, lasts; ^ cddutil.c: In function 'SeqAlignInform': cddutil.c:1938:22: warning: variable 'iStatus' set but not used [-Wunused-but-set-variable] Int2 iStatus; ^ cddutil.c: In function 'CddAlignInform': cddutil.c:2125:22: warning: variable 'iStatus' set but not used [-Wunused-but-set-variable] Int2 iStatus; ^ cddutil.c: In function 'CddPssmInform': cddutil.c:2248:22: warning: variable 'iStatus' set but not used [-Wunused-but-set-variable] Int2 iStatus; ^ cddutil.c: In function 'CddPosFreqInform': cddutil.c:2306:22: warning: variable 'iStatus' set but not used [-Wunused-but-set-variable] Int2 iStatus; ^ cddutil.c: In function 'CddDenDiagCposComputation': cddutil.c:2368:33: warning: variable 'RowHead' set but not used [-Wunused-but-set-variable] ValNodePtr newRow, RowHead; ^ cddutil.c:2365:25: warning: variable 'iStatus' set but not used [-Wunused-but-set-variable] Int2 iStatus; ^ cddutil.c: In function 'CddCposComputation': cddutil.c:2571:33: warning: variable 'RowHead' set but not used [-Wunused-but-set-variable] ValNodePtr newRow, RowHead; ^ cddutil.c:2568:25: warning: variable 'iStatus' set but not used [-Wunused-but-set-variable] Int2 iStatus; ^ cddutil.c: In function 'CddRetrieveBioseqById': cddutil.c:3379:15: warning: unused variable 'retcode' [-Wunused-variable] Int2 retcode = 1; ^ cddutil.c:3377:15: warning: unused variable 'uid' [-Wunused-variable] Int4 uid = 0; ^ cddutil.c: In function 'CddConsensus': cddutil.c:3853:49: warning: variable 'm_end' set but not used [-Wunused-but-set-variable] Int4 m_last, m_frst, s_insert, m_end; ^ cddutil.c: In function 'CddCposCompPart1': cddutil.c:4247:25: warning: variable 'iStatus' set but not used [-Wunused-but-set-variable] Int2 iStatus; ^ cddutil.c: In function 'CddGetNewIndexForThreading': cddutil.c:4392:14: warning: unused variable 'Index' [-Wunused-variable] Int4 i, Index=0; ^ cddutil.c: In function 'CddCposComp': cddutil.c:4474:33: warning: variable 'RowHead' set but not used [-Wunused-but-set-variable] ValNodePtr newRow, RowHead; ^ cddutil.c: In function 'CddDenDiagCposComp2KBP': cddutil.c:4745:59: warning: variable 'RowHead' set but not used [-Wunused-but-set-variable] ValNodePtr ColumnHead, LetterHead, newRow, RowHead, newLetter; ^ cddutil.c: In function 'CddDumpTaxLinks': cddutil.c:5727:16: warning: unused variable 'txid' [-Wunused-variable] Int4 txid = 0, gi = 0; ^ cddutil.c: At top level: cddutil.c:6267:1: warning: "/*" within comment [-Wcomment] /*---------------------------------------------------------------------------*/ ^ In file included from cddutil.c:349:0: ../include/cdd.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "cdd.h24"; ^ ../include/cdd.h:341:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^ ../include/cdd.h:342:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/cdd.h:343:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ In file included from ../include/cddutil.h:205:0, from cddutil.c:353: ../include/objcdd.h:642:37: warning: 'Children_childrenFree' declared 'static' but never defined [-Wunused-function] static Children_childrenPtr LIBCALL Children_childrenFree PROTO ((Children_childrenPtr )); ^ ../include/objcdd.h:643:37: warning: 'Children_childrenAsnRead' declared 'static' but never defined [-Wunused-function] static Children_childrenPtr LIBCALL Children_childrenAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objcdd.h:644:24: warning: 'Children_childrenAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Children_childrenAsnWrite PROTO (( Children_childrenPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objcdd.h:666:38: warning: 'Children_footprintFree' declared 'static' but never defined [-Wunused-function] static Children_footprintPtr LIBCALL Children_footprintFree PROTO ((Children_footprintPtr )); ^ ../include/objcdd.h:667:38: warning: 'Children_footprintNew' declared 'static' but never defined [-Wunused-function] static Children_footprintPtr LIBCALL Children_footprintNew PROTO (( void )); ^ ../include/objcdd.h:668:38: warning: 'Children_footprintAsnRead' declared 'static' but never defined [-Wunused-function] static Children_footprintPtr LIBCALL Children_footprintAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objcdd.h:669:24: warning: 'Children_footprintAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Children_footprintAsnWrite PROTO (( Children_footprintPtr , AsnIoPtr, AsnTypePtr)); ^ cddutil.c:4661:16: warning: 'CddtakeMatrixCheckpoint' defined but not used [-Wunused-function] static Boolean CddtakeMatrixCheckpoint(compactSearchItems *compactSearch, ^ In file included from cddutil.c:353:0: ../include/cddutil.h:589:25: warning: 'CddFindSeqIdInSeqLoc' declared 'static' but never defined [-Wunused-function] static SeqIdPtr CddFindSeqIdInSeqLoc(SeqLocPtr location); ^ cddutil.c: In function 'CddBioseqCopy': cddutil.c:1362:21: warning: 'head' may be used uninitialized in this function [-Wmaybe-uninitialized] newbsp->seq_ext = (Pointer)head; ^ cddutil.c: In function 'CddCopyMSLDenDiag': cddutil.c:3015:25: warning: 'ddpTail' may be used uninitialized in this function [-Wmaybe-uninitialized] ddpTail->next = ddpNew; ^ cddutil.c: In function 'CddCalculateTriangle': cddutil.c:3469:22: warning: 'pscTail' may be used uninitialized in this function [-Wmaybe-uninitialized] pscTail->next = psc; pscTail = psc; psc = NULL; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF cddposutil.c cddposutil.c: In function 'CddfindThreshSequences': cddposutil.c:359:15: warning: variable 'thisId' set but not used [-Wunused-but-set-variable] SeqIdPtr thisId; /* Ids of target sequences in current SeqAlign */ ^ cddposutil.c: In function 'CddfindDenseDiagThreshSequences': cddposutil.c:386:16: warning: variable 'thisId' set but not used [-Wunused-but-set-variable] SeqIdPtr thisId; /* Ids of target sequences in current SeqAlign */ ^ cddposutil.c: In function 'CddposFreqsToMatrix': cddposutil.c:1038:45: warning: operation on '*(*(posSearch->posPrivateMatrix + (sizetype)((long unsigned int)length * 8ul)) + (sizetype)((long unsigned int)a * 4ul))' may be undefined [-Wsequence-point] posSearch->posPrivateMatrix[length][a] = posSearch->posPrivateMatrix[length][a] = BLAST_SCORE_MIN; ^ cddposutil.c: In function 'CddposDenseDiagDemographics': cddposutil.c:1094:17: warning: unused variable 'is_new_id' [-Wunused-variable] Boolean is_new_id = FALSE; ^ cddposutil.c:1093:17: warning: unused variable 'segIndex' [-Wunused-variable] Int4 segIndex; /*Index for which piece we are at*/ ^ cddposutil.c:1092:25: warning: variable 'startS' set but not used [-Wunused-but-set-variable] Int4 startQ, startS; /*Indices into array of starting positions*/ ^ cddposutil.c:1092:17: warning: variable 'startQ' set but not used [-Wunused-but-set-variable] Int4 startQ, startS; /*Indices into array of starting positions*/ ^ cddposutil.c:1091:17: warning: unused variable 'curId' [-Wunused-variable] SeqIdPtr curId; /*Used to compare seq. coming from different SeqAligns*/ ^ cddposutil.c: In function 'CddSetUpSearchInternalByLoc': cddposutil.c:1246:39: warning: unused variable 'last_length_adjustment' [-Wunused-variable] index, length, length_adjustment=0, last_length_adjustment, min_query_length; ^ cddposutil.c: In function 'CddSetUpSearchWithReadDb': cddposutil.c:2040:43: warning: variable 'final_db_seq' set but not used [-Wunused-but-set-variable] Int4 final_virtual_db_seq=0, final_db_seq=0; ^ cddposutil.c:2006:28: warning: unused variable 'virtual_oid_bit' [-Wunused-variable] Uint4 oid_bit, virtual_oid_bit; ^ cddposutil.c:2006:19: warning: unused variable 'oid_bit' [-Wunused-variable] Uint4 oid_bit, virtual_oid_bit; ^ cddposutil.c:2005:30: warning: unused variable 'virtual_mask_index' [-Wunused-variable] Int4 mask_index, virtual_mask_index; ^ cddposutil.c:2005:18: warning: unused variable 'mask_index' [-Wunused-variable] Int4 mask_index, virtual_mask_index; ^ cddposutil.c:2004:19: warning: unused variable 'alias_oidlist' [-Wunused-variable] OIDListPtr alias_oidlist; ^ cddposutil.c:2003:19: warning: unused variable 'use_private_gilist' [-Wunused-variable] Boolean use_private_gilist = FALSE; ^ cddposutil.c:2000:20: warning: unused variable 'vnp' [-Wunused-variable] ValNodePtr vnp; ^ cddposutil.c: In function 'CddposReadAlignment': cddposutil.c:2226:16: warning: variable 'alignPos' set but not used [-Wunused-but-set-variable] Int4 alignPos, queryOffset, subjectOffset, matchLength; ^ In file included from ../include/cddutil.h:205:0, from cddposutil.c:131: cddposutil.c: At top level: ../include/objcdd.h:642:37: warning: 'Children_childrenFree' declared 'static' but never defined [-Wunused-function] static Children_childrenPtr LIBCALL Children_childrenFree PROTO ((Children_childrenPtr )); ^ ../include/objcdd.h:643:37: warning: 'Children_childrenAsnRead' declared 'static' but never defined [-Wunused-function] static Children_childrenPtr LIBCALL Children_childrenAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objcdd.h:644:24: warning: 'Children_childrenAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Children_childrenAsnWrite PROTO (( Children_childrenPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objcdd.h:666:38: warning: 'Children_footprintFree' declared 'static' but never defined [-Wunused-function] static Children_footprintPtr LIBCALL Children_footprintFree PROTO ((Children_footprintPtr )); ^ ../include/objcdd.h:667:38: warning: 'Children_footprintNew' declared 'static' but never defined [-Wunused-function] static Children_footprintPtr LIBCALL Children_footprintNew PROTO (( void )); ^ ../include/objcdd.h:668:38: warning: 'Children_footprintAsnRead' declared 'static' but never defined [-Wunused-function] static Children_footprintPtr LIBCALL Children_footprintAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objcdd.h:669:24: warning: 'Children_footprintAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Children_footprintAsnWrite PROTO (( Children_footprintPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from cddposutil.c:131:0: ../include/cddutil.h:507:27: warning: 'CddReadBlastOptions' declared 'static' but never defined [-Wunused-function] static PGPBlastOptionsPtr CddReadBlastOptions(BioseqPtr bsp, Int4 iPseudo, CharPtr matrix_name); ^ ../include/cddutil.h:512:13: warning: 'BlastKarlinBlkCopy' declared 'static' but never defined [-Wunused-function] static void BlastKarlinBlkCopy(BLAST_KarlinBlkPtr kbp_in,BLAST_KarlinBlkPtr kbp_out); ^ ../include/cddutil.h:516:13: warning: 'CddputMatrixKbp' declared 'static' but never defined [-Wunused-function] static void CddputMatrixKbp(FILE *checkFile, BLAST_KarlinBlkPtr kbp, ^ ../include/cddutil.h:518:13: warning: 'CddputMatrixMatrix' declared 'static' but never defined [-Wunused-function] static void CddputMatrixMatrix(FILE *checkFile, ^ ../include/cddutil.h:522:16: warning: 'CddtakeMatrixCheckpoint' declared 'static' but never defined [-Wunused-function] static Boolean CddtakeMatrixCheckpoint(compactSearchItems *compactSearch, ^ ../include/cddutil.h:589:25: warning: 'CddFindSeqIdInSeqLoc' declared 'static' but never defined [-Wunused-function] static SeqIdPtr CddFindSeqIdInSeqLoc(SeqLocPtr location); ^ ../include/cddutil.h:591:25: warning: 'CddRelocateSeqLoc' declared 'static' but never defined [-Wunused-function] static void CddRelocateSeqLoc(SeqLocPtr location, SeqIdPtr sip, Int4 *ali); ^ ../include/cddutil.h:592:25: warning: 'CddSeqLocInExpAlign' declared 'static' but never defined [-Wunused-function] static Int4 CddSeqLocInExpAlign(SeqLocPtr location, CddExpAlignPtr eap); ^ ../include/cddutil.h:593:25: warning: 'CddFindSeqIdInAlignAnnot' declared 'static' but never defined [-Wunused-function] static SeqIdPtr CddFindSeqIdInAlignAnnot(AlignAnnotPtr oldannot); ^ ../include/cddutil.h:623:24: warning: 'HitYet' declared 'static' but never defined [-Wunused-function] static Boolean HitYet(Int4Ptr retlist, Int4 index, Int4 i); ^ ../include/cddutil.h:649:16: warning: 'CddFixForXML' declared 'static' but never defined [-Wunused-function] static CharPtr CddFixForXML(CharPtr pc); ^ cddposutil.c:971:13: warning: 'CddfreePosFreqs' defined but not used [-Wunused-function] static void CddfreePosFreqs(Nlm_FloatHi ** posFreqs, Int4 length) ^ cddposutil.c: In function 'CddposComputeSequenceWeights': cddposutil.c:840:35: warning: 'intervalSigma' may be used uninitialized in this function [-Wmaybe-uninitialized] posSearch->posSigma[qplace] = intervalSigma; ^ cddposutil.c:832:68: warning: 'Sigma' may be used uninitialized in this function [-Wmaybe-uninitialized] posSearch->posA[thisSeq] = posSearch->posRowSigma[thisSeq]/Sigma; ^ cddposutil.c: In function 'CddposDemographics': cddposutil.c:1199:24: warning: 'retrievalOffset' may be used uninitialized in this function [-Wmaybe-uninitialized] subjectOffset = curSegs->starts[startS] - retrievalOffset; ^ cddposutil.c: In function 'CddSetUpSearchWithReadDb': cddposutil.c:1740:48: warning: 'min_query_length' may be used uninitialized in this function [-Wmaybe-uninitialized] if( 0 != BlastComputeLengthAdjustment(1/min_query_length, ^ cddposutil.c:1246:63: note: 'min_query_length' was declared here index, length, length_adjustment=0, last_length_adjustment, min_query_length; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF objmime.c objmime.c: In function 'NcbiMimeAsn1Free': objmime.c:123:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmime.c: In function 'NcbiMimeAsn1AsnRead': objmime.c:170:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmime.c: In function 'Data_dataFree': objmime.c:377:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmime.c: In function 'EntrezGeneralAsnRead': objmime.c:423:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmime.c:422:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmime.c: In function 'Data_dataAsnRead': objmime.c:517:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmime.c: In function 'BiostrucAlignAsnRead': objmime.c:791:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmime.c: In function 'BiostrucAlignSeqAsnRead': objmime.c:1016:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmime.c: In function 'BiostrucSeqAsnRead': objmime.c:1208:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmime.c: In function 'BiostrucSeqsAsnRead': objmime.c:1402:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmime.c: In function 'SeqAlignData_seq_align_dataFree': objmime.c:1599:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmime.c: In function 'BiostrucSeqsAlignsCddAsnRead': objmime.c:1633:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmime.c: In function 'SeqAlignData_seq_align_dataAsnRead': objmime.c:1720:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmime.c: In function 'BundleSeqsAlignsAsnRead': objmime.c:1954:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ In file included from ../include/mapmime.h:4:0, from objmime.c:78: objmime.c: At top level: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/mapmime.h:4:0, from objmime.c:78: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/mapmime.h:6:0, from objmime.c:78: ../include/objcdd.h:642:37: warning: 'Children_childrenFree' declared 'static' but never defined [-Wunused-function] static Children_childrenPtr LIBCALL Children_childrenFree PROTO ((Children_childrenPtr )); ^ ../include/objcdd.h:643:37: warning: 'Children_childrenAsnRead' declared 'static' but never defined [-Wunused-function] static Children_childrenPtr LIBCALL Children_childrenAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objcdd.h:644:24: warning: 'Children_childrenAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Children_childrenAsnWrite PROTO (( Children_childrenPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objcdd.h:666:38: warning: 'Children_footprintFree' declared 'static' but never defined [-Wunused-function] static Children_footprintPtr LIBCALL Children_footprintFree PROTO ((Children_footprintPtr )); ^ ../include/objcdd.h:667:38: warning: 'Children_footprintNew' declared 'static' but never defined [-Wunused-function] static Children_footprintPtr LIBCALL Children_footprintNew PROTO (( void )); ^ ../include/objcdd.h:668:38: warning: 'Children_footprintAsnRead' declared 'static' but never defined [-Wunused-function] static Children_footprintPtr LIBCALL Children_footprintAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objcdd.h:669:24: warning: 'Children_footprintAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Children_footprintAsnWrite PROTO (( Children_footprintPtr , AsnIoPtr, AsnTypePtr)); ^ objmime.c: In function 'NcbiMimeAsn1AsnRead': objmime.c:232:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmime.c: In function 'EntrezGeneralAsnRead': objmime.c:579:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmime.c:516:10: note: 'choice' was declared here Uint1 choice; ^ objmime.c: In function 'BiostrucSeqsAlignsCddAsnRead': objmime.c:1766:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmime.c:1719:10: note: 'choice' was declared here Uint1 choice; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF strucapi.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrdalgs.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrdatd.c thrdatd.c: In function 'atd': thrdatd.c:201:8: warning: variable 'hh' set but not used [-Wunused-but-set-variable] float hh; ^ thrdatd.c:198:6: warning: variable 'rf' set but not used [-Wunused-but-set-variable] int rf; /* Reference position for a core element */ ^ thrdatd.c:188:14: warning: unused variable 'm' [-Wunused-variable] int i,j,k,l,m,n; /* Counters */ ^ thrdatd.c:188:12: warning: unused variable 'l' [-Wunused-variable] int i,j,k,l,m,n; /* Counters */ ^ thrdatd.c:171:6: warning: variable 'nrp' set but not used [-Wunused-but-set-variable] int nrp; /* Number of residue-peptide contacts in motif */ ^ thrdatd.c:170:6: warning: variable 'nrr' set but not used [-Wunused-but-set-variable] int nrr; /* Number of residue-residue contacts in motif */ ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrdbwfi.c thrdbwfi.c: In function 'bwfi': thrdbwfi.c:114:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ thrdbwfi.c:89:20: warning: 'nz' may be used uninitialized in this function [-Wmaybe-uninitialized] cw=0.; ct=ttb->mx; for(i=0; i<=nz; i++) { ^ thrdbwfi.c:102:13: warning: 'nt' may be used uninitialized in this function [-Wmaybe-uninitialized] ct=ttb->mx; for(i=0; i<=nt; i++) { ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrdcpal.c thrdcpal.c: In function 'cpal': thrdcpal.c:210:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrdcpll.c thrdcpll.c: In function 'cpll': thrdcpll.c:74:5: warning: variable 'nrt' set but not used [-Wunused-but-set-variable] int nrt; /* Number of residue types */ ^ thrdcpll.c:229:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ thrdcpll.c:220:15: warning: 'r2' may be used uninitialized in this function [-Wmaybe-uninitialized] cl->rf.t2[k]=r2; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrdcprl.c thrdcprl.c: In function 'cprl': thrdcprl.c:261:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrdcxei.c thrdcxei.c: In function 'cxei': thrdcxei.c:94:15: warning: variable 'ms' set but not used [-Wunused-but-set-variable] int ntot, ms; ^ thrdcxei.c:205:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrddgri.c thrddgri.c: In function 'g': thrddgri.c:72:5: warning: variable 's0' set but not used [-Wunused-but-set-variable] int s0; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrdrsmp.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrdsal0.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrdsalr.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrdsalu.c thrdsalu.c: In function 'salu': thrdsalu.c:83:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrdsgoi.c thrdsgoi.c: In function 'sgoi': thrdsgoi.c:123:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrdslo0.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrdslor.c thrdslor.c: In function 'slor': thrdslor.c:90:6: warning: 'mp' may be used uninitialized in this function [-Wmaybe-uninitialized] int *mp; /* Motif-derived loop length limits */ ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrdslou.c thrdslou.c: In function 'slou': thrdslou.c:114:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrdspci.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrdspea.c thrdspea.c: In function 'spea': thrdspea.c:91:9: warning: variable 'nrt' set but not used [-Wunused-but-set-variable] int nrt; /* Number of residue types in potential */ ^ thrdspea.c:189:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrdspel.c thrdspel.c: In function 'spel': thrdspel.c:88:9: warning: variable 'nrt' set but not used [-Wunused-but-set-variable] int nrt; /* Number of residue types in potential */ ^ thrdspel.c:188:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrdspni.c thrdspni.c: In function 'spni': thrdspni.c:238:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrdttb0.c thrdttb0.c: In function 'ttb0': thrdttb0.c:75:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrdttbi.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrdzsc.c thrdzsc.c: In function 'zsc': thrdzsc.c:107:7: warning: unused variable 'gs' [-Wunused-variable] int g,gs; ^ thrdzsc.c:102:18: warning: unused variable 'zsc' [-Wunused-variable] float tg,tgp,tgm,zsc; /* Energy of shuffled sequence */ ^ thrdzsc.c:95:5: warning: unused variable 'ps' [-Wunused-variable] int ps,ms,cs, ^ thrdzsc.c:80:5: warning: unused variable 'temp' [-Wunused-variable] int temp; /* Random index of the query sequence */ ^ thrdzsc.c:79:2: warning: unused variable 'kk' [-Wunused-variable] kk,itr,ii,jj; /* Counters */ ^ thrdzsc.c:369:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ rm -f libncbimmdb.a ar cru libncbimmdb.a corematx.o dvncode.o objmmdb1.o objmmdb2.o objmmdb3.o objcn3d.o mmdbapi.o mmdbapi1.o mmdbapi2.o mmdbapi3.o mmdbapi4.o mmdbentr.o vastsubs.o prunebsc.o objcdd.o cddutil.o cddposutil.o objmime.o strucapi.o thrdalgs.o thrdatd.o thrdbwfi.o thrdcpal.o thrdcpll.o thrdcprl.o thrdcxei.o thrddgri.o thrdrsmp.o thrdsal0.o thrdsalr.o thrdsalu.o thrdsgoi.o thrdslo0.o thrdslor.o thrdslou.o thrdspci.o thrdspea.o thrdspel.o thrdspni.o thrdttb0.o thrdttbi.o thrdzsc.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libncbimmdb.a ../lib ranlib ../lib/libncbimmdb.a gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF csim.c csim.c: In function 'set_pam_200': csim.c:163:29: warning: missing braces around initializer [-Wmissing-braces] static Int2 wgts[23][23] = { /* the PAM200 matrix */ ^ csim.c:163:29: note: (near initialization for 'wgts') csim.c:196:9: warning: array subscript has type 'char' [-Wchar-subscripts] V[achars[i]][achars[j]]=10*(wgts[i][j]); ^ csim.c:196:20: warning: array subscript has type 'char' [-Wchar-subscripts] V[achars[i]][achars[j]]=10*(wgts[i][j]); ^ csim.c: In function 'set_pam_file': csim.c:228:13: warning: array subscript has type 'char' [-Wchar-subscripts] V[alph[i]][alph[j]]=(Int2)(10*weight); ^ csim.c:228:22: warning: array subscript has type 'char' [-Wchar-subscripts] V[alph[i]][alph[j]]=(Int2)(10*weight); ^ csim.c: In function 'big_pass': csim.c:668:13: warning: array subscript has type 'char' [-Wchar-subscripts] va = v[A[i]]; ^ csim.c:692:23: warning: array subscript has type 'char' [-Wchar-subscripts] DIAG(i, j, c, p+va[B[j]]) /* diagonal */ ^ csim.c:440:11: note: in definition of macro 'DIAG' x = ( pvalue ); \ ^ csim.c: In function 'diff1': csim.c:799:13: warning: array subscript has type 'char' [-Wchar-subscripts] va = v[A[1]]; ^ csim.c:805:21: warning: array subscript has type 'char' [-Wchar-subscripts] { c = va[B[j]] - ( GAP(j-1) + GAP(N-j) ); ^ csim.c:849:13: warning: array subscript has type 'char' [-Wchar-subscripts] va = v[A[i]]; ^ csim.c:853:43: warning: array subscript has type 'char' [-Wchar-subscripts] DIAG(i+(s_ptr->I), (s_ptr->J)+j, c, s+v[A[i]][B[j]]) ^ csim.c:440:11: note: in definition of macro 'DIAG' x = ( pvalue ); \ ^ csim.c:853:49: warning: array subscript has type 'char' [-Wchar-subscripts] DIAG(i+(s_ptr->I), (s_ptr->J)+j, c, s+v[A[i]][B[j]]) ^ csim.c:440:11: note: in definition of macro 'DIAG' x = ( pvalue ); \ ^ csim.c:874:13: warning: array subscript has type 'char' [-Wchar-subscripts] va = v[A[i+1]]; ^ csim.c:878:43: warning: array subscript has type 'char' [-Wchar-subscripts] DIAG(i+1+s_ptr->I, j+1+s_ptr->J, c, s+v[A[i+1]][B[j+1]]) ^ csim.c:440:11: note: in definition of macro 'DIAG' x = ( pvalue ); \ ^ csim.c:878:51: warning: array subscript has type 'char' [-Wchar-subscripts] DIAG(i+1+s_ptr->I, j+1+s_ptr->J, c, s+v[A[i+1]][B[j+1]]) ^ csim.c:440:11: note: in definition of macro 'DIAG' x = ( pvalue ); \ ^ csim.c:893:38: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if (c > midc || CC[j] != DD[j] && RR[j] == SS[j]) ^ csim.c: In function 'locate': csim.c:974:13: warning: array subscript has type 'char' [-Wchar-subscripts] va = v[A[i]]; ^ csim.c:991:23: warning: array subscript has type 'char' [-Wchar-subscripts] DIAG(i, j, c, p+va[B[j]]) /* diagonal */ ^ csim.c:440:11: note: in definition of macro 'DIAG' x = ( pvalue ); \ ^ csim.c:1030:14: warning: array subscript has type 'char' [-Wchar-subscripts] va = v[A[(plist->m1)]]; ^ csim.c:1043:33: warning: array subscript has type 'char' [-Wchar-subscripts] DIAG((plist->m1), j, c, p+va[B[j]]) /* diagonal */ ^ csim.c:440:11: note: in definition of macro 'DIAG' x = ( pvalue ); \ ^ csim.c:1061:31: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if ( ! rflag && ( ci > rl && cj > cl || di > rl && dj > cl ^ csim.c:1062:44: warning: suggest parentheses around '&&' within '||' [-Wparentheses] || fi > rl && fj > cl ) ) ^ csim.c:1071:34: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if ( ! cflag && ( ci > rl && cj > cl || di > rl && dj > cl ^ csim.c:1072:20: warning: suggest parentheses around '&&' within '||' [-Wparentheses] || fi > rl && fj > cl ) ) ^ csim.c:1084:14: warning: array subscript has type 'char' [-Wchar-subscripts] va = v[B[(plist->n1)]]; ^ csim.c:1110:40: warning: array subscript has type 'char' [-Wchar-subscripts] DIAG(i, (plist->n1), c, p+va[A[i]]) ^ csim.c:440:11: note: in definition of macro 'DIAG' x = ( pvalue ); \ ^ csim.c:1128:38: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if ( ! cflag && ( ci > rl && cj > cl || di > rl && dj > cl ^ csim.c:1129:29: warning: suggest parentheses around '&&' within '||' [-Wparentheses] || fi > rl && fj > cl ) ) ^ csim.c:1138:34: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if ( ! rflag && ( ci > rl && cj > cl || di > rl && dj > cl ^ csim.c:1139:47: warning: suggest parentheses around '&&' within '||' [-Wparentheses] || fi > rl && fj > cl ) ) ^ csim.c:1144:29: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if ( (plist->m1) == 1 && (plist->n1) == 1 || no_cross(flag, plist, &rl, &cl) ) ^ csim.c: In function 'small_pass': csim.c:1186:13: warning: array subscript has type 'char' [-Wchar-subscripts] va = v[A[i]]; ^ csim.c:1212:23: warning: array subscript has type 'char' [-Wchar-subscripts] DIAG(i, j, c, p+va[B[j]]) /* diagonal */ ^ csim.c:440:11: note: in definition of macro 'DIAG' x = ( pvalue ); \ ^ csim.c: In function 'display': csim.c:1360:5: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (i < M || j < N) ^ csim.c: In function 'set_pam_file': csim.c:227:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fp, "%f", &weight); /**get the matrix**/ ^ csim.c: In function 'SIM': csim.c:1071:62: warning: 'dj' may be used uninitialized in this function [-Wmaybe-uninitialized] if ( ! cflag && ( ci > rl && cj > cl || di > rl && dj > cl ^ csim.c:928:23: note: 'dj' was declared here register Int4 di, dj; /* end-point associated with d */ ^ csim.c:1071:51: warning: 'di' may be used uninitialized in this function [-Wmaybe-uninitialized] if ( ! cflag && ( ci > rl && cj > cl || di > rl && dj > cl ^ csim.c:928:19: note: 'di' was declared here register Int4 di, dj; /* end-point associated with d */ ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF db_slist.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF dust.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_dust.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF falign.c falign.c: In function 'fbld_table': falign.c:490:34: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*++q]; ^ falign.c:494:43: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*q]; ^ falign.c: In function 'bbld_table': falign.c:517:34: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*--q]; ^ falign.c:521:43: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*q]; ^ falign.c: In function 'rcbld_table': falign.c:544:34: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*--q]; ^ falign.c:548:43: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*q]; ^ falign.c: In function 'ex_table': falign.c:567:42: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*q]; ^ falign.c: In function 'free_all': falign.c:668:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (df = cdiag_prev[l]) { ^ falign.c: In function 'scan': falign.c:688:34: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*++q]; ^ falign.c:694:43: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*q]; ^ falign.c:710:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (df = diag_prev[len1+len2-1-pos]) { ^ falign.c:719:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (df=diag_prev[l]) { ^ falign.c: In function 'fscan': falign.c:763:34: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*++q]; ^ falign.c:769:43: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*q]; ^ falign.c: In function 'bscan': falign.c:794:34: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*--q]; ^ falign.c:800:43: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*q]; ^ falign.c: In function 'rfscan': falign.c:870:34: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*++q]; ^ falign.c:876:43: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*q]; ^ falign.c:881:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (df = diag_prev[len1+se2-pos]) { ^ falign.c:889:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (df = diag_prev[len1+se2-pos]) { ^ falign.c: In function 'trcscan': falign.c:1476:34: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*--q]; ^ falign.c:1482:43: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*q]; ^ falign.c: In function 'rclocal': falign.c:1547:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (pf = diag_prev[ocur_diag]) { ^ falign.c: In function 'enterS': falign.c:1897:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (s = findS(f->bgf)) { ^ falign.c: In function 'local': falign.c:1958:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (pf = diag_prev[cur_diag]) { ^ falign.c: In function 'align': falign.c:1999:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (pf = cdiag_prev[cur_diag]) { ^ falign.c: In function 'calign': falign.c:2054:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (pf = cdiag_prev[cur_diag]) { ^ falign.c: In function 'malign': falign.c:2109:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (pf = cdiag_prev[cur_diag]) { ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF g_any.c g_any.c: In function 'k_align': g_any.c:212:10: warning: array subscript has type 'char' [-Wchar-subscripts] va = vv[A[i+1]]; ^ g_any.c:229:26: warning: array subscript has type 'char' [-Wchar-subscripts] if (j < J2) c = s + va[B[j+1]]; ^ g_any.c:319:10: warning: array subscript has type 'char' [-Wchar-subscripts] b2 = PP[t1][b1]; ^ g_any.c:322:10: warning: array subscript has type 'char' [-Wchar-subscripts] t2 = PT[t1][b1]; ^ g_any.c: In function 'z_ALIGN': g_any.c:367:7: warning: variable 'check_score' set but not used [-Wunused-but-set-variable] Int4 check_score; ^ g_any.c: In function 'CHECK_SCORE': g_any.c:492:13: warning: array subscript has type 'char' [-Wchar-subscripts] score = vv[A[++i]][B[++j]] + score; ^ g_any.c:492:21: warning: array subscript has type 'char' [-Wchar-subscripts] score = vv[A[++i]][B[++j]] + score; ^ g_any.c: At top level: g_any.c:428:13: warning: 'ALINE' defined but not used [-Wunused-variable] static Char ALINE[51], BLINE[51], CLINE[51]; ^ g_any.c:428:24: warning: 'BLINE' defined but not used [-Wunused-variable] static Char ALINE[51], BLINE[51], CLINE[51]; ^ g_any.c:428:35: warning: 'CLINE' defined but not used [-Wunused-variable] static Char ALINE[51], BLINE[51], CLINE[51]; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF sim2.c sim2.c: In function 'SIM2': sim2.c:19:16: warning: unused variable 'compB' [-Wunused-variable] CharPtr A, B, compB = NULL; ^ sim2.c:17:26: warning: unused variable 'sapC' [-Wunused-variable] SeqAlignPtr sap = NULL, sapC=NULL, out_sap, out_sapC; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF sim3.c sim3.c: In function 'locate': sim3.c:103:34: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*p++]; ^ sim3.c:105:43: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*p++]; ^ sim3.c:113:48: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*p++]; ^ sim3.c:115:57: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*p++]; ^ sim3.c:129:48: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*p++]; ^ sim3.c:133:57: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*p++]; ^ sim3.c:152:45: warning: array subscript has type 'char' [-Wchar-subscripts] ecode1 = ((ecode1 & mask) << 2) + encoding[*q++]; ^ sim3.c:155:57: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*p++]; ^ sim3.c: At top level: sim3.c:806:13: warning: 'Print_Script' defined but not used [-Wunused-function] static void Print_Script(EditScriptPtr head, Int4 M, Int4 N, CharPtr A, CharPtr B) ^ sim3.c:1048:13: warning: 'get_start_pos' defined but not used [-Wunused-function] static Int4 get_start_pos(SeqLocPtr slp) ^ sim3.c:1056:13: warning: 'get_current_pos' defined but not used [-Wunused-function] static Int4 get_current_pos(Int4Ptr pos, Int4 length) ^ sim3.c:1067:16: warning: 'is_end_seg' defined but not used [-Wunused-function] static Boolean is_end_seg(EditScriptPtr curr, EditScriptPtr head) ^ sim3.c: In function 'locate': sim3.c:230:17: warning: 'paired_bj' may be used uninitialized in this function [-Wmaybe-uninitialized] *j2 = paired_bj+1; ^ sim3.c:229:6: warning: 'paired_fj' may be used uninitialized in this function [-Wmaybe-uninitialized] *j1 = paired_fj; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF sim4.c sim4.c: In function 'sim4x': sim4.c:630:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while(i1 = sgp->Blist[i].next) { ^ sim4.c: In function 'greedy': sim4.c:1770:17: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (row == 0 && col == 0) ^ sim4.c:1794:17: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (row == 0) ^ sim4.c:1838:17: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (col == 0) ^ sim4.c:1962:19: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (row == m && col == n) ^ sim4.c:1991:19: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (row == m) ^ sim4.c:2037:19: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (col == n) ^ sim4.c: In function 'DISPLAY': sim4.c:2625:35: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if (a >= ALINE+50 || i >= M && j >= N) ^ sim4.c: At top level: sim4.c:2563:13: warning: 'S2A' defined but not used [-Wunused-function] static void S2A(EditScriptPtr head, Int4Ptr S) ^ sim4.c:2592:13: warning: 'DISPLAY' defined but not used [-Wunused-function] static void DISPLAY(Int1 A[], Int1 B[], Int4 M, Int4 N, Int4 S[], Int4 AP, Int4 BP) ^ sim4.c:2499:13: warning: 'Print_Script' defined but not used [-Wunused-function] static void Print_Script(EditScriptPtr head, Int4 M, Int4 N, data_t *data) ^ sim4.c: In function 'locate': sim4.c:2919:19: warning: 'paired_bj' may be used uninitialized in this function [-Wmaybe-uninitialized] *j2 = paired_bj + 1; ^ sim4.c:2918:7: warning: 'paired_fj' may be used uninitialized in this function [-Wmaybe-uninitialized] *j1 = paired_fj; ^ sim4.c: In function 'greedy.isra.12': sim4.c:2112:37: warning: 'forth' may be used uninitialized in this function [-Wmaybe-uninitialized] if (m-min_row[back]>=max_row[forth]) { ^ sim4.c:2112:22: warning: 'back' may be used uninitialized in this function [-Wmaybe-uninitialized] if (m-min_row[back]>=max_row[forth]) { ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF simutil.c simutil.c: In function 'make_align': simutil.c:495:9: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ simutil.c: At top level: simutil.c:344:17: warning: 'convert' defined but not used [-Wunused-function] static ScorePtr convert(Int4Ptr x, Int4Ptr y, Int4Ptr start, Int4Ptr length, Int4 n, SeqLocPtr locx, SeqLocPtr locy, Int2Ptr numseg, FloatHiPtr SegScores) ^ simutil.c:814:16: warning: 're_cal_score' defined but not used [-Wunused-function] static FloatHi re_cal_score(RecordEndsPtr o_rep, RecordEndsPtr n_rep) ^ simutil.c:848:16: warning: 'is_alu_seq' defined but not used [-Wunused-function] static Boolean is_alu_seq(CharPtr name) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF slist.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF sec.c sec.c: In function 'Region': sec.c:268:19: warning: array subscript has type 'char' [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:268:28: warning: array subscript has type 'char' [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:292:19: warning: array subscript has type 'char' [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:292:28: warning: array subscript has type 'char' [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:321:19: warning: array subscript has type 'char' [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:321:28: warning: array subscript has type 'char' [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:345:19: warning: array subscript has type 'char' [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:345:28: warning: array subscript has type 'char' [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:428:35: warning: array subscript has type 'char' [-Wchar-subscripts] diag_score = diag_score + V[seq1[i]][seq2[j]]; ^ sec.c:428:44: warning: array subscript has type 'char' [-Wchar-subscripts] diag_score = diag_score + V[seq1[i]][seq2[j]]; ^ sec.c:504:11: warning: 'old_l' may be used uninitialized in this function [-Wmaybe-uninitialized] LB[i] = old_l; ^ sec.c:72:37: warning: 'ppj' may be used uninitialized in this function [-Wmaybe-uninitialized] #define Min(x,y) ((x) <= (y) ? (x) : (y)) ^ sec.c:172:20: note: 'ppj' was declared here Int4 pi, pj, ppi, ppj; ^ sec.c:172:15: warning: 'ppi' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 pi, pj, ppi, ppj; ^ sec.c:172:7: warning: 'pi' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 pi, pj, ppi, ppj; ^ sec.c:502:10: warning: 'ej' may be used uninitialized in this function [-Wmaybe-uninitialized] tr = Min(cj + Width, ej); ^ sec.c:163:15: warning: 'ei' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 bi, bj, ei, ej, t; ^ sec.c:71:37: warning: 'bj' may be used uninitialized in this function [-Wmaybe-uninitialized] #define Max(x,y) ((x) >= (y) ? (x) : (y)) ^ sec.c:163:11: note: 'bj' was declared here Int4 bi, bj, ei, ej, t; ^ In file included from ../include/ncbi.h:59:0, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/simutil.h:77, from sec.c:67: ../include/ncbimem.h:232:23: warning: 'bi' may be used uninitialized in this function [-Wmaybe-uninitialized] #define MemFree Nlm_MemFree ^ sec.c:163:7: note: 'bi' was declared here Int4 bi, bj, ei, ej, t; ^ In file included from ../include/ncbi.h:59:0, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/simutil.h:77, from sec.c:67: ../include/ncbimem.h:232:23: warning: 'RB' may be used uninitialized in this function [-Wmaybe-uninitialized] #define MemFree Nlm_MemFree ^ sec.c:159:10: note: 'RB' was declared here Int4Ptr RB; ^ In file included from ../include/ncbi.h:59:0, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/simutil.h:77, from sec.c:67: ../include/ncbimem.h:232:23: warning: 'LB' may be used uninitialized in this function [-Wmaybe-uninitialized] #define MemFree Nlm_MemFree ^ sec.c:158:10: note: 'LB' was declared here Int4Ptr LB; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF tfuns.c tfuns.c: In function 'find_orf': tfuns.c:846:26: warning: unused variable 'into' [-Wunused-variable] IntFuzzPtr infrom=NULL, into=NULL; ^ tfuns.c:846:13: warning: unused variable 'infrom' [-Wunused-variable] IntFuzzPtr infrom=NULL, into=NULL; ^ tfuns.c: At top level: tfuns.c:956:13: warning: 'find_orf_from_circle' defined but not used [-Wunused-function] static void find_orf_from_circle (SeqPortPtr spp, Boolean flagIsCircle, ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF toasn3.c toasn3.c: In function 'FindOrg': toasn3.c:1311:17: warning: variable 'len' set but not used [-Wunused-but-set-variable] Int4 len; ^ toasn3.c: In function 'CheckQualsWithComm': toasn3.c:1592:18: warning: variable 'orp' set but not used [-Wunused-but-set-variable] OrgRefPtr orp; ^ toasn3.c: In function 'CheckQuals': toasn3.c:1629:18: warning: variable 'orp' set but not used [-Wunused-but-set-variable] OrgRefPtr orp; ^ toasn3.c: In function 'CountSourceFeat': toasn3.c:2415:13: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ toasn3.c:2406:19: warning: variable 'vnp' set but not used [-Wunused-but-set-variable] ValNodePtr vnp; ^ toasn3.c: In function 'TASNTrimInternalSemicolons': toasn3.c:3986:12: warning: variable 'tmp' set but not used [-Wunused-but-set-variable] CharPtr tmp; ^ toasn3.c: In function 'ImpFeatToProtRef': toasn3.c:4672:13: warning: variable 'lfree' set but not used [-Wunused-but-set-variable] Boolean lfree = FALSE, partial5, partial3; ^ toasn3.c: In function 'RemovePeptideImpFeats': toasn3.c:4967:24: warning: variable 'ifp' set but not used [-Wunused-but-set-variable] ImpFeatPtr ifp; ^ In file included from ../include/asn2ff6.h:142:0, from toasn3.c:19: toasn3.c: At top level: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ toasn3.c:1572:16: warning: 'GetQualValue' defined but not used [-Wunused-function] static CharPtr GetQualValue(GBQualPtr gbqual, CharPtr qual) ^ toasn3.c: In function 'GetOriginalBeforeAdjustment': toasn3.c:4185:29: warning: 'last' may be used uninitialized in this function [-Wmaybe-uninitialized] if (last != NULL && last->choice != SEQLOC_INT) /* this is too weird */ ^ toasn3.c: In function 'FixNucProtSet': toasn3.c:2057:21: warning: 'bseg' may be used uninitialized in this function [-Wmaybe-uninitialized] bseg->descr = descr; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF toporg.c toporg.c: In function 'ChkSegset': toporg.c:62:51: warning: variable 'is_title' set but not used [-Wunused-but-set-variable] Boolean is_org = FALSE, is_modif = FALSE, is_title = FALSE; ^ toporg.c:61:17: warning: variable 'orp' set but not used [-Wunused-but-set-variable] OrgRefPtr orp; ^ toporg.c:58:17: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ toporg.c:53:17: warning: variable 'vnp' set but not used [-Wunused-but-set-variable] ValNodePtr vnp = NULL, set_vnp = NULL, upd_date_vnp = NULL; ^ toporg.c: In function 'ChkNucProt': toporg.c:594:51: warning: variable 'is_title' set but not used [-Wunused-but-set-variable] Boolean is_org = FALSE, is_modif = FALSE, is_title = FALSE; ^ toporg.c: In function 'StripBSfromParts': toporg.c:1280:17: warning: variable 'empty' set but not used [-Wunused-but-set-variable] Boolean empty; ^ toporg.c:1279:17: warning: variable 'bsmp' set but not used [-Wunused-but-set-variable] BSMapPtr bsmp; ^ toporg.c:1278:29: warning: variable 'set_vnp' set but not used [-Wunused-but-set-variable] ValNodePtr descr, vnp, set_vnp; ^ toporg.c: In function 'MapsToGenref': toporg.c:1944:17: warning: variable 'loc' set but not used [-Wunused-but-set-variable] SeqLocPtr loc; ^ toporg.c:1939:17: warning: variable 'descr' set but not used [-Wunused-but-set-variable] ValNodePtr descr = NULL, head, last, vnp; ^ toporg.c: In function 'FindOldLineage': toporg.c:2521:17: warning: variable 'lineage' set but not used [-Wunused-but-set-variable] CharPtr lineage; ^ toporg.c: In function 'ArePubsMergeableForFig': toporg.c:4461:36: warning: logical not is only applied to the left hand side of comparison [-Wlogical-not-parentheses] || !cgp_fig->serial_number != cgp_nofig->serial_number) { ^ toporg.c: In function 'StripBadTitleFromProteinProducts': toporg.c:4968:22: warning: variable 'tech' set but not used [-Wunused-but-set-variable] Uint1 tech; ^ toporg.c: At top level: toporg.c:3010:13: warning: 'BarCodeTechToKeyword' defined but not used [-Wunused-function] static void BarCodeTechToKeyword (BioseqPtr bsp, Pointer userdata) ^ toporg.c: In function 'MergeEquivCitSubs': toporg.c:3782:7: warning: 'csp1' may be used uninitialized in this function [-Wmaybe-uninitialized] if (DateMatch (csp1->date, csp2->date, FALSE) != 0) return FALSE; ^ toporg.c:3802:18: note: 'csp1' was declared here CitSubPtr csp1, csp2; ^ toporg.c: In function 'CheckMaps': toporg.c:1715:11: warning: 'to' may be used uninitialized in this function [-Wmaybe-uninitialized] sip->to = to; ^ toporg.c:1696:24: note: 'to' was declared here Int4 from, to; ^ toporg.c:1714:13: warning: 'from' may be used uninitialized in this function [-Wmaybe-uninitialized] sip->from = from; ^ toporg.c:1696:18: note: 'from' was declared here Int4 from, to; ^ toporg.c: In function 'ConvertSegSetToDeltaSeq': toporg.c:6566:3: warning: 'entityID' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqMgrClearFeatureIndexes (entityID, NULL); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF pobutil.c pobutil.c: In function 'build_repeat_feat': pobutil.c:187:7: warning: unused variable 'c' [-Wunused-variable] Char c='%'; ^ pobutil.c: In function 'merge_StdSeg': pobutil.c:1033:7: warning: variable 'start_1' set but not used [-Wunused-but-set-variable] Int4 start_1, stop_1, start_2, stop_2; ^ pobutil.c:1031:7: warning: unused variable 'overlap' [-Wunused-variable] Int4 overlap = -1; ^ In file included from ../include/ncbi.h:59:0, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/seqport.h:47, from ../include/pobutil.h:7, from pobutil.c:3: pobutil.c: In function 'FindHumanRepeats': ../include/ncbimem.h:191:21: warning: 'memset' used with constant zero length parameter; this could be due to transposed parameters [-Wmemset-transposed-args] #define Nlm_MemSet memset ^ ../include/ncbimem.h:210:17: note: in expansion of macro 'Nlm_MemSet' #define MemSet Nlm_MemSet ^ pobutil.c:2380:2: note: in expansion of macro 'MemSet' MemSet((Pointer) (&tmp), sizeof(ValNode), 0); ^ ../include/ncbimem.h:191:21: warning: 'memset' used with constant zero length parameter; this could be due to transposed parameters [-Wmemset-transposed-args] #define Nlm_MemSet memset ^ ../include/ncbimem.h:210:17: note: in expansion of macro 'Nlm_MemSet' #define MemSet Nlm_MemSet ^ pobutil.c:2381:2: note: in expansion of macro 'MemSet' MemSet((Pointer) (&si), sizeof(SeqInt), 0); ^ pobutil.c: In function 'AluFeat': pobutil.c:2431:10: warning: variable 'my_userdata' set but not used [-Wunused-but-set-variable] Pointer my_userdata; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF stsutil.c stsutil.c: In function 'InitSTSSearch_r': stsutil.c:270:10: warning: unused variable 'StsCount' [-Wunused-variable] Int4 StsCount=0; ^ stsutil.c: In function 'GetSTSEntry': stsutil.c:635:13: warning: variable 'p' set but not used [-Wunused-but-set-variable] CharPtr p; ^ stsutil.c: In function 'STSCalculateHash': stsutil.c:753:26: warning: array subscript has type 'char' [-Wchar-subscripts] if ((j = HashCode[*p++]) < 0) ^ stsutil.c: In function 'STSReverse': stsutil.c:771:28: warning: array subscript has type 'char' [-Wchar-subscripts] if ((*t = ComplCode[*s]) == 0) ^ stsutil.c: In function 'InitHashTable': stsutil.c:910:21: warning: variable 'sts_uid' set but not used [-Wunused-but-set-variable] CharPtr gb_uid, sts_uid; ^ stsutil.c:910:13: warning: variable 'gb_uid' set but not used [-Wunused-but-set-variable] CharPtr gb_uid, sts_uid; ^ stsutil.c:908:23: warning: variable 'gi' set but not used [-Wunused-but-set-variable] Int4 id_sts, len, gi, StsCount = 0, StsInvalid =0; ^ stsutil.c:908:10: warning: variable 'id_sts' set but not used [-Wunused-but-set-variable] Int4 id_sts, len, gi, StsCount = 0, StsInvalid =0; ^ stsutil.c:907:23: warning: unused variable 'error' [-Wunused-variable] Int4 LineLength, error= FALSE; ^ stsutil.c: At top level: stsutil.c:892:13: warning: 'STSHashInitFree' defined but not used [-Wunused-function] static void STSHashInitFree(STSHashInitPtr sts) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF suggadj.c suggadj.c: In function 'score_possible_splice_sites': suggadj.c:874:13: warning: array subscript has type 'char' [-Wchar-subscripts] score = ( vx[seq_or_rev[putative_donor]]==3) ?10:0; ^ suggadj.c:875:13: warning: array subscript has type 'char' [-Wchar-subscripts] score += (vx[seq_or_rev[putative_acceptor]]==3 )?10:0; ^ suggadj.c:878:14: warning: array subscript has type 'char' [-Wchar-subscripts] score += ( vx[seq_or_rev[putative_donor+1]]==0 )?3:0; ^ suggadj.c:879:14: warning: array subscript has type 'char' [-Wchar-subscripts] score += ( vx[seq_or_rev[putative_acceptor-1]]==2 )?3:0; ^ suggadj.c: In function 'check_split_codon': suggadj.c:985:29: warning: array subscript has type 'char' [-Wchar-subscripts] val_assuming_1_from_left= vx[seq_or_rev[left_ends+1]] * 16 + ^ suggadj.c:986:4: warning: array subscript has type 'char' [-Wchar-subscripts] vx[seq_or_rev[right_starts-2]]*4+ ^ suggadj.c:987:4: warning: array subscript has type 'char' [-Wchar-subscripts] vx[seq_or_rev[right_starts-1]]; ^ suggadj.c:998:29: warning: array subscript has type 'char' [-Wchar-subscripts] val_assuming_2_from_left= vx[seq_or_rev[left_ends+1]] * 16 + ^ suggadj.c:999:4: warning: array subscript has type 'char' [-Wchar-subscripts] vx[seq_or_rev[left_ends+2]] * 4 + ^ suggadj.c:1000:4: warning: array subscript has type 'char' [-Wchar-subscripts] vx[seq_or_rev[right_starts-1]]; ^ suggadj.c: In function 'overlapping_fixer': suggadj.c:1370:18: warning: array subscript has type 'char' [-Wchar-subscripts] test_val = vx[seq_or_rev[left_exon_ends]]*16 + ^ suggadj.c:1371:8: warning: array subscript has type 'char' [-Wchar-subscripts] vx[seq_or_rev[right_exon_starts-1]]; ^ suggadj.c:1373:20: warning: array subscript has type 'char' [-Wchar-subscripts] test_val += vx[seq_or_rev[right_exon_starts-2]]*4; ^ suggadj.c:1375:20: warning: array subscript has type 'char' [-Wchar-subscripts] test_val += vx[seq_or_rev[left_exon_ends+1]]*4; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF suggest.c suggest.c: In function 'get_frames': suggest.c:458:12: warning: array subscript has type 'char' [-Wchar-subscripts] val = vx[t[0]]*16 + vx[t[1]]*4 + vx[(t==t_max)?'N':t[2]]; ^ suggest.c:458:26: warning: array subscript has type 'char' [-Wchar-subscripts] val = vx[t[0]]*16 + vx[t[1]]*4 + vx[(t==t_max)?'N':t[2]]; ^ suggest.c: At top level: suggest.c:1222:1: warning: 'fprintf_m_stk_entry' defined but not used [-Wunused-function] fprintf_m_stk_entry(FILE *fp, Int4 index, char *msg) ^ suggest.c:1331:13: warning: 'ReportSuggestIntervalsError' defined but not used [-Wunused-function] static void ReportSuggestIntervalsError (SeqRecPtr srp, CharPtr gen_txt) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF suggslp.c suggslp.c: In function 'MakeReverseSequence': suggslp.c:190:11: warning: array subscript has type 'char' [-Wchar-subscripts] *t++ = r[*--s]; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast.c blast.c: In function 'BlastReevaluateWithAmbiguities': blast.c:2954:24: warning: variable 'query_end' set but not used [-Wunused-but-set-variable] Uint1Ptr query_start, query_end, subject_real_start=NULL; ^ blast.c:2949:16: warning: variable 'hspcnt' set but not used [-Wunused-but-set-variable] Int4 context, hspcnt, hspcnt_max, index, index1, status; ^ blast.c: In function 'BlastGetVirtualOIDList': blast.c:3179:9: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (virtual_oidlist = rdfp_chain->oidlist) { ^ blast.c: In function 'BlastGetDbChunk': blast.c:3210:9: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (virtual_oidlist = BlastGetVirtualOIDList(rdfp)) { ^ blast.c: In function 'BlastCreateQueryDNAP': blast.c:4100:11: warning: variable 'strand_option' set but not used [-Wunused-but-set-variable] Uint1 strand_option; ^ blast.c: In function 'BlastWordFinder_contig': blast.c:7094:16: warning: variable 'bits_to_shift' set but not used [-Wunused-but-set-variable] register Int4 bits_to_shift, min_diag_length, min_diag_mask; ^ blast.c: In function 'BlastWordExtend': blast.c:7835:46: warning: variable 'leftscore' set but not used [-Wunused-but-set-variable] BLAST_Score leftsum, rightsum, rightscore, leftscore; ^ blast.c: In function 'BlastNewWordExtend': blast.c:7982:46: warning: variable 'leftscore' set but not used [-Wunused-but-set-variable] BLAST_Score leftsum, rightsum, rightscore, leftscore; ^ blast.c: In function 'BlastNtWordFinder_mh': blast.c:8843:23: warning: variable 'bits_to_shift' set but not used [-Wunused-but-set-variable] register Int4 bits_to_shift, min_diag_length, min_diag_mask; ^ blast.c:8842:103: warning: variable 'compression_factor' set but not used [-Wunused-but-set-variable] Int4 s_pos, q_off, s_off, offset, virtual_wordsize, wordsize, compressed_wordsize, compression_factor; ^ blast.c: In function 'BlastNtWordFinder': blast.c:9076:14: warning: variable 'bits_to_shift' set but not used [-Wunused-but-set-variable] Int4 bits_to_shift, min_diag_length, min_diag_mask; ^ blast.c: In function 'BlastSaveCurrentHitlist': blast.c:10115:11: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if( hitlist_max > 1 ) ^ blast.c:9785:7: warning: variable 'query_length' set but not used [-Wunused-but-set-variable] Int4 query_length; ^ blast.c: In function 'SumHSPEvalue': blast.c:10588:9: warning: variable 'gap_size' set but not used [-Wunused-but-set-variable] Int4 gap_size, num, subject_length; ^ blast.c: In function 'link_hsps': blast.c:11267:10: warning: variable 'frame_change' set but not used [-Wunused-but-set-variable] Boolean frame_change, linked_set, ignore_small_gaps; ^ blast.c: In function 'BLASTMergeHitLists': blast.c:6256:24: warning: 'op_type' may be used uninitialized in this function [-Wmaybe-uninitialized] esp2->op_type = op_type; ^ blast.c:6058:10: note: 'op_type' was declared here Uint1 op_type; ^ In file included from ../include/ncbi.h:59:0, from blast.c:2572: blast.c: In function 'blastMergeFilterLocs': ../include/ncbimem.h:232:23: warning: 'dup_slp' may be used uninitialized in this function [-Wmaybe-uninitialized] #define MemFree Nlm_MemFree ^ blast.c:3933:20: note: 'dup_slp' was declared here SeqLocPtr slp, dup_slp, dup_head; ^ blast.c: In function 'BlastLinkHsps': blast.c:10455:41: warning: 'orig_hitlist' may be used uninitialized in this function [-Wmaybe-uninitialized] search->current_hitlist = orig_hitlist; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blastutl.c blastutl.c: In function 'BlastSeqLocFilterEx': blastutl.c:7554:11: warning: statement with no effect [-Wunused-value] stop_timer("after repeat filtering"); ^ blastutl.c: In function 'BlastPreliminaryGappedScore': blastutl.c:9853:30: warning: variable 'query_length' set but not used [-Wunused-but-set-variable] Int4 index, max_offset = 0, query_length, min_score; ^ blastutl.c: In function 'BlastGetGappedScore': blastutl.c:10282:11: warning: statement with no effect [-Wunused-value] stop_timer("after BlastGappedScoreInternal"); ^ blastutl.c: In function 'BlastNtFindWords': blastutl.c:11445:10: warning: 'end' may be used uninitialized in this function [-Wmaybe-uninitialized] end = MIN(end, len-initial_wordsize); ^ blastutl.c: In function 'BlastFindWords': blastutl.c:11623:8: warning: 'stop' may be used uninitialized in this function [-Wmaybe-uninitialized] stop = MIN(stop, len); ^ blastutl.c:11711:18: warning: 'start_score' may be used uninitialized in this function [-Wmaybe-uninitialized] start_score2 += matrix[(Int4) *(str+index2)][*(words+index2)]; ^ blastutl.c:11704:17: warning: 'first_score' may be used uninitialized in this function [-Wmaybe-uninitialized] start_score = second_score+first_score; ^ blastutl.c:11695:11: warning: 'diff' may be used uninitialized in this function [-Wmaybe-uninitialized] diff2 += diff; ^ blastutl.c: In function 'BlastNewFindWords_Old': blastutl.c:11931:18: warning: 'start_score' may be used uninitialized in this function [-Wmaybe-uninitialized] start_score2 += MtrxScorePosSearch(search->sbp, ^ blastutl.c:11924:17: warning: 'first_score' may be used uninitialized in this function [-Wmaybe-uninitialized] start_score = second_score+first_score; ^ blastutl.c:11915:11: warning: 'diff' may be used uninitialized in this function [-Wmaybe-uninitialized] diff2 += diff; ^ blastutl.c: In function 'BlastNewFindWordsEx': blastutl.c:12124:30: warning: 'start_score' may be used uninitialized in this function [-Wmaybe-uninitialized] start_score2 += posMatrix[offset+index2][*(words+index2)]; ^ blastutl.c:12118:29: warning: 'first_score' may be used uninitialized in this function [-Wmaybe-uninitialized] start_score = second_score + first_score; ^ blastutl.c:12110:23: warning: 'diff' may be used uninitialized in this function [-Wmaybe-uninitialized] diff2 += diff; ^ blastutl.c: In function 'RealBlastGetGappedAlignmentTraceback': blastutl.c:9008:42: warning: 'seqalign_array' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqAlignPtr seqalign, seqalign_var, *seqalign_array; ^ blastutl.c: In function 'SumBlastGetGappedAlignmentEx': blastutl.c:9670:33: warning: 'stop' may be used uninitialized in this function [-Wmaybe-uninitialized] HeapSort(hsp_array+start,(stop-start),sizeof(BLAST_HSPPtr), score_compare_hsps); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blastool.c blastool.c: In function 'OOFBlastHSPGetNumIdentical': blastool.c:6081:9: warning: variable 'context' set but not used [-Wunused-but-set-variable] Int2 context; ^ blastool.c: In function 'BlastCreateVirtualOIDList': blastool.c:2556:24: warning: 'gilist' may be used uninitialized in this function [-Wmaybe-uninitialized] BlastDoubleInt4Ptr gilist, real_gilist = NULL, *real_gilist_ptrs = NULL; ^ blastool.c: In function 'BlastInsertList2Heap': blastool.c:3595:31: warning: 'query_length' may be used uninitialized in this function [-Wmaybe-uninitialized] context = hsp->query_offset / query_length; ^ blastool.c: In function 'BlastFreeHeap': blastool.c:3687:31: warning: 'query_length' may be used uninitialized in this function [-Wmaybe-uninitialized] context = hsp->query_offset / query_length; ^ blastool.c: In function 'BLASTFilterOverlapRegions': blastool.c:4531:24: warning: 'next_tail' may be used uninitialized in this function [-Wmaybe-uninitialized] tail->next = seqalign; ^ blastool.c: In function 'BlastPrintAlignInfo': blastool.c:4800:23: warning: 'sap' may be used uninitialized in this function [-Wmaybe-uninitialized] sap->next = SeqAlignNew(); ^ In file included from ../include/ncbi.h:59:0, from blastool.c:946: blastool.c: In function 'MegaBlastPrintAlignInfo': ../include/ncbimem.h:232:23: warning: 'subject_seq_buffer' may be used uninitialized in this function [-Wmaybe-uninitialized] #define MemFree Nlm_MemFree ^ blastool.c:5046:30: note: 'subject_seq_buffer' was declared here CharPtr query_seq_buffer, subject_seq_buffer; ^ In file included from ../include/ncbi.h:59:0, from blastool.c:946: ../include/ncbimem.h:232:23: warning: 'query_seq_buffer' may be used uninitialized in this function [-Wmaybe-uninitialized] #define MemFree Nlm_MemFree ^ blastool.c:5046:12: note: 'query_seq_buffer' was declared here CharPtr query_seq_buffer, subject_seq_buffer; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blastconcat.c blastconcat.c: In function 'BlastMakeFakeBspConcat': blastconcat.c:648:12: warning: variable 'slp' set but not used [-Wunused-but-set-variable] SeqLocPtr slp = NULL; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF splutil.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF gapxdrop.c gapxdrop.c: In function 'ALIGN_EX': gapxdrop.c:864:10: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (s == 1) ^ gapxdrop.c:867:10: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (s == 2) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF bandalg0.c bandalg0.c: In function 'g_band0_align': bandalg0.c:273:9: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if(leftd >= 1) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF bandalg1.c bandalg1.c: In function 'gband_quadratic': bandalg1.c:54:14: warning: variable 'j' set but not used [-Wunused-but-set-variable] Int4 c, i, j; ^ bandalg1.c: In function 'g_band1_align': bandalg1.c:205:7: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if(leftd >= 1) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF bandalg2.c bandalg2.c: In function 'gb_linear_align': bandalg2.c:208:24: warning: variable 'misma' set but not used [-Wunused-but-set-variable] register Int4 match, misma; ^ bandalg2.c:208:17: warning: variable 'match' set but not used [-Wunused-but-set-variable] register Int4 match, misma; ^ bandalg2.c:207:18: warning: variable 'AA' set but not used [-Wunused-but-set-variable] register Uint1 AA; ^ bandalg2.c:577:12: warning: 'Y' may be used uninitialized in this function [-Wmaybe-uninitialized] _INS(N - Y); ^ bandalg2.c:575:10: warning: 'X' may be used uninitialized in this function [-Wmaybe-uninitialized] _DEL(M - X) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF bandalg3.c bandalg3.c: In function 'gband_linear_qgap': bandalg3.c:54:14: warning: variable 'j' set but not used [-Wunused-but-set-variable] Int4 c, i, j; ^ bandalg3.c:314:16: warning: 'Y' may be used uninitialized in this function [-Wmaybe-uninitialized] else if(Y != rightd) _INS(rightd-Y) ^ bandalg3.c:185:28: note: 'Y' was declared here Int4 ib, best=MININT, X, Y; ^ bandalg3.c:313:21: warning: 'X' may be used uninitialized in this function [-Wmaybe-uninitialized] if(X != M) _DEL(M - X) ^ bandalg3.c:185:25: note: 'X' was declared here Int4 ib, best=MININT, X, Y; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF bandalg4.c bandalg4.c: In function 'g_band4_align_small': bandalg4.c:826:8: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (e == 1) ^ bandalg4.c:829:8: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (e == 2) ^ bandalg4.c:630:8: warning: variable 'band' set but not used [-Wunused-but-set-variable] Int4 band, j; ^ bandalg4.c: In function 'g_band4_align': bandalg4.c:534:22: warning: 'Y' may be used uninitialized in this function [-Wmaybe-uninitialized] if(X != M || Y != N) regA = regB = 1; ^ bandalg4.c:534:12: warning: 'X' may be used uninitialized in this function [-Wmaybe-uninitialized] if(X != M || Y != N) regA = regB = 1; ^ bandalg4.c:569:7: warning: 'k' may be used uninitialized in this function [-Wmaybe-uninitialized] g_band4_align(A, B, r, r + rmid - 1, ^ bandalg4.c:857:37: warning: 'Y' may be used uninitialized in this function [-Wmaybe-uninitialized] else if (Y != rightd) _INS(rightd - Y); ^ bandalg4.c:640:28: note: 'Y' was declared here Int4 ib, best=MININT, X, Y; ^ In file included from bandalg4.c:37:0: ../include/bandalgn.h:140:76: warning: 'X' may be used uninitialized in this function [-Wmaybe-uninitialized] data->last = (data->last < 0) ? (data->sapp[-1] -= (k)) : (*data->sapp++ = -(k)); ^ bandalg4.c:640:25: note: 'X' was declared here Int4 ib, best=MININT, X, Y; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF bandalg5.c bandalg5.c: In function 'gband_q3gap': bandalg5.c:56:14: warning: variable 'j' set but not used [-Wunused-but-set-variable] Int4 c, i, j; ^ bandalg5.c: In function 'g_band5_align': bandalg5.c:292:8: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (e == 1) ^ bandalg5.c:295:8: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (e == 2) ^ bandalg5.c: In function 'gband_q3gap': bandalg5.c:320:6: warning: 'Y' may be used uninitialized in this function [-Wmaybe-uninitialized] if (Y != rightd) _INS(rightd - Y); ^ bandalg5.c:146:28: note: 'Y' was declared here Int4 ib, best=MININT, X, Y; ^ bandalg5.c:319:22: warning: 'X' may be used uninitialized in this function [-Wmaybe-uninitialized] if (X != M) _DEL(M - X); ^ bandalg5.c:146:25: note: 'X' was declared here Int4 ib, best=MININT, X, Y; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF bandalgn.c bandalgn.c: In function 'ExtendSeqAlign': bandalgn.c:1113:22: warning: variable 'ddp' set but not used [-Wunused-but-set-variable] DenseDiagPtr ddp; ^ bandalgn.c: In function 'CC_ExtendSeqAlign': bandalgn.c:1188:22: warning: variable 'ddp' set but not used [-Wunused-but-set-variable] DenseDiagPtr ddp; ^ bandalgn.c: At top level: bandalgn.c:699:14: warning: 'HSblastna_to_ncbi4na' defined but not used [-Wunused-variable] static Uint1 HSblastna_to_ncbi4na[] = { 1, /* A, 0 */ ^ bandalgn.c: In function 'LocalBandToEditBlock': bandalgn.c:463:20: warning: 'edit_block' may be used uninitialized in this function [-Wmaybe-uninitialized] lbsp->edit_block = edit_block; ^ bandalgn.c: In function 'SetLowUpFromBlast': bandalgn.c:1053:7: warning: 'val' may be used uninitialized in this function [-Wmaybe-uninitialized] if (maxsc < val) { ^ bandalgn.c:1060:7: warning: 'alnlen' may be used uninitialized in this function [-Wmaybe-uninitialized] if (maxlen < alnlen) { ^ bandalgn.c:1070:9: warning: 'maxdi_up' may be used uninitialized in this function [-Wmaybe-uninitialized] maxy = MAX(maxy,maxdi_up); ^ bandalgn.c:1069:9: warning: 'mindi_low' may be used uninitialized in this function [-Wmaybe-uninitialized] miny = MIN(miny,mindi_low); ^ bandalgn.c:1062:10: warning: 'maxdi' may be used uninitialized in this function [-Wmaybe-uninitialized] maxy = maxdi + width; ^ bandalgn.c:1063:10: warning: 'mindi' may be used uninitialized in this function [-Wmaybe-uninitialized] miny = mindi - width; ^ bandalgn.c: In function 'GetAlignExtremes': bandalgn.c:1309:7: warning: 'y2' may be used uninitialized in this function [-Wmaybe-uninitialized] *yy2 = y2; ^ bandalgn.c:1308:7: warning: 'y1' may be used uninitialized in this function [-Wmaybe-uninitialized] *yy1 = y1; ^ bandalgn.c:1307:7: warning: 'x2' may be used uninitialized in this function [-Wmaybe-uninitialized] *xx2 = x2; ^ bandalgn.c:1306:7: warning: 'x1' may be used uninitialized in this function [-Wmaybe-uninitialized] *xx1 = x1; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blastkar.c blastkar.c:1053:21: warning: 'blosum62_20_values' defined but not used [-Wunused-variable] static Nlm_FloatHi blosum62_20_values[BLOSUM62_20_VALUES_MAX][8] = { ^ blastkar.c:1121:13: warning: 'blosum62_20_prefs' defined but not used [-Wunused-variable] static Int4 blosum62_20_prefs[BLOSUM62_20_VALUES_MAX] = { ^ blastkar.c:2347:25: warning: 'Dayhoff_prob' defined but not used [-Wunused-variable] static BLAST_LetterProb Dayhoff_prob[] = { ^ blastkar.c:2373:25: warning: 'Altschul_prob' defined but not used [-Wunused-variable] static BLAST_LetterProb Altschul_prob[] = { ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF actutils.c actutils.c: In function 'SlideToHit': actutils.c:346:23: warning: variable 'done' set but not used [-Wunused-but-set-variable] Boolean inIsland, done; ^ actutils.c:346:13: warning: variable 'inIsland' set but not used [-Wunused-but-set-variable] Boolean inIsland, done; ^ actutils.c: In function 'ResolveSpinConflict': actutils.c:1484:35: warning: unused variable 'row2_conflict' [-Wunused-variable] Boolean row1_conflict = FALSE, row2_conflict = FALSE; ^ actutils.c:1484:12: warning: unused variable 'row1_conflict' [-Wunused-variable] Boolean row1_conflict = FALSE, row2_conflict = FALSE; ^ actutils.c: In function 'ACT_FindBestAlnByDotPlot': actutils.c:2002:20: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ actutils.c:2001:20: warning: variable 'start2' set but not used [-Wunused-but-set-variable] Int4 start2; ^ actutils.c:2000:20: warning: variable 'start1' set but not used [-Wunused-but-set-variable] Int4 start1; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from ../include/actutils.h:105, from actutils.c:232: actutils.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ actutils.c:749:13: warning: 'StateTableSearch' defined but not used [-Wunused-function] static void StateTableSearch (TextFsaPtr tbl, CharPtr txt, Int4Ptr state, Int4 pos, ACT_sitelistPtr PNTR asp_prev, ACT_sitelistPtr PNTR asp_head) ^ actutils.c:1375:16: warning: 'am_isa_gap' defined but not used [-Wunused-function] static Boolean am_isa_gap(Int4 start, Int4 prevstop, Uint1 strand) ^ actutils.c:1392:13: warning: 'am_fix_strand' defined but not used [-Wunused-function] static void am_fix_strand(SeqAlignPtr sap, Uint1 strand1, Uint1 strand2) ^ actutils.c:1654:16: warning: 'SpinsConflict' defined but not used [-Wunused-function] static Boolean SpinsConflict (SQN_nPtr spin1, SQN_nPtr spin2, Int4 fuzz, Int4 strand) ^ actutils.c:2927:13: warning: 'MapBioseqToBioseqSpecial' defined but not used [-Wunused-function] static Int4 MapBioseqToBioseqSpecial(SeqAlignPtr sap, Int4 begin, Int4 fin, Int4 pos, Int4 which_end) ^ actutils.c:3132:13: warning: 'DumpAlignments' defined but not used [-Wunused-function] static void DumpAlignments (SeqAlignPtr salp) ^ In file included from ../include/ncbi.h:59:0, from ../include/actutils.h:103, from actutils.c:232: actutils.c: In function 'GetOldBlastAlignmentPiece': ../include/ncbimem.h:232:23: warning: 'program' may be used uninitialized in this function [-Wmaybe-uninitialized] #define MemFree Nlm_MemFree ^ actutils.c:3089:25: note: 'program' was declared here CharPtr program; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF posit.c posit.c: In function 'posDemographics': posit.c:1110:17: warning: variable 'numSeqAligns' set but not used [-Wunused-but-set-variable] Int4 numseq, numSeqAligns; /*number of matching sequences and SeqAligns*/ ^ posit.c: In function 'posFreqsToMatrix': posit.c:1679:45: warning: operation on '*(*(posSearch->posPrivateMatrix + (sizetype)((long unsigned int)length * 8ul)) + (sizetype)((long unsigned int)a * 4ul))' may be undefined [-Wsequence-point] posSearch->posPrivateMatrix[length][a] = posSearch->posPrivateMatrix[length][a] = BLAST_SCORE_MIN; ^ posit.c: In function 'posComputePseudoFreqs': posit.c:1840:16: warning: variable 'lambda' set but not used [-Wunused-but-set-variable] Nlm_FloatHi lambda; /*Karlin-Altschul parameter*/ ^ posit.c: In function 'WposComputation': posit.c:1988:13: warning: variable 'numSeqAligns' set but not used [-Wunused-but-set-variable] Int4 i, numSeqAligns, numseq, qlength; ^ posit.c: In function 'posPrintInformation': posit.c:2319:8: warning: variable 'querySize' set but not used [-Wunused-but-set-variable] Int4 querySize; ^ posit.c: In function 'posFindAlignmentDimensions': posit.c:3064:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(nextLine, ALIGN_LINE_LENGTH,checkFile); ^ posit.c:3070:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(nextLine, ALIGN_LINE_LENGTH,checkFile); ^ posit.c:3079:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(nextLine, ALIGN_LINE_LENGTH,checkFile); ^ posit.c:3086:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(nextLine, ALIGN_LINE_LENGTH,checkFile); ^ posit.c: In function 'posPreprocessAlignment': posit.c:3137:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(nextLine, ALIGN_LINE_LENGTH,checkFile); ^ posit.c:3152:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(nextLine, ALIGN_LINE_LENGTH,checkFile); ^ posit.c: In function 'posReadAlignment': posit.c:3253:2: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(nextline, ALIGN_LINE_LENGTH,checkFile); ^ posit.c: In function 'posFindAlignmentDimensions': posit.c:3090:20: warning: 'testCountSeqs' may be used uninitialized in this function [-Wmaybe-uninitialized] testCountSeqs++; ^ posit.c: In function 'posComputeSequenceWeights': posit.c:1447:36: warning: 'intervalSigma' may be used uninitialized in this function [-Wmaybe-uninitialized] posSearch->posSigma[qplace] = intervalSigma; ^ posit.c:1424:11: warning: 'Sigma' may be used uninitialized in this function [-Wmaybe-uninitialized] if (Sigma > 0) { ^ posit.c: In function 'posReadCheckpoint': posit.c:2873:28: warning: 'j' may be used uninitialized in this function [-Wmaybe-uninitialized] if (i < pssm->numColumns || j < pssm->numRows) { ^ posit.c:2702:11: note: 'j' was declared here Int4 i, j, c; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF lookup.c In file included from ../include/blastdef.h:922:0, from ../include/blast.h:470, from lookup.c:309: lookup.c: In function 'MegaBlastBuildLookupTable': ../include/lookup.h:299:61: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] #define GET_EXTRA_CODE_18_OPT(s) (((*(s+1))<<2) | (*(s+2))) & MASK_EXTRA_OPT ^ lookup.c:1047:35: note: in expansion of macro 'GET_EXTRA_CODE_18_OPT' GET_EXTRA_CODE_18_OPT(seq)) & no_bit0; ^ ../include/lookup.h:299:61: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] #define GET_EXTRA_CODE_18_OPT(s) (((*(s+1))<<2) | (*(s+2))) & MASK_EXTRA_OPT ^ lookup.c:1051:35: note: in expansion of macro 'GET_EXTRA_CODE_18_OPT' GET_EXTRA_CODE_18_OPT(seq)) & no_bit0; ^ ../include/lookup.h:299:61: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] #define GET_EXTRA_CODE_18_OPT(s) (((*(s+1))<<2) | (*(s+2))) & MASK_EXTRA_OPT ^ lookup.c:1078:31: note: in expansion of macro 'GET_EXTRA_CODE_18_OPT' GET_EXTRA_CODE_18_OPT(seq) | bit0; ^ ../include/lookup.h:299:61: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] #define GET_EXTRA_CODE_18_OPT(s) (((*(s+1))<<2) | (*(s+2))) & MASK_EXTRA_OPT ^ lookup.c:1082:31: note: in expansion of macro 'GET_EXTRA_CODE_18_OPT' GET_EXTRA_CODE_18_OPT(seq) | bit0; ^ lookup.c:914:25: warning: variable 'extra_code' set but not used [-Wunused-but-set-variable] register Int4 ecode, extra_code; ^ lookup.c:975:10: warning: 'word_weight' may be used uninitialized in this function [-Wmaybe-uninitialized] if (word_weight >= 12) { ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF readdb.c readdb.c: In function 'readdb_parse_db_names': readdb.c:2498:12: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (**filenames == '"') ^ readdb.c: In function 's_GetBlastDirInfo': readdb.c:2729:32: warning: argument to 'sizeof' in 'memset' call is the same expression as the destination; did you mean to provide an explicit length? [-Wsizeof-pointer-memaccess] memset(blast_dir, 0, sizeof(blast_dir)); ^ readdb.c: In function 'readdb_read_alias_file': readdb.c:3162:29: warning: format '%lld' expects argument of type 'long long int *', but argument 3 has type 'Nlm_Int8 * {aka long int *}' [-Wformat=] sscanf(ptr, "%lld", &(rdbap->len)); ^ readdb.c: In function 'FindBlastDBFileEx': readdb.c:3475:33: warning: unused variable 'envp' [-Wunused-variable] CharPtr buffer, buffer1, envp = NULL; ^ readdb.c: In function 'readdb_new_internalEx': readdb.c:3553:25: warning: unused variable 'envp' [-Wunused-variable] CharPtr charptr, envp = NULL; ^ readdb.c: In function 'readdb_get_link': readdb.c:4747:12: warning: variable 'loaded_new' set but not used [-Wunused-but-set-variable] Boolean loaded_new = FALSE; ^ readdb.c:4746:24: warning: variable 'last_used' set but not used [-Wunused-but-set-variable] ReadDBFILEPtr last, last_used, rdfp_var; ^ readdb.c: In function 'readdb_check_oid': readdb.c:4891:38: warning: comparisons like 'X<=Y<=Z' do not have their mathematical meaning [-Wparentheses] if (rdfp_var->start <= oid <= rdfp_var->stop) ^ readdb.c: In function 'readdb_seqid2fasta': readdb.c:5231:22: warning: unused variable 'dummy_gi' [-Wunused-variable] Int4 dummy_gi = 0; /* Not used, should have been handled above. */ ^ readdb.c:5175:13: warning: unused variable 'chptr' [-Wunused-variable] CharPtr chptr = NULL; ^ readdb.c: In function 'FDBuildOldStyleDefline': readdb.c:6361:33: warning: argument to 'sizeof' in 'memset' call is the same expression as the destination; did you mean to provide an explicit length? [-Wsizeof-pointer-memaccess] MemSet(defline, '\0', sizeof(defline)); ^ readdb.c: In function 'FDBLoadMembershipsTable': readdb.c:8260:21: warning: variable 'fn_name' set but not used [-Wunused-but-set-variable] const char* fn_name = NULL; ^ readdb.c: In function 'SeqIdE2Index': readdb.c:8572:13: warning: unused variable 'tmp' [-Wunused-variable] CharPtr tmp, ptr=NULL; ^ readdb.c:8571:11: warning: unused variable 'tmptype' [-Wunused-variable] Uint1 tmptype; ^ readdb.c: In function 'SeqIdSetE2Index': readdb.c:8876:14: warning: variable 'oldanp' set but not used [-Wunused-but-set-variable] SeqIdPtr oldanp; ^ readdb.c: In function 'Fastacmd_Search_ex': readdb.c:12072:22: warning: variable 'guess_gi' set but not used [-Wunused-but-set-variable] Int4 guess_gi = -1; ^ readdb.c: In function 'DumpOneSequence': readdb.c:12409:14: warning: unused variable 'numeric_id' [-Wunused-variable] Boolean numeric_id = GetAccessionVersionFromSeqId(accn, &gi, &id, TRUE); ^ In file included from readdb.c:2055:0: readdb.c: At top level: ../include/ncbisami.h:183:14: warning: 'PowersOfTwo' defined but not used [-Wunused-variable] static Uint4 PowersOfTwo[] = {01,02,04,010,020,040,0100,0200,0400,01000, ^ ../include/ncbisami.h:191:14: warning: 'OneBit' defined but not used [-Wunused-variable] static Uint1 OneBit[] = {0x80 , 0x40, 0x20, 0x10, 0x8, 0x4, 0x2, 0x1}; ^ In file included from ../include/sqnutils.h:51:0, from readdb.c:2062: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ readdb.c:12821:1: warning: 'readdb_preload_index' defined but not used [-Wunused-function] readdb_preload_index (ReadDBFILEPtr rdfp, Int4 first_db_seq, ^ readdb.c: In function 'readdb_get_taxonomy_names': readdb.c:5674:28: warning: 'ufp_last' may be used uninitialized in this function [-Wmaybe-uninitialized] ufp_last->next = ufp; ^ In file included from ../include/ncbi.h:59:0, from ../include/readdb.h:757, from readdb.c:2052: readdb.c: In function 'readdb_get_descriptor': ../include/ncbimem.h:192:21: warning: 'new_defline_length' may be used uninitialized in this function [-Wmaybe-uninitialized] #define Nlm_MemCpy memcpy ^ readdb.c:6617:26: note: 'new_defline_length' was declared here Int4 defline_length, new_defline_length; ^ readdb.c: In function 'GetAccList': readdb.c:11813:29: warning: 'AccListLast' may be used uninitialized in this function [-Wmaybe-uninitialized] AccListLast->next = AccListTmp; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbisam.c ncbisam.c: In function 'ISAMMakeStringIndex': ncbisam.c:842:22: warning: unused variable 'file_pos' [-Wunused-variable] Int4 file_pos = ftell(data->db_fd); ^ ncbisam.c: In function 'ISAMInitSearch': ncbisam.c:1399:10: warning: variable 'reserved2' set but not used [-Wunused-but-set-variable] Int4 reserved2; ^ In file included from ../include/ncbi.h:59:0, from ncbisam.c:198: ncbisam.c: In function 'ISAMMakeIndex': ../include/ncbimem.h:232:23: warning: 'KeySamples' may be used uninitialized in this function [-Wmaybe-uninitialized] #define MemFree Nlm_MemFree ^ ncbisam.c:983:23: note: 'KeySamples' was declared here Uint4Ptr KeyInfo, KeySamples; ^ In file included from ../include/ncbi.h:59:0, from ncbisam.c:198: ../include/ncbimem.h:232:23: warning: 'KeyDataSamples' may be used uninitialized in this function [-Wmaybe-uninitialized] #define MemFree Nlm_MemFree ^ ncbisam.c:984:34: note: 'KeyDataSamples' was declared here NISAMKeyDataPtr KeyDataInfo, KeyDataSamples; ^ ncbisam.c:984:21: warning: 'KeyDataInfo' may be used uninitialized in this function [-Wmaybe-uninitialized] NISAMKeyDataPtr KeyDataInfo, KeyDataSamples; ^ ncbisam.c:983:14: warning: 'KeyInfo' may be used uninitialized in this function [-Wmaybe-uninitialized] Uint4Ptr KeyInfo, KeySamples; ^ In file included from ../include/ncbi.h:59:0, from ncbisam.c:198: ncbisam.c: In function 'ISAMCreateDatabase': ../include/ncbimem.h:232:23: warning: 'prevterm' may be used uninitialized in this function [-Wmaybe-uninitialized] #define MemFree Nlm_MemFree ^ ncbisam.c:1181:13: note: 'prevterm' was declared here CharPtr prevterm; ^ In file included from ../include/ncbimsg.h:78:0, from ../include/ncbi.h:60, from ncbisam.c:198: ../include/ncbierr.h:246:23: warning: 'field_in' may be used uninitialized in this function [-Wmaybe-uninitialized] #define ErrLogPrintf Nlm_ErrLogPrintf ^ ncbisam.c:1177:37: note: 'field_in' was declared here unsigned long uid_in, uid_last, field_in; ^ ncbisam.c: In function 'NISAMSearch': ncbisam.c:1814:32: warning: 'KeyDataPageStart' may be used uninitialized in this function [-Wmaybe-uninitialized] KeyDataPageStart = MemFree(KeyDataPageStart); ^ ncbisam.c:1812:28: warning: 'KeyPageStart' may be used uninitialized in this function [-Wmaybe-uninitialized] KeyPageStart = MemFree(KeyPageStart); ^ ncbisam.c:1750:36: warning: 'KeyPage' may be used uninitialized in this function [-Wmaybe-uninitialized] Key = SwapUint4(KeyPage[current]); ^ ncbisam.c:1593:24: warning: 'SampleNum' may be used uninitialized in this function [-Wmaybe-uninitialized] *Start = SampleNum * data->PageSize; ^ ncbisam.c:1618:27: note: 'SampleNum' was declared here Int4 Start = 0, Stop, SampleNum; ^ ncbisam.c: In function 'SISAMSearch': ncbisam.c:2373:8: warning: 'SampleNum' may be used uninitialized in this function [-Wmaybe-uninitialized] if ( (SampleNum < 0) || (SampleNum >= data->NumSamples)) { ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbisort.c ncbisort.c: In function 'SORTFracCompare': ncbisort.c:692:12: warning: type defaults to 'int' in declaration of 'tmpa' [-Wimplicit-int] register tmpa = UCHAR(*a), tmpb = UCHAR(*b); ^ ncbisort.c:692:30: warning: type defaults to 'int' in declaration of 'tmpb' [-Wimplicit-int] register tmpa = UCHAR(*a), tmpb = UCHAR(*b); ^ In file included from ncbisort.c:83:0: ncbisort.c: At top level: ../include/ncbisrti.h:213:13: warning: 'inthandler' declared 'static' but never defined [-Wunused-function] static void inthandler(int i); ^ ncbisort.c: In function 'SORTMergeFPS': ncbisort.c:1110:10: warning: 'savealloc' may be used uninitialized in this function [-Wmaybe-uninitialized] if (savealloc < lines[ord[0]].lines[cur[ord[0]]].length + 1) { ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF salign.c salign.c: In function 'BandAlignTwoSeqLocsFunc': salign.c:173:13: warning: variable 'is_prot' set but not used [-Wunused-but-set-variable] Boolean is_prot; ^ salign.c: In function 'SortBlastHits': salign.c:391:15: warning: variable 'totalvalmax' set but not used [-Wunused-but-set-variable] totalvalmax = INT4_MAX, ^ salign.c: In function 'link_solution': salign.c:1188:15: warning: unused variable 'first' [-Wunused-variable] Boolean first = TRUE; ^ salign.c: In function 'SortBlastHits': salign.c:454:6: warning: 'salpdup' may be used uninitialized in this function [-Wmaybe-uninitialized] if (salpdup!=NULL) ^ salign.c: In function 'TranslateSeqLoc.constprop': salign.c:660:10: warning: 'slpp' may be used uninitialized in this function [-Wmaybe-uninitialized] return slpp; ^ salign.c: In function 'BlastTwoSeqLocs': salign.c:591:18: warning: 'strand2' may be used uninitialized in this function [-Wmaybe-uninitialized] sit->strand = strand2; ^ salign.c:589:18: warning: 'strand1' may be used uninitialized in this function [-Wmaybe-uninitialized] sit->strand = strand1; ^ salign.c: In function 'BlastBandAlignTwoSeqLocs': salign.c:1433:17: warning: 'tail' may be used uninitialized in this function [-Wmaybe-uninitialized] tail->next = salptmp; ^ salign.c:1408:15: note: 'tail' was declared here tail, ^ salign.c:1348:38: warning: 'stop' may be used uninitialized in this function [-Wmaybe-uninitialized] intronlg = (float)(abs(stop - start1) - alignlens)/(float)(j-1); ^ salign.c:1301:30: note: 'stop' was declared here Int4 start, start1, stop; ^ salign.c:1348:38: warning: 'start1' may be used uninitialized in this function [-Wmaybe-uninitialized] intronlg = (float)(abs(stop - start1) - alignlens)/(float)(j-1); ^ salign.c:1301:22: note: 'start1' was declared here Int4 start, start1, stop; ^ salign.c:1270:38: warning: 'stop' may be used uninitialized in this function [-Wmaybe-uninitialized] intronlg = (float)(abs(stop - start1) - alignlen)/(float)(j-1); ^ salign.c:1229:30: note: 'stop' was declared here Int4 start, start1, stop; ^ salign.c:1270:38: warning: 'start1' may be used uninitialized in this function [-Wmaybe-uninitialized] intronlg = (float)(abs(stop - start1) - alignlen)/(float)(j-1); ^ salign.c:1229:22: note: 'start1' was declared here Int4 start, start1, stop; ^ salign.c: In function 'SeqLocListToSeqAlign': salign.c:1670:22: warning: 'slptmp1' may be used uninitialized in this function [-Wmaybe-uninitialized] salpblast = BlastTwoSeqLocs (master_slp, slp, is_prot, msp); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF salptool.c salptool.c: In function 'MergeTwoDspBySIM4': salptool.c:285:10: warning: variable 'has_overlap' set but not used [-Wunused-but-set-variable] Boolean has_overlap; ^ salptool.c:281:7: warning: variable 'gap' set but not used [-Wunused-but-set-variable] Int4 gap=0,gap_1, gap_2; ^ In file included from ../include/sqnutils.h:51:0, from salptool.c:12: salptool.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from salptool.c:14: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ salptool.c:46:13: warning: 'SeqAnnotWrite' defined but not used [-Wunused-function] static void SeqAnnotWrite(SeqAlignPtr align) ^ salptool.c:838:13: warning: 'SeqLocTrimPolyATail' defined but not used [-Wunused-function] static void SeqLocTrimPolyATail(SeqLocPtr loc_2, BioseqPtr bsp_2) { ^ salptool.c:1267:16: warning: 'need_recompute' defined but not used [-Wunused-function] static Boolean need_recompute(SeqAlignPtr align, Int4 m_len, Int4 s_len) ^ salptool.c:1453:13: warning: 'getlengthforid' defined but not used [-Wunused-function] static Int4 getlengthforid (SeqIdPtr sip) ^ salptool.c:1468:13: warning: 'showtextalign_fromalign' defined but not used [-Wunused-function] static void showtextalign_fromalign (SeqAlignPtr salp, CharPtr path, FILE *fp) ^ salptool.c:1518:24: warning: 'OrderBestHits' defined but not used [-Wunused-function] static int LIBCALLBACK OrderBestHits(Pointer ptr1, Pointer ptr2) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF urkutil.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF urkpcc.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF urkptpf.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF urkepi.c urkepi.c: In function 'PredictEpiI0': urkepi.c:214:21: warning: array subscript has type 'char' [-Wchar-subscripts] epip->epiarray[*seq] += 1; ^ urkepi.c:239:58: warning: array subscript has type 'char' [-Wchar-subscripts] episcore = DownArrayScore (episcore, epip->epiarray[*seq]); ^ urkepi.c:240:21: warning: array subscript has type 'char' [-Wchar-subscripts] epip->epiarray[*seq] += 1; ^ urkepi.c:241:56: warning: array subscript has type 'char' [-Wchar-subscripts] episcore = UpArrayScore (episcore, epip->epiarray[*seq]); ^ urkepi.c:263:58: warning: array subscript has type 'char' [-Wchar-subscripts] episcore = DownArrayScore (episcore, epip->epiarray[*(seq-window)]); ^ urkepi.c:264:21: warning: array subscript has type 'char' [-Wchar-subscripts] epip->epiarray[*(seq-window)] -= 1; ^ urkepi.c:265:56: warning: array subscript has type 'char' [-Wchar-subscripts] episcore = UpArrayScore (episcore, epip->epiarray[*(seq-window)]); ^ urkepi.c: In function 'OptimizeEpiComp': urkepi.c:605:14: warning: array subscript has type 'char' [-Wchar-subscripts] bin[seq[i]] += 1; ^ urkepi.c:621:14: warning: array subscript has type 'char' [-Wchar-subscripts] bin[seq[i]] += 1; ^ urkepi.c:651:15: warning: array subscript has type 'char' [-Wchar-subscripts] if (fbin[seq[i]] > expect) ^ urkepi.c:657:15: warning: array subscript has type 'char' [-Wchar-subscripts] if (fbin[seq[i]] > expect) ^ urkepi.c: In function 'OptimizeEpiHP': urkepi.c:782:27: warning: array subscript has type 'char' [-Wchar-subscripts] epip->epiarray[seq[j]] += 1; ^ urkepi.c:797:27: warning: array subscript has type 'char' [-Wchar-subscripts] epip->epiarray[seq[j]] += 1; ^ urkepi.c:837:25: warning: array subscript has type 'char' [-Wchar-subscripts] epip->epiarray[seq[n]] -= 1; ^ urkepi.c: In function 'OptimizeEpiProbFunc': urkepi.c:982:27: warning: array subscript has type 'char' [-Wchar-subscripts] epip->epiarray[seq[n]] += 1; ^ urkepi.c:994:27: warning: array subscript has type 'char' [-Wchar-subscripts] epip->epiarray[seq[n]] += 1; ^ urkepi.c: In function 'FilterEpi': urkepi.c:1053:21: warning: 'right' may be used uninitialized in this function [-Wmaybe-uninitialized] cfap->right = right; ^ urkepi.c:936:56: note: 'right' was declared here Int4 i, n, j, k, start, stop, loop, fact, left, right; ^ urkepi.c:1052:20: warning: 'left' may be used uninitialized in this function [-Wmaybe-uninitialized] cfap->left = left; ^ urkepi.c:936:50: note: 'left' was declared here Int4 i, n, j, k, start, stop, loop, fact, left, right; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF urkfltr.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF urkdust.c urkdust.c: In function 'DustMe_h': urkdust.c:196:42: warning: suggest parentheses around '&&' within '||' [-Wparentheses] (dcvp->curlevel <= newlevel) && dcvp->curend == loop+1) ^ urkdust.c: In function 'DustForGraph': urkdust.c:776:17: warning: variable 'drphead' set but not used [-Wunused-but-set-variable] DustRegionPtr drphead; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF urksigu.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF seg.c seg.c: In function 'getprob': seg.c:935:15: warning: 'ans2' may be used uninitialized in this function [-Wmaybe-uninitialized] ans = ans1 + ans2 - totseq; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF urkbias.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF urkcnsrt.c urkcnsrt.c:1203:13: warning: 'ScanFrame' defined but not used [-Wunused-function] static void ScanFrame (BioseqPtr bsp, SeqLocPtr slp, Int4 frame, ^ urkcnsrt.c: In function 'Scan3Frames': urkcnsrt.c:1312:34: warning: 'length' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 i, n, start, stop, length, chunk; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF urktree.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF pseed3.c pseed3.c: In function 'SeedPruneHitsFromSeedReturn': pseed3.c:230:17: warning: variable 'curSegs' set but not used [-Wunused-but-set-variable] DenseSegPtr curSegs, testSegs; /*Used to extract ids from curSeqAlign, testSeqAlign*/ ^ pseed3.c: In function 'seedEngineCore': pseed3.c:507:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (pattern = get_a_pat(patfp, &pname, occurArray, hitArray, &numPatOccur, &effectiveOccurrences, program_flag, unfilter_query, query, search->sbp->query_length, is_dna, patternSearch, seedSearch, showDiagnostics, &(search->error_return), info_vnp, hitArraySz)) { ^ pseed3.c: In function 'output_hits': pseed3.c:1202:10: warning: variable 'posBaseIndex' set but not used [-Wunused-but-set-variable] Int4 posBaseIndex; /*loop index for copying pos results arrays*/ ^ pseed3.c: In function 'init_order': pseed3.c:1483:38: warning: array subscript has type 'char' [-Wchar-subscripts] seedSearch->order[seedSearch->pchars[i]] = i; ^ pseed3.c:1483:19: warning: array subscript has type 'char' [-Wchar-subscripts] seedSearch->order[seedSearch->pchars[i]] = i; ^ pseed3.c:1487:33: warning: array subscript has type 'char' [-Wchar-subscripts] seedSearch->charMultiple[i] = 0; ^ pseed3.c:1489:30: warning: array subscript has type 'char' [-Wchar-subscripts] if (seedSearch->standardProb[i] > seedepsilon) { ^ pseed3.c:1490:22: warning: array subscript has type 'char' [-Wchar-subscripts] matrixRow = matrix[i]; ^ pseed3.c:1493:34: warning: array subscript has type 'char' [-Wchar-subscripts] if (seedSearch->standardProb[j] > seedepsilon) ^ pseed3.c:1494:42: warning: array subscript has type 'char' [-Wchar-subscripts] rowSum += seedSearch->standardProb[j]*exp(-(seedSearch->paramLambda)*matrixRow[j]); ^ pseed3.c:1494:86: warning: array subscript has type 'char' [-Wchar-subscripts] rowSum += seedSearch->standardProb[j]*exp(-(seedSearch->paramLambda)*matrixRow[j]); ^ pseed3.c:1496:28: warning: array subscript has type 'char' [-Wchar-subscripts] seedSearch->charMultiple[i] = rowSum; ^ pseed3.c: In function 'seedParallelFill': pseed3.c:712:68: warning: iteration 100u invokes undefined behavior [-Waggressive-loop-optimizations] returnData->seedSearch->name_space[i] = seedSearch->name_space[i]; ^ pseed3.c:711:4: note: containing loop for( i = 0; i <= BUF_SIZE; i++) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF pattern1.c pattern1.c: In function 'init_pattern': pattern1.c:286:52: warning: array subscript has type 'char' [-Wchar-subscripts] positionProbability = seedSearch->standardProb[seedSearch->order[c]]; ^ pattern1.c:303:53: warning: array subscript has type 'char' [-Wchar-subscripts] positionProbability += seedSearch->standardProb[seedSearch->order[c]]; ^ pattern1.c:317:53: warning: array subscript has type 'char' [-Wchar-subscripts] positionProbability -= seedSearch->standardProb[seedSearch->order[c]]; ^ pattern1.c: In function 'find_hitsS_DNA': pattern1.c:534:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (tmp = (prefixMatchedBitPattern & patternSearch->DNAwhichPrefixPosPtr[seq[i]])) { ^ pattern1.c:547:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (tmp = (prefixMatchedBitPattern & patternSearch->DNAwhichPrefixPosPtr[seq[i]])) { ^ pattern1.c: At top level: pattern1.c:744:8: warning: return type defaults to 'int' [-Wimplicit-int] static and(Int4 *result, Int4 *a, Int4 *b, patternSearchItems *patternSearch) ^ pattern1.c: In function 'and': pattern1.c:750:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (result[i] = (a[i] & b[i])) ^ pattern1.c: In function 'align': pattern1.c:1102:7: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (leftd >= 1) ^ pattern1.c: In function 'get_patL': pattern1.c:1348:42: warning: 'j' may be used uninitialized in this function [-Wmaybe-uninitialized] *end = wordIndex*BITS_PACKED_PER_WORD+j; ^ pattern1.c: In function 'align': pattern1.c:1158:8: warning: 'CDrow' may be used uninitialized in this function [-Wmaybe-uninitialized] score = (CDrow-1)->CC; ^ pattern1.c: In function 'get_patLL': pattern1.c:1393:5: warning: 'pos' may be used uninitialized in this function [-Wmaybe-uninitialized] for (j = 0; j < pos; j+= wordIndex) { ^ pattern1.c: In function 'init_pattern': pattern1.c:192:11: warning: 'tj' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 tj; /*temporary copy of j*/ ^ pattern1.c: In function 'align_of_pattern': pattern1.c:1562:19: warning: 'data' may be used uninitialized in this function [-Wmaybe-uninitialized] local_score += ALIGN_B(querySeq-1, dbSeq-1, queryMatchOffset, dbMatchOffset, ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF impatool.c impatool.c: In function 'IMPALAPrintHelp': impatool.c:301:20: warning: 'ret_buffer' may be used uninitialized in this function [-Wmaybe-uninitialized] ret_buffer = MemFree(ret_buffer); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF posit2.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF mbalign.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF vecscrn.c vecscrn.c: In function 'VSPrintOverviewFromSeqLocs': vecscrn.c:1085:8: warning: 'tmp' may be used uninitialized in this function [-Wmaybe-uninitialized] tmp = tmp->next; ^ vecscrn.c: In function 'VSPrintListFromSeqLocs': vecscrn.c:1191:8: warning: 'tmp' may be used uninitialized in this function [-Wmaybe-uninitialized] tmp = tmp->next; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF mblast.c mblast.c: In function 'BioseqMegaBlastEngineCore': mblast.c:961:12: warning: statement with no effect [-Wunused-value] stop_timer("BioseqBlastEngineCore: before do_the_blast_run()"); ^ mblast.c:987:12: warning: statement with no effect [-Wunused-value] stop_timer("MegaBlastEngineCore: after do_the_blast_run()"); ^ mblast.c:942:14: warning: variable 'seqalign' set but not used [-Wunused-but-set-variable] SeqAlignPtr seqalign, PNTR seqalignp; ^ mblast.c: In function 'MegaBlastSetUpSearchInternalByLoc': mblast.c:1167:16: warning: variable 'avglen' set but not used [-Wunused-but-set-variable] Nlm_FloatHi avglen; ^ mblast.c: In function 'MegaBlastPackAlignmentsByQuery': mblast.c:1829:14: warning: variable 'slp' set but not used [-Wunused-but-set-variable] SeqLocPtr slp; ^ mblast.c: In function 'MegaBlastWordFinder_disc_1b': mblast.c:2372:32: warning: variable 'mask' set but not used [-Wunused-but-set-variable] register Int4 s_off, ecode, mask, q_off, extra_code; ^ mblast.c: In function 'MegaBlastPackAlignmentsByQuery': mblast.c:1864:19: warning: 'sap' may be used uninitialized in this function [-Wmaybe-uninitialized] sap->next = seqalign_var; ^ mblast.c: In function 'MegaBlastWordFinder_disc': mblast.c:2250:53: warning: 'ecode2' may be used uninitialized in this function [-Wmaybe-uninitialized] (((PV_ARRAY_TYPE) 1)<<(ecode2&PV_ARRAY_MASK))) == 0))) { ^ mblast.c:2151:47: warning: 'ecode1' may be used uninitialized in this function [-Wmaybe-uninitialized] for (q_off = lookup->mb_lt->hashtable[ecode1]; q_off>0; ^ mblast.c: In function 'MegaBlastWordFinder': mblast.c:2711:51: warning: 'ecode2' may be used uninitialized in this function [-Wmaybe-uninitialized] for (q_off = lookup->mb_lt->hashtable2[ecode2]; q_off>0; ^ mblast.c:2373:17: note: 'ecode2' was declared here Int4 ecode1, ecode2; ^ mblast.c:2475:52: warning: 'ecode1' may be used uninitialized in this function [-Wmaybe-uninitialized] (((PV_ARRAY_TYPE) 1)<<(ecode1&PV_ARRAY_MASK))) == 0) ^ mblast.c:2373:9: note: 'ecode1' was declared here Int4 ecode1, ecode2; ^ mblast.c: In function 'MegaBlastGapInfoToSeqAlign': mblast.c:3504:16: warning: 'seqalign' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqAlignPtr seqalign, seqalign_var, sap; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF rpsutil.c rpsutil.c: In function 'RPSBlastSearchLight': rpsutil.c:1838:10: warning: variable 'status' set but not used [-Wunused-but-set-variable] Int2 status; ^ rpsutil.c: In function 'RPSBgetCddHits': rpsutil.c:2210:21: warning: variable 'found_score' set but not used [-Wunused-but-set-variable] Boolean found_score = FALSE; ^ In file included from ../include/sqnutils.h:51:0, from rpsutil.c:282: rpsutil.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ rpsutil.c: In function 'getAuxInformation': rpsutil.c:398:5: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile,"%s",underlyingMatrixName); ^ rpsutil.c:404:5: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile,"%d\n", gap_open); ^ rpsutil.c:405:5: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile,"%d\n", gap_extend); ^ rpsutil.c:406:5: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%le", &Kungapped); ^ rpsutil.c:407:5: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%le", &Hungapped); ^ rpsutil.c:408:5: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%d", &maxLength); ^ rpsutil.c:409:5: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%d", &dbLength); ^ rpsutil.c:410:5: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%lf", &privateScalingFactor); ^ rpsutil.c:415:6: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%d", &maxLength); ^ rpsutil.c:416:6: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%le", &(rpsinfo->karlinK[index])); ^ rpsutil.c: In function 'RPSAlignTraceBack': rpsutil.c:1444:32: warning: 'posMatrix' may be used uninitialized in this function [-Wmaybe-uninitialized] search->sbp->posMatrix = posMatrix; ^ rpsutil.c:1433:22: warning: 'rev_subject_length' may be used uninitialized in this function [-Wmaybe-uninitialized] seqalign = BlastGetGapAlgnTbck (search, 0, TRUE, FALSE, ^ rpsutil.c: In function 'RPSCalcEValue': rpsutil.c:1269:30: warning: 'posMatrix' may be used uninitialized in this function [-Wmaybe-uninitialized] search->sbp->posMatrix = posMatrix; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF kappa.c kappa.c: In function 'Kappa_SequenceGetProteinRange': kappa.c:1399:7: warning: unused variable 'i' [-Wunused-variable] int i; ^ kappa.c: At top level: kappa.c:2203:5: warning: initialization from incompatible pointer type [-Wincompatible-pointer-types] Kappa_SequenceGetRange, ^ kappa.c:2203:5: note: (near initialization for 'redo_align_callbacks.get_range') gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF xmlblast.c xmlblast.c: In function 'PSIXmlInit': xmlblast.c:1239:13: warning: variable 'retval' set but not used [-Wunused-but-set-variable] Boolean retval = FALSE; ^ xmlblast.c: In function 'BXMLGetSeqLineForStdSeg': xmlblast.c:373:28: warning: 'genetic_code2' may be used uninitialized in this function [-Wmaybe-uninitialized] CharPtr genetic_code1, genetic_code2; ^ xmlblast.c: In function 'BXMLSeqAlignToHits': xmlblast.c:867:36: warning: 'hspp' may be used uninitialized in this function [-Wmaybe-uninitialized] if((hspp->next = BXMLGetHspFromSeqAlign(sap2, is_aa, chain, ^ xmlblast.c: In function 'SeqAlignToHits': xmlblast.c:1646:24: warning: 'hspp' may be used uninitialized in this function [-Wmaybe-uninitialized] hspp->next = GetHspFromSeqAlign(sap2, ungapped, &hsp_count); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF bxmlobj.c bxmlobj.c: In function 'BlastOutputAsnRead': bxmlobj.c:96:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ bxmlobj.c: In function 'ParametersAsnRead': bxmlobj.c:361:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ bxmlobj.c:360:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ bxmlobj.c: In function 'IterationAsnRead': bxmlobj.c:613:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ bxmlobj.c: In function 'StatisticsAsnRead': bxmlobj.c:829:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ bxmlobj.c:828:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ bxmlobj.c: In function 'HitAsnRead': bxmlobj.c:1039:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ bxmlobj.c: In function 'HspAsnRead': bxmlobj.c:1244:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ bxmlobj.c:1243:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF dotseq.c dotseq.c:96:36: warning: missing braces around initializer [-Wmissing-braces] static Int4 DOTblosum62[24][24] = { ^ dotseq.c:96:36: note: (near initialization for 'DOTblosum62') dotseq.c: In function 'DOT_BuildPLookup': dotseq.c:887:31: warning: variable 'found_ambig' set but not used [-Wunused-but-set-variable] Boolean EXACTMATCH, found_ambig, saved_index = FALSE; ^ dotseq.c:885:19: warning: unused variable 'threshold' [-Wunused-variable] Int4 threshold=13; /* one-hit heuristics T must be at least 13*/ ^ dotseq.c:883:19: warning: unused variable 'index' [-Wunused-variable] Int4 index = 0; ^ dotseq.c: In function 'DOT_ComputeHits': dotseq.c:1043:47: warning: variable 'q_end' set but not used [-Wunused-but-set-variable] Uint1Ptr s, subject0, s_end, q_end; ^ dotseq.c:1041:19: warning: unused variable 'saved_index' [-Wunused-variable] Boolean saved_index = FALSE; ^ dotseq.c:1039:19: warning: unused variable 'threshold' [-Wunused-variable] Int4 threshold=13; ^ dotseq.c: In function 'DOT_SPI_FindBestAlnByDotPlot': dotseq.c:2016:20: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ dotseq.c:2015:20: warning: variable 'start2' set but not used [-Wunused-but-set-variable] Int4 start2; ^ dotseq.c:2014:20: warning: variable 'start1' set but not used [-Wunused-but-set-variable] Int4 start1; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from dotseq.c:87: dotseq.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ dotseq.c: In function 'DOT_BuildHitList': dotseq.c:1286:9: warning: 'index' may be used uninitialized in this function [-Wmaybe-uninitialized] while (ifrom == spot->to == 0) ^ spidey.c: In function 'SPI_FillInLastmRNAHoles': spidey.c:6295:21: warning: variable 'internal' set but not used [-Wunused-but-set-variable] Boolean internal; ^ spidey.c: In function 'SPI_FindBestAlnByDotPlot': spidey.c:6441:20: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ spidey.c:6440:20: warning: variable 'start2' set but not used [-Wunused-but-set-variable] Int4 start2; ^ spidey.c:6439:20: warning: variable 'start1' set but not used [-Wunused-but-set-variable] Int4 start1; ^ spidey.c: In function 'SPI_ConnectAlnPieces': spidey.c:7810:30: warning: variable 'tmparray' set but not used [-Wunused-but-set-variable] SPI_FragPtr PNTR tmparray; ^ spidey.c:7796:25: warning: variable 'sfpprev' set but not used [-Wunused-but-set-variable] SPI_FragPtr sfpprev; ^ spidey.c: In function 'SPI_AdjustSplicesInPieces': spidey.c:8444:23: warning: variable 'minus' set but not used [-Wunused-but-set-variable] Boolean minus; ^ spidey.c: In function 'SPI_CheckMrnaOrder': spidey.c:10292:35: warning: suggest parentheses around comparison in operand of '==' [-Wparentheses] if ((ival->strand == Seq_strand_plus == ival2->strand ^ spidey.c:10296:38: warning: suggest parentheses around comparison in operand of '==' [-Wparentheses] || (ival->strand == Seq_strand_minus == ival2->strand ^ spidey.c:10309:35: warning: suggest parentheses around comparison in operand of '==' [-Wparentheses] if ((ival->strand == Seq_strand_plus == ival2->strand ^ spidey.c:10311:38: warning: suggest parentheses around comparison in operand of '==' [-Wparentheses] || (ival->strand == Seq_strand_plus == ival2->strand ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from ../include/spidey.h:103, from spidey.c:259: spidey.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF motif.c motif.c: In function 'MOT_FindPolyA': motif.c:86:18: warning: variable 'buf' set but not used [-Wunused-but-set-variable] Uint1 buf[MOT_WINSIZE]; ^ motif.c: In function 'MOT_FindKozak': motif.c:216:18: warning: variable 'buf' set but not used [-Wunused-but-set-variable] Uint1 buf[MOT_WINSIZE]; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from ../include/actutils.h:105, from ../include/motif.h:48, from motif.c:47: motif.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blfmtutl.c blfmtutl.c: In function 'BlastPrintTabularResults': blfmtutl.c:1113:13: warning: 'alignments_count' may be used uninitialized in this function [-Wmaybe-uninitialized] if (--alignments_count < 0) ^ blfmtutl.c:1331:19: warning: 's_end' may be used uninitialized in this function [-Wmaybe-uninitialized] s_end += s_shift; ^ blfmtutl.c:1330:21: warning: 's_start' may be used uninitialized in this function [-Wmaybe-uninitialized] s_start += s_shift; ^ blfmtutl.c:1329:19: warning: 'q_end' may be used uninitialized in this function [-Wmaybe-uninitialized] q_end += q_shift; ^ blfmtutl.c:1328:21: warning: 'q_start' may be used uninitialized in this function [-Wmaybe-uninitialized] q_start += q_shift; ^ blfmtutl.c:1077:24: warning: 'query_id' may be used uninitialized in this function [-Wmaybe-uninitialized] while (slp && SeqIdComp(query_id, SeqLocId(slp)) != SIC_YES) ^ blfmtutl.c: In function 'BlastSetUserErrorString': blfmtutl.c:1392:26: warning: 'title' may be used uninitialized in this function [-Wmaybe-uninitialized] CharPtr buf_start, ptr, title; ^ rm -f libncbitool.a ar cru libncbitool.a csim.o db_slist.o dust.o blast_dust.o falign.o g_any.o sim2.o sim3.o sim4.o simutil.o slist.o sec.o tfuns.o toasn3.o toporg.o pobutil.o stsutil.o suggadj.o suggest.o suggslp.o blast.o blastutl.o blastool.o blastconcat.o splutil.o gapxdrop.o bandalg0.o bandalg1.o bandalg2.o bandalg3.o bandalg4.o bandalg5.o bandalgn.o blastkar.o actutils.o posit.o lookup.o readdb.o ncbisam.o ncbisort.o salign.o salptool.o urkutil.o urkpcc.o urkptpf.o urkepi.o urkfltr.o urkdust.o urksigu.o seg.o urkbias.o urkcnsrt.o urktree.o pseed3.o pattern1.o impatool.o posit2.o mbalign.o vecscrn.o mblast.o rpsutil.o kappa.o xmlblast.o bxmlobj.o dotseq.o spidey.o motif.o blfmtutl.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libncbitool.a ../lib ranlib ../lib/libncbitool.a gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF matrix_frequency_data.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF compo_mode_condition.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF composition_adjustment.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF nlm_linear_algebra.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF optimize_target_freq.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF compo_heap.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF smith_waterman.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF redo_alignment.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF unified_pvalues.c rm -f libblastcompadj.a ar cru libblastcompadj.a matrix_frequency_data.o compo_mode_condition.o composition_adjustment.o nlm_linear_algebra.o optimize_target_freq.o compo_heap.o smith_waterman.o redo_alignment.o unified_pvalues.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libblastcompadj.a ../lib ranlib ../lib/libblastcompadj.a gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF gdfontg.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF gdfontmb.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF gdfontt.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF pictogif.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF gdfontl.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF gdfonts.c gcc -DWIN_GIF -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbidrwg.c ncbidrwg.c: In function 'Nlm_ClearRgn': ncbidrwg.c:6081:16: warning: variable 'ntool' set but not used [-Wunused-but-set-variable] Nlm_RgnTool ntool; ^ ncbidrwg.c: In function 'Nlm_DiffRgn': ncbidrwg.c:6273:16: warning: variable 'ntool3' set but not used [-Wunused-but-set-variable] Nlm_RgnTool ntool3; ^ ncbidrwg.c:6272:16: warning: variable 'ntool2' set but not used [-Wunused-but-set-variable] Nlm_RgnTool ntool2; ^ ncbidrwg.c:6271:16: warning: variable 'ntool1' set but not used [-Wunused-but-set-variable] Nlm_RgnTool ntool1; ^ ncbidrwg.c: In function 'Nlm_XorRgn': ncbidrwg.c:6324:16: warning: variable 'ntool3' set but not used [-Wunused-but-set-variable] Nlm_RgnTool ntool3; ^ ncbidrwg.c:6323:16: warning: variable 'ntool2' set but not used [-Wunused-but-set-variable] Nlm_RgnTool ntool2; ^ ncbidrwg.c:6322:16: warning: variable 'ntool1' set but not used [-Wunused-but-set-variable] Nlm_RgnTool ntool1; ^ ncbidrwg.c: In function 'Nlm_EqualRgn': ncbidrwg.c:6353:16: warning: variable 'ntool2' set but not used [-Wunused-but-set-variable] Nlm_RgnTool ntool2; ^ ncbidrwg.c:6352:16: warning: variable 'ntool1' set but not used [-Wunused-but-set-variable] Nlm_RgnTool ntool1; ^ ncbidrwg.c: In function 'Nlm_EmptyRgn': ncbidrwg.c:6381:17: warning: variable 'ntool' set but not used [-Wunused-but-set-variable] Nlm_RgnTool ntool; ^ ncbidrwg.c: In function 'Nlm_CopyPixmap': ncbidrwg.c:7040:25: warning: variable 'height' set but not used [-Wunused-but-set-variable] Nlm_Int2 height; ^ ncbidrwg.c:7039:25: warning: variable 'width' set but not used [-Wunused-but-set-variable] Nlm_Int2 width; ^ ncbidrwg.c: In function 'Nlm_GetColorRGB': ncbidrwg.c:1373:10: warning: 'i' may be used uninitialized in this function [-Wmaybe-uninitialized] return (Nlm_Uint4)i; ^ rm -f libvibgif.a ar cru libvibgif.a gdfontg.o gdfontmb.o gdfontt.o pictogif.o gdfontl.o gdfonts.o ncbidrwg.o drawing.o mapping.o picture.o ncbimain.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libvibgif.a ../lib ranlib ../lib/libvibgif.a gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF algorend.c algorend.c: In function 'ColorFromSS': algorend.c:893:10: warning: unused variable 'rsult' [-Wunused-variable] Int2 rsult = 0; ^ algorend.c: In function 'Cn3D_RenWire': algorend.c:1400:10: warning: unused variable 'pmldThis' [-Wunused-variable] PMLD pmldThis = NULL; ^ algorend.c:1399:11: warning: unused variable 'pdnmlThis' [-Wunused-variable] PDNML pdnmlThis = NULL; ^ algorend.c:1398:10: warning: unused variable 'pmsdThis' [-Wunused-variable] PMSD pmsdThis = NULL; ^ algorend.c: In function 'Cn3D_ColSeqCons': algorend.c:1795:24: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] pars->ConsColAlg = (Nlm_Int2) GetObjectExtra(i); ^ algorend.c: In function 'RenderObject': algorend.c:3135:25: warning: variable 'fZTo' set but not used [-Wunused-but-set-variable] FloatLo fXTo, fYTo, fZTo; ^ algorend.c:3135:19: warning: variable 'fYTo' set but not used [-Wunused-but-set-variable] FloatLo fXTo, fYTo, fZTo; ^ algorend.c:3135:13: warning: variable 'fXTo' set but not used [-Wunused-but-set-variable] FloatLo fXTo, fYTo, fZTo; ^ algorend.c:3134:29: warning: variable 'fZFrom' set but not used [-Wunused-but-set-variable] FloatLo fXFrom, fYFrom, fZFrom; ^ algorend.c:3134:21: warning: variable 'fYFrom' set but not used [-Wunused-but-set-variable] FloatLo fXFrom, fYFrom, fZFrom; ^ algorend.c:3134:13: warning: variable 'fXFrom' set but not used [-Wunused-but-set-variable] FloatLo fXFrom, fYFrom, fZFrom; ^ algorend.c: In function 'RenderLabel': algorend.c:3393:10: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ algorend.c: In function 'RenderBond': algorend.c:3554:10: warning: variable 'pmsdParent' set but not used [-Wunused-but-set-variable] PMSD pmsdParent = NULL; ^ algorend.c: In function 'RenderHalfWormBond': algorend.c:3673:10: warning: variable 'pmsdParent' set but not used [-Wunused-but-set-variable] PMSD pmsdParent; ^ algorend.c:3671:24: warning: variable 'pmad2' set but not used [-Wunused-but-set-variable] PMAD pmad0, pmad1, pmad2, pmad3; ^ algorend.c: In function 'RenderAnAtom': algorend.c:3758:10: warning: unused variable 'pmadFrom' [-Wunused-variable] PMAD pmadFrom = NULL; ^ algorend.c:3757:10: warning: variable 'pmsdParent' set but not used [-Wunused-but-set-variable] PMSD pmsdParent = NULL; ^ algorend.c: In function 'RenderAllAtom': algorend.c:3829:9: warning: variable 'iMenu' set but not used [-Wunused-but-set-variable] int iMenu; ^ algorend.c:3815:11: warning: unused variable 'pvnmbThis' [-Wunused-variable] PVNMB pvnmbThis = NULL; ^ algorend.c:3811:11: warning: unused variable 'pvnmaThis' [-Wunused-variable] PVNMA pvnmaThis = NULL; ^ algorend.c: In function 'RenderGraph': algorend.c:4498:10: warning: unused variable 'bReservedThis' [-Wunused-variable] Byte bReservedThis = 0; ^ algorend.c: In function 'LabelChainTermini': algorend.c:4772:14: warning: unused variable 'pmbdThis' [-Wunused-variable] PMBD pmbdThis = NULL; ^ algorend.c:4771:15: warning: unused variable 'pvnmbThis' [-Wunused-variable] PVNMB pvnmbThis = NULL; ^ algorend.c: In function 'RenderMolecule': algorend.c:4871:11: warning: variable 'pdnmmThis' set but not used [-Wunused-but-set-variable] PDNMM pdnmmThis = NULL; ^ algorend.c: In function 'fnARLoop': algorend.c:5556:10: warning: variable 'iTest' set but not used [-Wunused-but-set-variable] Int2 iTest; ^ algorend.c: In function 'AlgorithmicRendering': algorend.c:5684:10: warning: unused variable 'i' [-Wunused-variable] Int2 i = 0; ^ algorend.c:5683:10: warning: unused variable 'Cn3d_LayerNow_sofar' [-Wunused-variable] Int2 Cn3d_LayerNow_sofar = 0; ^ algorend.c: In function 'Do3DOrigin': algorend.c:5756:10: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ algorend.c:5751:13: warning: variable 'fTo' set but not used [-Wunused-but-set-variable] FloatLo fTo[3]; ^ algorend.c:5750:13: warning: variable 'fFrom' set but not used [-Wunused-but-set-variable] FloatLo fFrom[3]; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from algorend.c:598: algorend.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ algorend.c:717:16: warning: 'Cn3d_CopyToNode' defined but not used [-Wunused-variable] static Boolean Cn3d_CopyToNode = FALSE; ^ algorend.c:2265:13: warning: 'LabelGroupOnOffProc' defined but not used [-Wunused-function] static void LabelGroupOnOffProc(GrouP g) ^ In file included from ../include/viewer3d.h:129:0, from algorend.c:584: algorend.c: In function 'RenderLabel': ../include/pictur3d.h:235:27: warning: 'iX' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AddText3D Nlm_AddText3D ^ algorend.c:3389:10: note: 'iX' was declared here Int4 iX, iY, iZ; ^ In file included from ../include/viewer3d.h:129:0, from algorend.c:584: ../include/pictur3d.h:235:27: warning: 'iY' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AddText3D Nlm_AddText3D ^ algorend.c:3389:14: note: 'iY' was declared here Int4 iX, iY, iZ; ^ In file included from ../include/viewer3d.h:129:0, from algorend.c:584: ../include/pictur3d.h:235:27: warning: 'iZ' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AddText3D Nlm_AddText3D ^ algorend.c:3389:18: note: 'iZ' was declared here Int4 iX, iY, iZ; ^ algorend.c:3444:41: warning: 'fZCen' may be used uninitialized in this function [-Wmaybe-uninitialized] fZt = (fZCen - fZFrom) + (fZCen - fZTo); ^ algorend.c:3443:41: warning: 'fYCen' may be used uninitialized in this function [-Wmaybe-uninitialized] fYt = (fYCen - fYFrom) + (fYCen - fYTo); ^ algorend.c:3442:41: warning: 'fXCen' may be used uninitialized in this function [-Wmaybe-uninitialized] fXt = (fXCen - fXFrom) + (fXCen - fXTo); ^ algorend.c:3444:41: warning: 'fZTo' may be used uninitialized in this function [-Wmaybe-uninitialized] fZt = (fZCen - fZFrom) + (fZCen - fZTo); ^ algorend.c:3443:41: warning: 'fYTo' may be used uninitialized in this function [-Wmaybe-uninitialized] fYt = (fYCen - fYFrom) + (fYCen - fYTo); ^ algorend.c:3442:41: warning: 'fXTo' may be used uninitialized in this function [-Wmaybe-uninitialized] fXt = (fXCen - fXFrom) + (fXCen - fXTo); ^ algorend.c:3444:22: warning: 'fZFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] fZt = (fZCen - fZFrom) + (fZCen - fZTo); ^ algorend.c:3443:22: warning: 'fYFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] fYt = (fYCen - fYFrom) + (fYCen - fYTo); ^ algorend.c:3442:22: warning: 'fXFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] fXt = (fXCen - fXFrom) + (fXCen - fXTo); ^ algorend.c: In function 'MasterChangeRenderProc.isra.1': algorend.c:1316:33: warning: 'k' may be used uninitialized in this function [-Wmaybe-uninitialized] pars->SolventRender = k; ^ In file included from ../include/viewer3d.h:129:0, from algorend.c:584: algorend.c: In function 'RenderObject': ../include/pictur3d.h:234:27: warning: 'iXFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AddCylinder3D Nlm_AddCylinder3D ^ algorend.c:3136:10: note: 'iXFrom' was declared here Int4 iXFrom, iYFrom, iZFrom; ^ In file included from ../include/viewer3d.h:129:0, from algorend.c:584: ../include/pictur3d.h:234:27: warning: 'iYFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AddCylinder3D Nlm_AddCylinder3D ^ algorend.c:3136:18: note: 'iYFrom' was declared here Int4 iXFrom, iYFrom, iZFrom; ^ In file included from ../include/viewer3d.h:129:0, from algorend.c:584: ../include/pictur3d.h:234:27: warning: 'iZFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AddCylinder3D Nlm_AddCylinder3D ^ algorend.c:3136:26: note: 'iZFrom' was declared here Int4 iXFrom, iYFrom, iZFrom; ^ In file included from ../include/viewer3d.h:129:0, from algorend.c:584: ../include/pictur3d.h:234:27: warning: 'iXTo' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AddCylinder3D Nlm_AddCylinder3D ^ algorend.c:3137:10: note: 'iXTo' was declared here Int4 iXTo, iYTo, iZTo; ^ In file included from ../include/viewer3d.h:129:0, from algorend.c:584: ../include/pictur3d.h:234:27: warning: 'iYTo' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AddCylinder3D Nlm_AddCylinder3D ^ algorend.c:3137:16: note: 'iYTo' was declared here Int4 iXTo, iYTo, iZTo; ^ In file included from ../include/viewer3d.h:129:0, from algorend.c:584: ../include/pictur3d.h:234:27: warning: 'iZTo' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AddCylinder3D Nlm_AddCylinder3D ^ algorend.c:3137:22: note: 'iZTo' was declared here Int4 iXTo, iYTo, iZTo; ^ In file included from ../include/viewer3d.h:129:0, from algorend.c:584: algorend.c: In function 'Do3DOrigin': ../include/pictur3d.h:232:27: warning: 'iXFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AddLine3D Nlm_AddLine3D ^ algorend.c:5752:10: note: 'iXFrom' was declared here Int4 iXFrom, iYFrom, iZFrom; ^ In file included from ../include/viewer3d.h:129:0, from algorend.c:584: ../include/pictur3d.h:232:27: warning: 'iYFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AddLine3D Nlm_AddLine3D ^ algorend.c:5752:18: note: 'iYFrom' was declared here Int4 iXFrom, iYFrom, iZFrom; ^ In file included from ../include/viewer3d.h:129:0, from algorend.c:584: ../include/pictur3d.h:232:27: warning: 'iZFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AddLine3D Nlm_AddLine3D ^ algorend.c:5752:26: note: 'iZFrom' was declared here Int4 iXFrom, iYFrom, iZFrom; ^ In file included from ../include/viewer3d.h:129:0, from algorend.c:584: ../include/pictur3d.h:232:27: warning: 'iXTo' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AddLine3D Nlm_AddLine3D ^ algorend.c:5753:10: note: 'iXTo' was declared here Int4 iXTo, iYTo, iZTo; ^ In file included from ../include/viewer3d.h:129:0, from algorend.c:584: ../include/pictur3d.h:232:27: warning: 'iYTo' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AddLine3D Nlm_AddLine3D ^ algorend.c:5753:16: note: 'iYTo' was declared here Int4 iXTo, iYTo, iZTo; ^ In file included from ../include/viewer3d.h:129:0, from algorend.c:584: ../include/pictur3d.h:232:27: warning: 'iZTo' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AddLine3D Nlm_AddLine3D ^ algorend.c:5753:22: note: 'iZTo' was declared here Int4 iXTo, iYTo, iZTo; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF cn3dmsel.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF cn3dopen.c cn3dopen.c: In function 'Cn3D_OpenStart': cn3dopen.c:722:10: warning: unused variable 'iBioseq' [-Wunused-variable] Int4 iBioseq = 0; ^ cn3dopen.c: In function 'MMDB_ReadMime': cn3dopen.c:1000:19: warning: unused variable 'pdnmlThis' [-Wunused-variable] PDNML pdnmlThis = NULL; ^ cn3dopen.c:989:25: warning: unused variable 'pbsasThis' [-Wunused-variable] BiostrucAlignSeqPtr pbsasThis = NULL; ^ cn3dopen.c: In function 'Cn3D_NetOpenBiostruc': cn3dopen.c:1310:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from cn3dopen.c:412: cn3dopen.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/sqnutils.h:51:0, from cn3dopen.c:413: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ cn3dopen.c:430:15: warning: 'Cn3D_wOpen' defined but not used [-Wunused-variable] static WindoW Cn3D_wOpen; ^ cn3dopen.c:431:15: warning: 'Cn3D_bOpenBrowse' defined but not used [-Wunused-variable] static ButtoN Cn3D_bOpenBrowse; ^ cn3dopen.c: In function 'MMDB_ReadMime': cn3dopen.c:529:9: warning: 'salp' may be used uninitialized in this function [-Wmaybe-uninitialized] SAM_ReplaceGI(salp); ^ cn3dopen.c:513:15: note: 'salp' was declared here SeqAlign *salp; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF cn3dsave.c cn3dsave.c: In function 'Cn3D_ExportAsnNow': cn3dsave.c:375:11: warning: unused variable 'pdnmlThis' [-Wunused-variable] PDNML pdnmlThis = NULL; ^ cn3dsave.c:372:24: warning: variable 'pbsfThis' set but not used [-Wunused-but-set-variable] BiostrucFeaturePtr pbsfThis; ^ cn3dsave.c:366:10: warning: unused variable 'pmsdSlave' [-Wunused-variable] PMSD pmsdSlave = NULL, pmsdMaster = NULL; ^ cn3dsave.c:362:27: warning: variable 'FirstSlave' set but not used [-Wunused-but-set-variable] Boolean iCn3d = TRUE, FirstSlave = FALSE; ^ cn3dsave.c:357:13: warning: unused variable 'pcSave' [-Wunused-variable] CharPtr pcSave = NULL; ^ cn3dsave.c: In function 'Cn3D_SaveBiostruc': cn3dsave.c:524:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ cn3dsave.c:523:11: warning: variable 'gMS' set but not used [-Wunused-but-set-variable] GrouP gMS; ^ cn3dsave.c:518:10: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ cn3dsave.c: In function 'Cn3D_ExportDictNow': cn3dsave.c:598:13: warning: unused variable 'pcSave' [-Wunused-variable] CharPtr pcSave = NULL; ^ cn3dsave.c:596:10: warning: unused variable 'iCount' [-Wunused-variable] Int4 iCount = 0; ^ cn3dsave.c: In function 'Cn3D_SaveDictionary': cn3dsave.c:629:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ cn3dsave.c:624:10: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ cn3dsave.c: In function 'Cn3D_SaveSub': cn3dsave.c:688:10: warning: variable 'i' set but not used [-Wunused-but-set-variable] IteM i; ^ In file included from cn3dsave.c:165:0: cn3dsave.c: At top level: ../include/asnmime.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnmime.h12"; ^ ../include/asnmime.h:117:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^ ../include/asnmime.h:118:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnmime.h:119:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from cn3dsave.c:171: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ cn3dsave.c:184:15: warning: 'Cn3D_bFeatOn' defined but not used [-Wunused-variable] static ButtoN Cn3D_bFeatOn; ^ cn3dsave.c: In function 'Cn3D_GetSubSet.isra.1': cn3dsave.c:289:24: warning: 'isep' may be used uninitialized in this function [-Wmaybe-uninitialized] isep->next = SeqEntryNew(); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF cn3dxprt.c cn3dxprt.c: In function 'Cn3D_ExportPDB': cn3dxprt.c:209:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ cn3dxprt.c:208:11: warning: variable 'gMS' set but not used [-Wunused-but-set-variable] GrouP gMS; ^ cn3dxprt.c:203:10: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ cn3dxprt.c: In function 'Cn3D_ExportKin': cn3dxprt.c:381:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ cn3dxprt.c:380:11: warning: variable 'gMS' set but not used [-Wunused-but-set-variable] GrouP gMS; ^ cn3dxprt.c:375:10: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ cn3dxprt.c: In function 'Cn3D_ExportSub': cn3dxprt.c:513:10: warning: variable 'i' set but not used [-Wunused-but-set-variable] IteM i; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF cn3dwin.c cn3dwin.c:733:1: warning: missing braces around initializer [-Wmissing-braces] { ^ cn3dwin.c:733:1: note: (near initialization for 'Cn3d_PaletteRGB') cn3dwin.c: In function 'Viewer3DGroups': cn3dwin.c:1728:10: warning: unused variable 'groups' [-Wunused-variable] Int2 groups = 0; ^ cn3dwin.c: In function 'Viewer3DViewer': cn3dwin.c:1784:10: warning: unused variable 'groups' [-Wunused-variable] Int2 groups = 0; ^ cn3dwin.c: In function 'Cn3D_AlignEdit': cn3dwin.c:1936:10: warning: unused variable 'iCount' [-Wunused-variable] Int2 iCount = 0; ^ cn3dwin.c:1935:10: warning: variable 'pmmdThis' set but not used [-Wunused-but-set-variable] PMMD pmmdThis = NULL; ^ cn3dwin.c:1933:17: warning: unused variable 'salp' [-Wunused-variable] SeqAlignPtr salp = NULL; ^ cn3dwin.c:1931:29: warning: variable 'pmsdSlave' set but not used [-Wunused-but-set-variable] PMSD pmsdMaster = NULL, pmsdSlave = NULL; ^ cn3dwin.c:1930:11: warning: unused variable 'pdnmsSlave' [-Wunused-variable] PDNMS pdnmsSlave = NULL; ^ cn3dwin.c: In function 'Cn3D_Menus': cn3dwin.c:2131:11: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] (Nlm_VoidPtr) i, NULL); ^ In file included from ../include/sqnutils.h:51:0, from ../include/udviewer.h:219, from cn3dwin.c:665: cn3dwin.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/samutil.h:234:0, from ../include/udviewer.h:228, from cn3dwin.c:665: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ cn3dwin.c:682:13: warning: 'Cn3D_iLabelCtrl' defined but not used [-Wunused-variable] static IteM Cn3D_iLabelCtrl = NULL; ^ cn3dwin.c:688:13: warning: 'Cn3D_iModelCtrl' defined but not used [-Wunused-variable] static IteM Cn3D_iModelCtrl = NULL; ^ cn3dwin.c:922:13: warning: 'Cn3D_ZoomCB' defined but not used [-Wunused-function] static void Cn3D_ZoomCB(IteM i) ^ cn3dwin.c:929:13: warning: 'Cn3D_MoveCB' defined but not used [-Wunused-function] static void Cn3D_MoveCB(IteM i) ^ cn3dwin.c:1428:13: warning: 'HLatom_MA' defined but not used [-Wunused-function] static void HLatom_MA(MAPtr ma, ^ cn3dwin.c:1626:13: warning: 'HLmolecule_MA' defined but not used [-Wunused-function] static void HLmolecule_MA(MAPtr ma, ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF cn3dentr.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF cn3dmsg.c cn3dmsg.c: In function 'SeqStrucMediaMsgFunc': cn3dmsg.c:593:19: warning: variable 'omudp' set but not used [-Wunused-but-set-variable] OMUserDataPtr omudp = NULL; ^ In file included from ../include/sqnutils.h:51:0, from cn3dmsg.c:267: cn3dmsg.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/cn3dopen.h:111:0, from cn3dmsg.c:271: ../include/objmime.h:145:29: warning: 'Data_dataFree' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataFree PROTO ((Data_dataPtr )); ^ ../include/objmime.h:146:29: warning: 'Data_dataAsnRead' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:147:24: warning: 'Data_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Data_dataAsnWrite PROTO (( Data_dataPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:285:47: warning: 'SeqAlignData_seq_align_dataFree' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataFree PROTO ((SeqAlignData_seq_align_dataPtr )); ^ ../include/objmime.h:286:47: warning: 'SeqAlignData_seq_align_dataAsnRead' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:287:24: warning: 'SeqAlignData_seq_align_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL SeqAlignData_seq_align_dataAsnWrite PROTO (( SeqAlignData_seq_align_dataPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF cn3dmatn.c cn3dmatn.c: In function 'FindMM': cn3dmatn.c:217:29: warning: unused variable 'pdnmsThisSlave' [-Wunused-variable] PDNMS pdnmsThis = NULL, pdnmsThisSlave = NULL; ^ cn3dmatn.c: In function 'DoMediaHL': cn3dmatn.c:249:10: warning: variable 'MainAtom' set but not used [-Wunused-but-set-variable] Byte MainAtom = 0; ^ cn3dmatn.c:247:10: warning: unused variable 'paldThis' [-Wunused-variable] PALD paldThis = NULL; ^ cn3dmatn.c:246:11: warning: unused variable 'pvnalThis' [-Wunused-variable] PVNAL pvnalThis = NULL; ^ cn3dmatn.c:245:10: warning: unused variable 'pmadThis' [-Wunused-variable] PMAD pmadThis = NULL; ^ cn3dmatn.c:244:11: warning: unused variable 'pvnmaThis' [-Wunused-variable] PVNMA pvnmaThis = NULL; ^ cn3dmatn.c: In function 'Cn3DCheckAndDoHighlight': cn3dmatn.c:372:10: warning: unused variable 'pmsdThis' [-Wunused-variable] PMSD pmsdThis = NULL; ^ cn3dmatn.c:371:10: warning: unused variable 'pmmdThis' [-Wunused-variable] PMMD pmmdThis = NULL; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF cn3dmodl.c cn3dmodl.c: In function 'Cn3DCheckNoSingleHighlight': cn3dmodl.c:353:11: warning: unused variable 'pdnmgThis' [-Wunused-variable] PDNMG pdnmgThis = NULL; ^ cn3dmodl.c: In function 'Cn3DCheckHighlighted': cn3dmodl.c:364:29: warning: unused variable 'pmsdSlave' [-Wunused-variable] PMSD pmsdMaster = NULL, pmsdSlave = NULL; ^ cn3dmodl.c: In function 'Cn3D_ReSetVisibleStatus': cn3dmodl.c:508:10: warning: unused variable 'pmgd' [-Wunused-variable] PMGD pmgd = NULL; ^ cn3dmodl.c:507:11: warning: unused variable 'pdnmg' [-Wunused-variable] PDNMG pdnmg = NULL; ^ cn3dmodl.c:506:10: warning: unused variable 'pmmdThis' [-Wunused-variable] PMMD pmmdThis = NULL; ^ cn3dmodl.c: In function 'fnAlignList': cn3dmodl.c:996:25: warning: unused variable 'itemtype' [-Wunused-variable] Uint2 entityID = 0, itemtype = 0; ^ cn3dmodl.c:996:11: warning: unused variable 'entityID' [-Wunused-variable] Uint2 entityID = 0, itemtype = 0; ^ cn3dmodl.c:995:14: warning: unused variable 'sipThis' [-Wunused-variable] SeqIdPtr sipThis = NULL; ^ cn3dmodl.c:993:10: warning: unused variable 'pmmdThis' [-Wunused-variable] PMMD pmmdThis = NULL; ^ cn3dmodl.c: In function 'SynchronizeModVisibleStatus': cn3dmodl.c:1065:11: warning: unused variable 'pdnmg' [-Wunused-variable] PDNMG pdnmg = NULL; ^ cn3dmodl.c:1064:10: warning: unused variable 'pmmdThis' [-Wunused-variable] PMMD pmmdThis = NULL; ^ cn3dmodl.c: In function 'SetResidueVisibilities': cn3dmodl.c:1201:11: warning: unused variable 'pvnmoThis' [-Wunused-variable] PVNMO pvnmoThis = NULL; ^ In file included from ../include/cn3dopen.h:111:0, from cn3dmodl.c:319: cn3dmodl.c: At top level: ../include/objmime.h:145:29: warning: 'Data_dataFree' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataFree PROTO ((Data_dataPtr )); ^ ../include/objmime.h:146:29: warning: 'Data_dataAsnRead' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:147:24: warning: 'Data_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Data_dataAsnWrite PROTO (( Data_dataPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:285:47: warning: 'SeqAlignData_seq_align_dataFree' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataFree PROTO ((SeqAlignData_seq_align_dataPtr )); ^ ../include/objmime.h:286:47: warning: 'SeqAlignData_seq_align_dataAsnRead' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:287:24: warning: 'SeqAlignData_seq_align_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL SeqAlignData_seq_align_dataAsnWrite PROTO (( SeqAlignData_seq_align_dataPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from cn3dmodl.c:323: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF cn3dshim.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF cn3dmesh.c cn3dmesh.c: In function 'Cn3D_MeshAcceptProc': cn3dmesh.c:103:10: warning: unused variable 'pmsdThis' [-Wunused-variable] PMSD pmsdThis = NULL; ^ cn3dmesh.c: In function 'Cn3D_OpenMesh': cn3dmesh.c:151:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ cn3dmesh.c: In function 'Cn3D_MeshAcceptProc': cn3dmesh.c:111:5: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(hFile, "%d %d %d", &(Mesh.NumVert), &(Mesh.NumEdge), ^ cn3dmesh.c:119:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(hFile, "%lf %lf %lf %lf %lf %lf %f %f %f %d %d %d", ^ cn3dmesh.c:129:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(hFile, "%d %d %d %d %d", &Mesh.Edges[i].Vertex[0], ^ cn3dmesh.c:133:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(hFile, "%d %d %d %d %d %d %d %d %d", &Mesh.Tri[i].Edge[0], ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF cn3dstyl.c cn3dstyl.c: In function 'GetThisSpecialAlgorRenderSet': cn3dstyl.c:459:27: warning: unused variable 'sfipThis' [-Wunused-variable] SpecialFeatureInfoPtr sfipThis = NULL; ^ cn3dstyl.c: In function 'GetSpecialAlgorRenderSet': cn3dstyl.c:641:10: warning: unused variable 'parsThis' [-Wunused-variable] PARS parsThis = NULL; ^ cn3dstyl.c:640:23: warning: unused variable 'sfpThis' [-Wunused-variable] SpecialFeaturePtr sfpThis = NULL; ^ cn3dstyl.c: In function 'ChangeSpecialLabelsProc': cn3dstyl.c:866:44: warning: unused variable 'PDBOn' [-Wunused-variable] Boolean NumOn = FALSE, NameOn = FALSE, PDBOn = FALSE, WhiteOn = ^ cn3dstyl.c: In function 'lFeatureEditedAction': cn3dstyl.c:1136:10: warning: unused variable 'val' [-Wunused-variable] Int4 val = 0; ^ cn3dstyl.c: In function 'bFeatureMoveAction': cn3dstyl.c:1153:23: warning: unused variable 'sfpThis' [-Wunused-variable] SpecialFeaturePtr sfpThis = NULL; ^ cn3dstyl.c: In function 'bFeatureEditAction': cn3dstyl.c:1176:23: warning: unused variable 'sfpThis' [-Wunused-variable] SpecialFeaturePtr sfpThis = NULL; ^ cn3dstyl.c: In function 'ModelControls': cn3dstyl.c:1364:19: warning: variable 'ppt13' set but not used [-Wunused-but-set-variable] PrompT ppt12, ppt13, ppt14; ^ cn3dstyl.c:1362:36: warning: variable 'ppt5' set but not used [-Wunused-but-set-variable] PrompT ppt1, ppt2, ppt3, ppt4, ppt5, ppt6, ppt7, ppt8, ppt9, ppt10, ^ cn3dstyl.c:1362:12: warning: variable 'ppt1' set but not used [-Wunused-but-set-variable] PrompT ppt1, ppt2, ppt3, ppt4, ppt5, ppt6, ppt7, ppt8, ppt9, ppt10, ^ cn3dstyl.c: In function 'GetBiostrucFeatureLocationForHihglightedResidues': cn3dstyl.c:1728:30: warning: variable 'SingleInterval' set but not used [-Wunused-but-set-variable] Boolean Started = FALSE, SingleInterval, UserDefinedFeatureFound = ^ cn3dstyl.c:1725:20: warning: variable 'iMolCurrent' set but not used [-Wunused-but-set-variable] Int2 iMol = 0, iMolCurrent = 0; ^ cn3dstyl.c: In function 'MakeBiostrucFeatureSetForUserDefinedFeature': cn3dstyl.c:2122:60: warning: unused variable 'bsfsp_tail' [-Wunused-variable] BiostrucFeatureSetPtr bsfsp = NULL, bsfsp_head = NULL, bsfsp_tail = ^ cn3dstyl.c:2122:41: warning: unused variable 'bsfsp_head' [-Wunused-variable] BiostrucFeatureSetPtr bsfsp = NULL, bsfsp_head = NULL, bsfsp_tail = ^ cn3dstyl.c: In function 'GetUserDefinedFeature': cn3dstyl.c:2196:27: warning: unused variable 'sfipThis' [-Wunused-variable] SpecialFeatureInfoPtr sfipThis = NULL; ^ cn3dstyl.c: In function 'Cn3DIndexUserDefinedFeature': cn3dstyl.c:2551:23: warning: variable 'sfpThis' set but not used [-Wunused-but-set-variable] SpecialFeaturePtr sfpThis = NULL; ^ cn3dstyl.c:2549:10: warning: unused variable 'pmmdThis' [-Wunused-variable] PMMD pmmdThis = NULL; ^ cn3dstyl.c:2548:11: warning: unused variable 'pdnmmHead' [-Wunused-variable] PDNMM pdnmmHead = NULL; ^ cn3dstyl.c:2547:10: warning: unused variable 'pmsdThis' [-Wunused-variable] PMSD pmsdThis = NULL; ^ In file included from ../include/cn3dopen.h:111:0, from cn3dstyl.c:89: cn3dstyl.c: At top level: ../include/objmime.h:145:29: warning: 'Data_dataFree' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataFree PROTO ((Data_dataPtr )); ^ ../include/objmime.h:146:29: warning: 'Data_dataAsnRead' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:147:24: warning: 'Data_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Data_dataAsnWrite PROTO (( Data_dataPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:285:47: warning: 'SeqAlignData_seq_align_dataFree' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataFree PROTO ((SeqAlignData_seq_align_dataPtr )); ^ ../include/objmime.h:286:47: warning: 'SeqAlignData_seq_align_dataAsnRead' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:287:24: warning: 'SeqAlignData_seq_align_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL SeqAlignData_seq_align_dataAsnWrite PROTO (( SeqAlignData_seq_align_dataPtr , AsnIoPtr, AsnTypePtr)); ^ cn3dstyl.c:144:14: warning: 'Cn3D_pupModelStyleItem' defined but not used [-Wunused-variable] static PopuP Cn3D_pupModelStyleItem; ^ cn3dstyl.c:149:15: warning: 'bResetFeatureTitle' defined but not used [-Wunused-variable] static ButtoN bResetFeatureTitle; ^ cn3dstyl.c:456:30: warning: 'GetThisSpecialAlgorRenderSet' defined but not used [-Wunused-function] static SpecialFeatureInfoPtr GetThisSpecialAlgorRenderSet(Int2 id) ^ cn3dstyl.c: In function 'CopyLocation': cn3dstyl.c:496:27: warning: 'rsipNewHead' may be used uninitialized in this function [-Wmaybe-uninitialized] rspNew->data.ptrvalue = (VoidPtr) rsipNewHead; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF seqcons.c In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from seqcons.c:115: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/sqnutils.h:51:0, from ../include/alignmgr2.h:111, from ../include/actutils.h:105, from seqcons.c:116: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ seqcons.c: In function 'CSC_Algorithm_ByBlosum62': seqcons.c:402:43: warning: 'minScore' may be used uninitialized in this function [-Wmaybe-uninitialized] scale = 1.0 - 1.0 * (score[i] - minScore) / (maxScore - minScore); ^ seqcons.c:402:67: warning: 'maxScore' may be used uninitialized in this function [-Wmaybe-uninitialized] scale = 1.0 - 1.0 * (score[i] - minScore) / (maxScore - minScore); ^ rm -f libncbicn3d.a ar cru libncbicn3d.a algorend.o cn3dmsel.o cn3dopen.o cn3dsave.o cn3dxprt.o cn3dwin.o cn3dentr.o cn3dmsg.o cn3dmatn.o cn3dmodl.o cn3dshim.o cn3dmesh.o cn3dstyl.o seqcons.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libncbicn3d.a ../lib ranlib ../lib/libncbicn3d.a mv algorend.o algorend.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL algorend.c algorend.c: In function 'Cn3D_SetOGLFont': algorend.c:791:24: warning: unused variable 'currentUnderlined' [-Wunused-variable] currentUnderlined = FALSE; ^ algorend.c:790:45: warning: unused variable 'currentItalic' [-Wunused-variable] static Nlm_Boolean currentBold = FALSE, currentItalic = FALSE, ^ algorend.c:790:24: warning: unused variable 'currentBold' [-Wunused-variable] static Nlm_Boolean currentBold = FALSE, currentItalic = FALSE, ^ algorend.c:789:40: warning: unused variable 'currentSize' [-Wunused-variable] static Nlm_Int2 currentIndex = -1, currentSize = -1; ^ algorend.c:789:21: warning: unused variable 'currentIndex' [-Wunused-variable] static Nlm_Int2 currentIndex = -1, currentSize = -1; ^ algorend.c: In function 'ColorFromSS': algorend.c:893:10: warning: unused variable 'rsult' [-Wunused-variable] Int2 rsult = 0; ^ algorend.c: In function 'Cn3D_RenWire': algorend.c:1400:10: warning: unused variable 'pmldThis' [-Wunused-variable] PMLD pmldThis = NULL; ^ algorend.c:1399:11: warning: unused variable 'pdnmlThis' [-Wunused-variable] PDNML pdnmlThis = NULL; ^ algorend.c:1398:10: warning: unused variable 'pmsdThis' [-Wunused-variable] PMSD pmsdThis = NULL; ^ algorend.c: In function 'Cn3D_ColSeqCons': algorend.c:1795:24: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] pars->ConsColAlg = (Nlm_Int2) GetObjectExtra(i); ^ algorend.c: In function 'MasterChangeLabelsProc': algorend.c:2075:44: warning: unused variable 'TopOn' [-Wunused-variable] Boolean NumOn, NameOn, PDBOn, WhiteOn, TopOn; ^ algorend.c:2073:13: warning: unused variable 'k' [-Wunused-variable] Int2 i, k, nameval; ^ algorend.c: In function 'ResetLabelCtrls': algorend.c:2272:25: warning: variable 'size' set but not used [-Wunused-but-set-variable] Int2 i, val, style, size, termStyle; ^ algorend.c: In function 'LabelControls': algorend.c:2434:19: warning: variable 'ppt11' set but not used [-Wunused-but-set-variable] PrompT ppt10, ppt11; ^ algorend.c:2431:36: warning: unused variable 'ppt7' [-Wunused-variable] PrompT ppt1, ppt2, ppt3, ppt4, ppt7, ppt8, ppt9; ^ algorend.c: In function 'Cn3D_SetQualityFromAppParams': algorend.c:2649:9: warning: unused variable 'i' [-Wunused-variable] int i; ^ algorend.c: In function 'OGL_Quality': algorend.c:2769:23: warning: unused variable 'q' [-Wunused-variable] Nlm_PrompT bp, p, q; ^ algorend.c:2769:20: warning: variable 'p' set but not used [-Wunused-but-set-variable] Nlm_PrompT bp, p, q; ^ algorend.c:2769:16: warning: variable 'bp' set but not used [-Wunused-but-set-variable] Nlm_PrompT bp, p, q; ^ algorend.c: In function 'RenderControls': algorend.c:2893:12: warning: variable 'ppt5' set but not used [-Wunused-but-set-variable] PrompT ppt5; ^ algorend.c: In function 'RenderObject': algorend.c:3138:10: warning: unused variable 'iCylRadius' [-Wunused-variable] Int4 iCylRadius; ^ algorend.c:3137:22: warning: unused variable 'iZTo' [-Wunused-variable] Int4 iXTo, iYTo, iZTo; ^ algorend.c:3137:16: warning: unused variable 'iYTo' [-Wunused-variable] Int4 iXTo, iYTo, iZTo; ^ algorend.c:3137:10: warning: unused variable 'iXTo' [-Wunused-variable] Int4 iXTo, iYTo, iZTo; ^ algorend.c:3136:26: warning: unused variable 'iZFrom' [-Wunused-variable] Int4 iXFrom, iYFrom, iZFrom; ^ algorend.c:3136:18: warning: unused variable 'iYFrom' [-Wunused-variable] Int4 iXFrom, iYFrom, iZFrom; ^ algorend.c:3136:10: warning: unused variable 'iXFrom' [-Wunused-variable] Int4 iXFrom, iYFrom, iZFrom; ^ algorend.c:3133:10: warning: unused variable 'i' [-Wunused-variable] Int4 i = 0; ^ algorend.c: In function 'RenderLabel': algorend.c:3394:10: warning: variable 'paldPrim' set but not used [-Wunused-but-set-variable] PALD paldPrim = NULL; ^ algorend.c:3393:10: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ algorend.c:3389:18: warning: unused variable 'iZ' [-Wunused-variable] Int4 iX, iY, iZ; ^ algorend.c:3389:14: warning: unused variable 'iY' [-Wunused-variable] Int4 iX, iY, iZ; ^ algorend.c:3389:10: warning: unused variable 'iX' [-Wunused-variable] Int4 iX, iY, iZ; ^ algorend.c: In function 'RenderBond': algorend.c:3554:10: warning: variable 'pmsdParent' set but not used [-Wunused-but-set-variable] PMSD pmsdParent = NULL; ^ algorend.c: In function 'RenderHalfWormBond': algorend.c:3673:10: warning: variable 'pmsdParent' set but not used [-Wunused-but-set-variable] PMSD pmsdParent; ^ algorend.c:3671:24: warning: variable 'pmad2' set but not used [-Wunused-but-set-variable] PMAD pmad0, pmad1, pmad2, pmad3; ^ algorend.c: In function 'RenderAnAtom': algorend.c:3758:10: warning: unused variable 'pmadFrom' [-Wunused-variable] PMAD pmadFrom = NULL; ^ algorend.c: In function 'RenderAllAtom': algorend.c:3829:9: warning: variable 'iMenu' set but not used [-Wunused-but-set-variable] int iMenu; ^ algorend.c:3815:11: warning: unused variable 'pvnmbThis' [-Wunused-variable] PVNMB pvnmbThis = NULL; ^ algorend.c:3811:11: warning: unused variable 'pvnmaThis' [-Wunused-variable] PVNMA pvnmaThis = NULL; ^ algorend.c: In function 'RenderGraph': algorend.c:4498:10: warning: unused variable 'bReservedThis' [-Wunused-variable] Byte bReservedThis = 0; ^ algorend.c: In function 'LabelChainTermini': algorend.c:4772:14: warning: unused variable 'pmbdThis' [-Wunused-variable] PMBD pmbdThis = NULL; ^ algorend.c:4771:15: warning: unused variable 'pvnmbThis' [-Wunused-variable] PVNMB pvnmbThis = NULL; ^ algorend.c: In function 'RenderMolecule': algorend.c:4871:11: warning: variable 'pdnmmThis' set but not used [-Wunused-but-set-variable] PDNMM pdnmmThis = NULL; ^ algorend.c: In function 'fnARLoop': algorend.c:5556:10: warning: variable 'iTest' set but not used [-Wunused-but-set-variable] Int2 iTest; ^ algorend.c: In function 'AlgorithmicRendering': algorend.c:5684:10: warning: unused variable 'i' [-Wunused-variable] Int2 i = 0; ^ algorend.c:5683:10: warning: unused variable 'Cn3d_LayerNow_sofar' [-Wunused-variable] Int2 Cn3d_LayerNow_sofar = 0; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from algorend.c:598: algorend.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ algorend.c:717:16: warning: 'Cn3d_CopyToNode' defined but not used [-Wunused-variable] static Boolean Cn3d_CopyToNode = FALSE; ^ algorend.c:2265:13: warning: 'LabelGroupOnOffProc' defined but not used [-Wunused-function] static void LabelGroupOnOffProc(GrouP g) ^ algorend.c: In function 'MasterChangeRenderProc': algorend.c:1316:33: warning: 'k' may be used uninitialized in this function [-Wmaybe-uninitialized] pars->SolventRender = k; ^ algorend.c: In function 'RenderLabel': algorend.c:3448:15: warning: 'fZCen' may be used uninitialized in this function [-Wmaybe-uninitialized] fZCen += fZt / l; ^ algorend.c:3443:41: warning: 'fYCen' may be used uninitialized in this function [-Wmaybe-uninitialized] fYt = (fYCen - fYFrom) + (fYCen - fYTo); ^ algorend.c:3442:41: warning: 'fXCen' may be used uninitialized in this function [-Wmaybe-uninitialized] fXt = (fXCen - fXFrom) + (fXCen - fXTo); ^ algorend.c:3439:30: warning: 'fZTo' may be used uninitialized in this function [-Wmaybe-uninitialized] fZCen = fZTo + (fZTo - fZFrom) / 2.0; ^ algorend.c:3443:41: warning: 'fYTo' may be used uninitialized in this function [-Wmaybe-uninitialized] fYt = (fYCen - fYFrom) + (fYCen - fYTo); ^ algorend.c:3442:41: warning: 'fXTo' may be used uninitialized in this function [-Wmaybe-uninitialized] fXt = (fXCen - fXFrom) + (fXCen - fXTo); ^ algorend.c:3439:30: warning: 'fZFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] fZCen = fZTo + (fZTo - fZFrom) / 2.0; ^ algorend.c:3443:22: warning: 'fYFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] fYt = (fYCen - fYFrom) + (fYCen - fYTo); ^ algorend.c:3442:22: warning: 'fXFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] fXt = (fXCen - fXFrom) + (fXCen - fXTo); ^ mv algorend.o algorend.glo mv algorend.tmp algorend.o mv cn3dmsel.o cn3dmsel.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dmsel.c mv cn3dmsel.o cn3dmsel.glo mv cn3dmsel.tmp cn3dmsel.o mv cn3dopen.o cn3dopen.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dopen.c cn3dopen.c: In function 'Cn3D_OpenStart': cn3dopen.c:722:10: warning: unused variable 'iBioseq' [-Wunused-variable] Int4 iBioseq = 0; ^ cn3dopen.c: In function 'MMDB_ReadMime': cn3dopen.c:1000:19: warning: unused variable 'pdnmlThis' [-Wunused-variable] PDNML pdnmlThis = NULL; ^ cn3dopen.c:989:25: warning: unused variable 'pbsasThis' [-Wunused-variable] BiostrucAlignSeqPtr pbsasThis = NULL; ^ cn3dopen.c: In function 'Cn3D_NetOpenBiostruc': cn3dopen.c:1310:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from cn3dopen.c:412: cn3dopen.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/sqnutils.h:51:0, from cn3dopen.c:413: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ cn3dopen.c:430:15: warning: 'Cn3D_wOpen' defined but not used [-Wunused-variable] static WindoW Cn3D_wOpen; ^ cn3dopen.c:431:15: warning: 'Cn3D_bOpenBrowse' defined but not used [-Wunused-variable] static ButtoN Cn3D_bOpenBrowse; ^ cn3dopen.c: In function 'MMDB_ReadMime': cn3dopen.c:529:9: warning: 'salp' may be used uninitialized in this function [-Wmaybe-uninitialized] SAM_ReplaceGI(salp); ^ cn3dopen.c:513:15: note: 'salp' was declared here SeqAlign *salp; ^ mv cn3dopen.o cn3dopen.glo mv cn3dopen.tmp cn3dopen.o mv cn3dsave.o cn3dsave.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dsave.c cn3dsave.c: In function 'Cn3D_AddMatrix': cn3dsave.c:206:41: warning: unused variable 'bsfsp_new' [-Wunused-variable] BiostrucFeatureSetPtr bsfsp = NULL, bsfsp_new = NULL; ^ cn3dsave.c: In function 'Cn3D_ExportAsnNow': cn3dsave.c:375:11: warning: unused variable 'pdnmlThis' [-Wunused-variable] PDNML pdnmlThis = NULL; ^ cn3dsave.c:372:24: warning: variable 'pbsfThis' set but not used [-Wunused-but-set-variable] BiostrucFeaturePtr pbsfThis; ^ cn3dsave.c:366:10: warning: unused variable 'pmsdSlave' [-Wunused-variable] PMSD pmsdSlave = NULL, pmsdMaster = NULL; ^ cn3dsave.c:362:27: warning: variable 'FirstSlave' set but not used [-Wunused-but-set-variable] Boolean iCn3d = TRUE, FirstSlave = FALSE; ^ cn3dsave.c:357:13: warning: unused variable 'pcSave' [-Wunused-variable] CharPtr pcSave = NULL; ^ cn3dsave.c: In function 'Cn3D_SaveBiostruc': cn3dsave.c:524:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ cn3dsave.c:523:11: warning: variable 'gMS' set but not used [-Wunused-but-set-variable] GrouP gMS; ^ cn3dsave.c:518:10: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ cn3dsave.c: In function 'Cn3D_ExportDictNow': cn3dsave.c:598:13: warning: unused variable 'pcSave' [-Wunused-variable] CharPtr pcSave = NULL; ^ cn3dsave.c:596:10: warning: unused variable 'iCount' [-Wunused-variable] Int4 iCount = 0; ^ cn3dsave.c: In function 'Cn3D_SaveDictionary': cn3dsave.c:629:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ cn3dsave.c:624:10: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ cn3dsave.c: In function 'Cn3D_SaveSub': cn3dsave.c:688:10: warning: variable 'i' set but not used [-Wunused-but-set-variable] IteM i; ^ In file included from cn3dsave.c:165:0: cn3dsave.c: At top level: ../include/asnmime.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnmime.h12"; ^ ../include/asnmime.h:117:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^ ../include/asnmime.h:118:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnmime.h:119:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from cn3dsave.c:171: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ cn3dsave.c:184:15: warning: 'Cn3D_bFeatOn' defined but not used [-Wunused-variable] static ButtoN Cn3D_bFeatOn; ^ cn3dsave.c: In function 'Cn3D_GetSubSet.isra.1': cn3dsave.c:289:24: warning: 'isep' may be used uninitialized in this function [-Wmaybe-uninitialized] isep->next = SeqEntryNew(); ^ mv cn3dsave.o cn3dsave.glo mv cn3dsave.tmp cn3dsave.o mv cn3dxprt.o cn3dxprt.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dxprt.c cn3dxprt.c: In function 'Cn3D_ExportPDB': cn3dxprt.c:209:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ cn3dxprt.c:208:11: warning: variable 'gMS' set but not used [-Wunused-but-set-variable] GrouP gMS; ^ cn3dxprt.c:203:10: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ cn3dxprt.c: In function 'Cn3D_ExportKin': cn3dxprt.c:381:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ cn3dxprt.c:380:11: warning: variable 'gMS' set but not used [-Wunused-but-set-variable] GrouP gMS; ^ cn3dxprt.c:375:10: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ cn3dxprt.c: In function 'Cn3D_ExportSub': cn3dxprt.c:513:10: warning: variable 'i' set but not used [-Wunused-but-set-variable] IteM i; ^ mv cn3dxprt.o cn3dxprt.glo mv cn3dxprt.tmp cn3dxprt.o mv cn3dwin.o cn3dwin.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dwin.c cn3dwin.c:733:1: warning: missing braces around initializer [-Wmissing-braces] { ^ cn3dwin.c:733:1: note: (near initialization for 'Cn3d_PaletteRGB') cn3dwin.c: In function 'Cn3D_Default_HLColor': cn3dwin.c:982:27: warning: variable 'colorB' set but not used [-Wunused-but-set-variable] Uint1 colorR, colorG, colorB; ^ cn3dwin.c:982:19: warning: variable 'colorG' set but not used [-Wunused-but-set-variable] Uint1 colorR, colorG, colorB; ^ cn3dwin.c:982:11: warning: variable 'colorR' set but not used [-Wunused-but-set-variable] Uint1 colorR, colorG, colorB; ^ cn3dwin.c: In function 'Cn3D_RedrawEx': cn3dwin.c:1251:19: warning: unused variable 'iColor' [-Wunused-variable] DDV_ColorCell iColor; ^ cn3dwin.c: In function 'fnPreCHLresidue': cn3dwin.c:1543:10: warning: unused variable 'pmsdThis' [-Wunused-variable] PMSD pmsdThis = NULL; ^ cn3dwin.c: In function 'Viewer3DGroups': cn3dwin.c:1728:10: warning: unused variable 'groups' [-Wunused-variable] Int2 groups = 0; ^ cn3dwin.c: In function 'Cn3D_AlignEdit': cn3dwin.c:1936:10: warning: unused variable 'iCount' [-Wunused-variable] Int2 iCount = 0; ^ cn3dwin.c:1935:10: warning: variable 'pmmdThis' set but not used [-Wunused-but-set-variable] PMMD pmmdThis = NULL; ^ cn3dwin.c:1933:17: warning: unused variable 'salp' [-Wunused-variable] SeqAlignPtr salp = NULL; ^ cn3dwin.c:1931:29: warning: variable 'pmsdSlave' set but not used [-Wunused-but-set-variable] PMSD pmsdMaster = NULL, pmsdSlave = NULL; ^ cn3dwin.c:1930:11: warning: unused variable 'pdnmsSlave' [-Wunused-variable] PDNMS pdnmsSlave = NULL; ^ cn3dwin.c: In function 'Cn3D_Menus': cn3dwin.c:2131:11: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] (Nlm_VoidPtr) i, NULL); ^ cn3dwin.c: In function 'Cn3DWin': cn3dwin.c:2364:5: warning: implicit declaration of function 'Nlm_SetOGLContext' [-Wimplicit-function-declaration] Nlm_SetOGLContext(NULL, NULL, NULL, NULL); ^ In file included from ../include/sqnutils.h:51:0, from ../include/udviewer.h:219, from cn3dwin.c:665: cn3dwin.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/samutil.h:234:0, from ../include/udviewer.h:228, from cn3dwin.c:665: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ cn3dwin.c:676:14: warning: 'Cn3D_Vy' defined but not used [-Wunused-variable] static Uint2 Cn3D_Vy, Cn3D_Rx; ^ cn3dwin.c:682:13: warning: 'Cn3D_iLabelCtrl' defined but not used [-Wunused-variable] static IteM Cn3D_iLabelCtrl = NULL; ^ cn3dwin.c:688:13: warning: 'Cn3D_iModelCtrl' defined but not used [-Wunused-variable] static IteM Cn3D_iModelCtrl = NULL; ^ cn3dwin.c:713:14: warning: 'Cn3D_gViewer' defined but not used [-Wunused-variable] static GrouP Cn3D_gViewer; ^ cn3dwin.c:719:14: warning: 'Cn3D_gViewCtrl' defined but not used [-Wunused-variable] static GrouP Cn3D_gViewCtrl; ^ cn3dwin.c:922:13: warning: 'Cn3D_ZoomCB' defined but not used [-Wunused-function] static void Cn3D_ZoomCB(IteM i) ^ cn3dwin.c:929:13: warning: 'Cn3D_MoveCB' defined but not used [-Wunused-function] static void Cn3D_MoveCB(IteM i) ^ cn3dwin.c:936:13: warning: 'Cn3D_Default_BgColor' defined but not used [-Wunused-function] static void Cn3D_Default_BgColor(IteM i) ^ cn3dwin.c:953:13: warning: 'Cn3D_BgColor' defined but not used [-Wunused-function] static void Cn3D_BgColor(IteM i) ^ cn3dwin.c:979:13: warning: 'Cn3D_Default_HLColor' defined but not used [-Wunused-function] static void Cn3D_Default_HLColor(IteM i) ^ cn3dwin.c:1349:25: warning: 'DoHighlightSeg' defined but not used [-Wunused-function] static void LIBCALLBACK DoHighlightSeg(PFB pfbThis, ^ cn3dwin.c:1428:13: warning: 'HLatom_MA' defined but not used [-Wunused-function] static void HLatom_MA(MAPtr ma, ^ cn3dwin.c:1626:13: warning: 'HLmolecule_MA' defined but not used [-Wunused-function] static void HLmolecule_MA(MAPtr ma, ^ mv cn3dwin.o cn3dwin.glo mv cn3dwin.tmp cn3dwin.o mv cn3dentr.o cn3dentr.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dentr.c mv cn3dentr.o cn3dentr.glo mv cn3dentr.tmp cn3dentr.o mv cn3dmsg.o cn3dmsg.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dmsg.c cn3dmsg.c: In function 'SeqStrucMediaMsgFunc': cn3dmsg.c:593:19: warning: variable 'omudp' set but not used [-Wunused-but-set-variable] OMUserDataPtr omudp = NULL; ^ In file included from ../include/sqnutils.h:51:0, from cn3dmsg.c:267: cn3dmsg.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/cn3dopen.h:111:0, from cn3dmsg.c:271: ../include/objmime.h:145:29: warning: 'Data_dataFree' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataFree PROTO ((Data_dataPtr )); ^ ../include/objmime.h:146:29: warning: 'Data_dataAsnRead' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:147:24: warning: 'Data_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Data_dataAsnWrite PROTO (( Data_dataPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:285:47: warning: 'SeqAlignData_seq_align_dataFree' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataFree PROTO ((SeqAlignData_seq_align_dataPtr )); ^ ../include/objmime.h:286:47: warning: 'SeqAlignData_seq_align_dataAsnRead' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:287:24: warning: 'SeqAlignData_seq_align_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL SeqAlignData_seq_align_dataAsnWrite PROTO (( SeqAlignData_seq_align_dataPtr , AsnIoPtr, AsnTypePtr)); ^ mv cn3dmsg.o cn3dmsg.glo mv cn3dmsg.tmp cn3dmsg.o mv cn3dmatn.o cn3dmatn.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dmatn.c cn3dmatn.c: In function 'FindMM': cn3dmatn.c:217:29: warning: unused variable 'pdnmsThisSlave' [-Wunused-variable] PDNMS pdnmsThis = NULL, pdnmsThisSlave = NULL; ^ cn3dmatn.c: In function 'DoMediaHL': cn3dmatn.c:249:10: warning: variable 'MainAtom' set but not used [-Wunused-but-set-variable] Byte MainAtom = 0; ^ cn3dmatn.c:247:10: warning: unused variable 'paldThis' [-Wunused-variable] PALD paldThis = NULL; ^ cn3dmatn.c:246:11: warning: unused variable 'pvnalThis' [-Wunused-variable] PVNAL pvnalThis = NULL; ^ cn3dmatn.c:245:10: warning: unused variable 'pmadThis' [-Wunused-variable] PMAD pmadThis = NULL; ^ cn3dmatn.c:244:11: warning: unused variable 'pvnmaThis' [-Wunused-variable] PVNMA pvnmaThis = NULL; ^ cn3dmatn.c: In function 'Cn3DCheckAndDoHighlight': cn3dmatn.c:372:10: warning: unused variable 'pmsdThis' [-Wunused-variable] PMSD pmsdThis = NULL; ^ cn3dmatn.c:371:10: warning: unused variable 'pmmdThis' [-Wunused-variable] PMMD pmmdThis = NULL; ^ mv cn3dmatn.o cn3dmatn.glo mv cn3dmatn.tmp cn3dmatn.o mv cn3dmodl.o cn3dmodl.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dmodl.c cn3dmodl.c: In function 'Cn3DCheckNoSingleHighlight': cn3dmodl.c:353:11: warning: unused variable 'pdnmgThis' [-Wunused-variable] PDNMG pdnmgThis = NULL; ^ cn3dmodl.c: In function 'Cn3DCheckHighlighted': cn3dmodl.c:364:29: warning: unused variable 'pmsdSlave' [-Wunused-variable] PMSD pmsdMaster = NULL, pmsdSlave = NULL; ^ cn3dmodl.c: In function 'Cn3D_ReSetVisibleStatus': cn3dmodl.c:508:10: warning: unused variable 'pmgd' [-Wunused-variable] PMGD pmgd = NULL; ^ cn3dmodl.c:507:11: warning: unused variable 'pdnmg' [-Wunused-variable] PDNMG pdnmg = NULL; ^ cn3dmodl.c:506:10: warning: unused variable 'pmmdThis' [-Wunused-variable] PMMD pmmdThis = NULL; ^ cn3dmodl.c: In function 'fnAlignList': cn3dmodl.c:996:25: warning: unused variable 'itemtype' [-Wunused-variable] Uint2 entityID = 0, itemtype = 0; ^ cn3dmodl.c:996:11: warning: unused variable 'entityID' [-Wunused-variable] Uint2 entityID = 0, itemtype = 0; ^ cn3dmodl.c:995:14: warning: unused variable 'sipThis' [-Wunused-variable] SeqIdPtr sipThis = NULL; ^ cn3dmodl.c:993:10: warning: unused variable 'pmmdThis' [-Wunused-variable] PMMD pmmdThis = NULL; ^ cn3dmodl.c: In function 'SynchronizeModVisibleStatus': cn3dmodl.c:1065:11: warning: unused variable 'pdnmg' [-Wunused-variable] PDNMG pdnmg = NULL; ^ cn3dmodl.c:1064:10: warning: unused variable 'pmmdThis' [-Wunused-variable] PMMD pmmdThis = NULL; ^ cn3dmodl.c: In function 'SetResidueVisibilities': cn3dmodl.c:1201:11: warning: unused variable 'pvnmoThis' [-Wunused-variable] PVNMO pvnmoThis = NULL; ^ In file included from ../include/cn3dopen.h:111:0, from cn3dmodl.c:319: cn3dmodl.c: At top level: ../include/objmime.h:145:29: warning: 'Data_dataFree' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataFree PROTO ((Data_dataPtr )); ^ ../include/objmime.h:146:29: warning: 'Data_dataAsnRead' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:147:24: warning: 'Data_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Data_dataAsnWrite PROTO (( Data_dataPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:285:47: warning: 'SeqAlignData_seq_align_dataFree' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataFree PROTO ((SeqAlignData_seq_align_dataPtr )); ^ ../include/objmime.h:286:47: warning: 'SeqAlignData_seq_align_dataAsnRead' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:287:24: warning: 'SeqAlignData_seq_align_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL SeqAlignData_seq_align_dataAsnWrite PROTO (( SeqAlignData_seq_align_dataPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from cn3dmodl.c:323: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ mv cn3dmodl.o cn3dmodl.glo mv cn3dmodl.tmp cn3dmodl.o mv cn3dshim.o cn3dshim.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dshim.c cn3dshim.c: In function 'Cn3D_Size': cn3dshim.c:413:10: warning: unused variable 'pmsdThis' [-Wunused-variable] PMSD pmsdThis; ^ cn3dshim.c:412:11: warning: unused variable 'pdnmsSlave' [-Wunused-variable] PDNMS pdnmsSlave; ^ cn3dshim.c: In function 'Cn3D_SizeCB': cn3dshim.c:391:36: warning: iteration 2u invokes undefined behavior [-Waggressive-loop-optimizations] BoundBox->x[i] = pflvDataThis[i / (int) 2]; ^ cn3dshim.c:390:17: note: containing loop for (i = 0; i < 6; i++) { ^ cn3dshim.c:399:36: warning: iteration 1u invokes undefined behavior [-Waggressive-loop-optimizations] BoundBox->x[i + 1]) BoundBox->x[i + 1] = ^ cn3dshim.c:395:17: note: containing loop for (i = 0; i < 6; i += 2) { /* check to see if the atom lies outside the bound box */ ^ mv cn3dshim.o cn3dshim.glo mv cn3dshim.tmp cn3dshim.o mv cn3dmesh.o cn3dmesh.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dmesh.c cn3dmesh.c: In function 'Cn3D_MeshAcceptProc': cn3dmesh.c:103:10: warning: unused variable 'pmsdThis' [-Wunused-variable] PMSD pmsdThis = NULL; ^ cn3dmesh.c: In function 'Cn3D_OpenMesh': cn3dmesh.c:151:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ cn3dmesh.c: In function 'Cn3D_MeshAcceptProc': cn3dmesh.c:111:5: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(hFile, "%d %d %d", &(Mesh.NumVert), &(Mesh.NumEdge), ^ cn3dmesh.c:119:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(hFile, "%lf %lf %lf %lf %lf %lf %f %f %f %d %d %d", ^ cn3dmesh.c:129:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(hFile, "%d %d %d %d %d", &Mesh.Edges[i].Vertex[0], ^ cn3dmesh.c:133:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(hFile, "%d %d %d %d %d %d %d %d %d", &Mesh.Tri[i].Edge[0], ^ mv cn3dmesh.o cn3dmesh.glo mv cn3dmesh.tmp cn3dmesh.o mv cn3dstyl.o cn3dstyl.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dstyl.c cn3dstyl.c: In function 'GetThisSpecialAlgorRenderSet': cn3dstyl.c:459:27: warning: unused variable 'sfipThis' [-Wunused-variable] SpecialFeatureInfoPtr sfipThis = NULL; ^ cn3dstyl.c: In function 'GetSpecialAlgorRenderSet': cn3dstyl.c:641:10: warning: unused variable 'parsThis' [-Wunused-variable] PARS parsThis = NULL; ^ cn3dstyl.c:640:23: warning: unused variable 'sfpThis' [-Wunused-variable] SpecialFeaturePtr sfpThis = NULL; ^ cn3dstyl.c: In function 'ChangeSpecialLabelsProc': cn3dstyl.c:867:16: warning: unused variable 'TopOn' [-Wunused-variable] FALSE, TopOn = FALSE; ^ cn3dstyl.c:866:44: warning: unused variable 'PDBOn' [-Wunused-variable] Boolean NumOn = FALSE, NameOn = FALSE, PDBOn = FALSE, WhiteOn = ^ cn3dstyl.c:864:17: warning: unused variable 'k' [-Wunused-variable] Int2 i = 0, k = 0, nameval = 0; ^ cn3dstyl.c: In function 'ModelSetLabelCtrls': cn3dstyl.c:1059:37: warning: variable 'size' set but not used [-Wunused-but-set-variable] Int2 i = 0, val = 0, style = 0, size = 0; ^ cn3dstyl.c: In function 'lFeatureEditedAction': cn3dstyl.c:1136:10: warning: unused variable 'val' [-Wunused-variable] Int4 val = 0; ^ cn3dstyl.c: In function 'bFeatureMoveAction': cn3dstyl.c:1153:23: warning: unused variable 'sfpThis' [-Wunused-variable] SpecialFeaturePtr sfpThis = NULL; ^ cn3dstyl.c: In function 'bFeatureEditAction': cn3dstyl.c:1176:23: warning: unused variable 'sfpThis' [-Wunused-variable] SpecialFeaturePtr sfpThis = NULL; ^ cn3dstyl.c: In function 'ModelControls': cn3dstyl.c:1364:19: warning: variable 'ppt13' set but not used [-Wunused-but-set-variable] PrompT ppt12, ppt13, ppt14; ^ cn3dstyl.c:1363:9: warning: unused variable 'ppt11' [-Wunused-variable] ppt11; ^ cn3dstyl.c:1362:60: warning: unused variable 'ppt9' [-Wunused-variable] PrompT ppt1, ppt2, ppt3, ppt4, ppt5, ppt6, ppt7, ppt8, ppt9, ppt10, ^ cn3dstyl.c:1362:36: warning: variable 'ppt5' set but not used [-Wunused-but-set-variable] PrompT ppt1, ppt2, ppt3, ppt4, ppt5, ppt6, ppt7, ppt8, ppt9, ppt10, ^ cn3dstyl.c:1362:12: warning: variable 'ppt1' set but not used [-Wunused-but-set-variable] PrompT ppt1, ppt2, ppt3, ppt4, ppt5, ppt6, ppt7, ppt8, ppt9, ppt10, ^ cn3dstyl.c: In function 'GetBiostrucFeatureLocationForHihglightedResidues': cn3dstyl.c:1728:30: warning: variable 'SingleInterval' set but not used [-Wunused-but-set-variable] Boolean Started = FALSE, SingleInterval, UserDefinedFeatureFound = ^ cn3dstyl.c:1725:20: warning: variable 'iMolCurrent' set but not used [-Wunused-but-set-variable] Int2 iMol = 0, iMolCurrent = 0; ^ cn3dstyl.c: In function 'MakeBiostrucFeatureSetForUserDefinedFeature': cn3dstyl.c:2122:60: warning: unused variable 'bsfsp_tail' [-Wunused-variable] BiostrucFeatureSetPtr bsfsp = NULL, bsfsp_head = NULL, bsfsp_tail = ^ cn3dstyl.c:2122:41: warning: unused variable 'bsfsp_head' [-Wunused-variable] BiostrucFeatureSetPtr bsfsp = NULL, bsfsp_head = NULL, bsfsp_tail = ^ cn3dstyl.c: In function 'GetUserDefinedFeature': cn3dstyl.c:2196:27: warning: unused variable 'sfipThis' [-Wunused-variable] SpecialFeatureInfoPtr sfipThis = NULL; ^ cn3dstyl.c: In function 'Cn3DIndexUserDefinedFeature': cn3dstyl.c:2551:23: warning: variable 'sfpThis' set but not used [-Wunused-but-set-variable] SpecialFeaturePtr sfpThis = NULL; ^ cn3dstyl.c:2549:10: warning: unused variable 'pmmdThis' [-Wunused-variable] PMMD pmmdThis = NULL; ^ cn3dstyl.c:2548:11: warning: unused variable 'pdnmmHead' [-Wunused-variable] PDNMM pdnmmHead = NULL; ^ cn3dstyl.c:2547:10: warning: unused variable 'pmsdThis' [-Wunused-variable] PMSD pmsdThis = NULL; ^ In file included from ../include/cn3dopen.h:111:0, from cn3dstyl.c:89: cn3dstyl.c: At top level: ../include/objmime.h:145:29: warning: 'Data_dataFree' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataFree PROTO ((Data_dataPtr )); ^ ../include/objmime.h:146:29: warning: 'Data_dataAsnRead' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:147:24: warning: 'Data_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Data_dataAsnWrite PROTO (( Data_dataPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:285:47: warning: 'SeqAlignData_seq_align_dataFree' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataFree PROTO ((SeqAlignData_seq_align_dataPtr )); ^ ../include/objmime.h:286:47: warning: 'SeqAlignData_seq_align_dataAsnRead' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:287:24: warning: 'SeqAlignData_seq_align_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL SeqAlignData_seq_align_dataAsnWrite PROTO (( SeqAlignData_seq_align_dataPtr , AsnIoPtr, AsnTypePtr)); ^ cn3dstyl.c:144:14: warning: 'Cn3D_pupModelStyleItem' defined but not used [-Wunused-variable] static PopuP Cn3D_pupModelStyleItem; ^ cn3dstyl.c:149:15: warning: 'bResetFeatureTitle' defined but not used [-Wunused-variable] static ButtoN bResetFeatureTitle; ^ cn3dstyl.c:456:30: warning: 'GetThisSpecialAlgorRenderSet' defined but not used [-Wunused-function] static SpecialFeatureInfoPtr GetThisSpecialAlgorRenderSet(Int2 id) ^ cn3dstyl.c: In function 'CopyLocation': cn3dstyl.c:496:27: warning: 'rsipNewHead' may be used uninitialized in this function [-Wmaybe-uninitialized] rspNew->data.ptrvalue = (VoidPtr) rsipNewHead; ^ mv cn3dstyl.o cn3dstyl.glo mv cn3dstyl.tmp cn3dstyl.o mv seqcons.o seqcons.tmp gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL seqcons.c In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from seqcons.c:115: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/sqnutils.h:51:0, from ../include/alignmgr2.h:111, from ../include/actutils.h:105, from seqcons.c:116: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ seqcons.c: In function 'CSC_Algorithm_ByBlosum62': seqcons.c:402:43: warning: 'minScore' may be used uninitialized in this function [-Wmaybe-uninitialized] scale = 1.0 - 1.0 * (score[i] - minScore) / (maxScore - minScore); ^ seqcons.c:402:67: warning: 'maxScore' may be used uninitialized in this function [-Wmaybe-uninitialized] scale = 1.0 - 1.0 * (score[i] - minScore) / (maxScore - minScore); ^ mv seqcons.o seqcons.glo mv seqcons.tmp seqcons.o rm -f libncbicn3dOGL.a ar cru libncbicn3dOGL.a algorend.glo cn3dmsel.glo cn3dopen.glo cn3dsave.glo cn3dxprt.glo cn3dwin.glo cn3dentr.glo cn3dmsg.glo cn3dmatn.glo cn3dmodl.glo cn3dshim.glo cn3dmesh.glo cn3dstyl.glo seqcons.glo ar: `u' modifier ignored since `D' is the default (see `U') cp -p libncbicn3dOGL.a ../lib ranlib ../lib/libncbicn3dOGL.a gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF aa_ungapped.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_diagnostics.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_engine.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_extend.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_filter.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_gapalign.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_hits.c blast_hits.c: In function 'Blast_HSPResultsFromHSPStreamWithLimitEx': blast_hits.c:3499:13: warning: variable 'rm_hsps' set but not used [-Wunused-but-set-variable] Boolean rm_hsps = FALSE; ^ blast_hits.c: At top level: blast_hits.c:3212:12: warning: 's_SortHspWrapEvalue' defined but not used [-Wunused-function] static int s_SortHspWrapEvalue(const void *x, const void *y) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_itree.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_lookup.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_message.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_options.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_seg.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_seqsrc.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_sw.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_setup.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_stat.c blast_stat.c: In function 's_BlastGumbelBlkNew': blast_stat.c:818:21: warning: unused variable 'retv' [-Wunused-variable] Blast_GumbelBlk* retv; ^ blast_stat.c: At top level: blast_stat.c:5081:15: warning: 's_CalculateNormalProbability' defined but not used [-Wunused-function] static double s_CalculateNormalProbability(double x_, double eps_) ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_traceback.c blast_traceback.c: In function 'Blast_TracebackFromHSPList': blast_traceback.c:393:25: warning: 'qe' may be used uninitialized in this function [-Wmaybe-uninitialized] Blast_HSPInit(qs, qe, ss, se, qs, ss, ^ blast_traceback.c:365:22: note: 'qe' was declared here Int4 qs, qe, ss, se, es, ee, os; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_util.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF gapinfo.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF greedy_align.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF link_hsps.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF lookup_wrap.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF na_ungapped.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_math.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_std.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF pattern.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF phi_extend.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF phi_lookup.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF lookup_util.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_encoding.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_psi.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_psi_priv.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_kappa.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF matrix_freq_ratios.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_hspstream.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_parameters.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_posit.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF phi_gapalign.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_program.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_query_info.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_tune.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_aalookup.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_nalookup.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_aascan.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_nascan.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_dynarray.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF split_query.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF gencode_singleton.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF index_ungapped.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF hspfilter_collector.c rm -f libblast.a ar cru libblast.a aa_ungapped.o blast_diagnostics.o blast_engine.o blast_extend.o blast_filter.o blast_gapalign.o blast_hits.o blast_itree.o blast_lookup.o blast_message.o blast_options.o blast_seg.o blast_seqsrc.o blast_sw.o blast_setup.o blast_stat.o blast_traceback.o blast_util.o gapinfo.o greedy_align.o link_hsps.o lookup_wrap.o na_ungapped.o ncbi_math.o ncbi_std.o pattern.o phi_extend.o phi_lookup.o lookup_util.o blast_encoding.o blast_psi.o blast_psi_priv.o blast_kappa.o matrix_freq_ratios.o blast_hspstream.o blast_parameters.o blast_posit.o phi_gapalign.o blast_program.o blast_query_info.o blast_tune.o blast_aalookup.o blast_nalookup.o blast_aascan.o blast_nascan.o blast_dynarray.o split_query.o gencode_singleton.o index_ungapped.o hspfilter_collector.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libblast.a ../lib ranlib ../lib/libblast.a gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_api.c blast_api.c: In function 's_BlastRPSInfoInit': blast_api.c:149:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(auxfile, "%s", buffer); ^ blast_api.c:151:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(auxfile, "%d", &info->aux_info.gap_open_penalty); ^ blast_api.c:152:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(auxfile, "%d", &info->aux_info.gap_extend_penalty); ^ blast_api.c:153:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(auxfile, "%le", &info->aux_info.ungapped_k); ^ blast_api.c:154:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(auxfile, "%le", &info->aux_info.ungapped_h); ^ blast_api.c:155:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(auxfile, "%d", &info->aux_info.max_db_seq_length); ^ blast_api.c:156:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(auxfile, "%d", &info->aux_info.db_length); ^ blast_api.c:157:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(auxfile, "%lf", &info->aux_info.scale_factor); ^ blast_api.c:161:7: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(auxfile, "%d", &seq_size); /* not used */ ^ blast_api.c:162:7: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(auxfile, "%le", &info->aux_info.karlin_k[i]); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_input.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_format.c blast_format.c: In function 's_MBXmlInit': blast_format.c:255:13: warning: variable 'retval' set but not used [-Wunused-but-set-variable] Boolean retval = FALSE; ^ blast_format.c: In function 's_LoadMatrix': blast_format.c:673:20: warning: array subscript has type 'char' [-Wchar-subscripts] ss[pchars[i]][pchars[j]] = pack_matrix->scores[(i*dim)+j]; ^ blast_format.c:673:31: warning: array subscript has type 'char' [-Wchar-subscripts] ss[pchars[i]][pchars[j]] = pack_matrix->scores[(i*dim)+j]; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_mtlock.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_options_api.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_prelim.c blast_prelim.c: In function 'Blast_PrelimSearchThreadRun': blast_prelim.c:100:9: warning: variable 'status' set but not used [-Wunused-but-set-variable] Int2 status = 0; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_returns.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_seq.c blast_seq.c: In function 's_SeqLocFillSequenceBuffer': blast_seq.c:529:10: warning: variable 'seq_code' set but not used [-Wunused-but-set-variable] Uint1 seq_code, strand; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_seqalign.c blast_seqalign.c: In function 's_HSPListToSeqAlignUngapped': blast_seqalign.c:343:26: warning: variable 'hspset_cnt_old' set but not used [-Wunused-but-set-variable] Int4 hsp_cnt, index2, hspset_cnt_old; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_tabular.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF repeats_filter.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF seqsrc_multiseq.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF seqsrc_readdb.c seqsrc_readdb.c: In function 's_ReaddbGetNextChunk': seqsrc_readdb.c:375:11: warning: variable 'real_readdb_entries' set but not used [-Wunused-but-set-variable] Uint4 real_readdb_entries; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF twoseq_api.c twoseq_api.c: In function 's_TwoSeqBasicFillOptions': twoseq_api.c:100:10: warning: unused variable 'status' [-Wunused-variable] Int2 status = 0; ^ In file included from ../include/sqnutils.h:51:0, from ../include/algo/blast/api/twoseq_api.h:41, from twoseq_api.c:45: twoseq_api.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF dust_filter.c dust_filter.c: In function 's_GetFilteringLocations': dust_filter.c:171:32: warning: unused variable 'filter_slp_rev' [-Wunused-variable] BlastSeqLoc* filter_slp_rev = NULL; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_message_api.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -D_PNG -I../include -DWIN_MOTIF hspfilter_queue.c hspfilter_queue.c: In function 's_BlastHSPQueueInit': hspfilter_queue.c:65:24: warning: unused variable 'q_data' [-Wunused-variable] BlastHSPQueueData * q_data = data; ^ rm -f libblastapi.a ar cru libblastapi.a blast_api.o blast_input.o blast_format.o blast_mtlock.o blast_options_api.o blast_prelim.o blast_returns.o blast_seq.o blast_seqalign.o blast_tabular.o repeats_filter.o seqsrc_multiseq.o seqsrc_readdb.o twoseq_api.o dust_filter.o blast_message_api.o hspfilter_queue.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libblastapi.a ../lib ranlib ../lib/libblastapi.a gcc -o asntool -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -DWIN_MOTIF -L../shlib asntool.c asncode.c ../lib/libncbi.a -lm asncode.c: In function 'AsnCode_SETOF_base_or_user': asncode.c:1518:20: warning: variable 'real_type' set but not used [-Wunused-but-set-variable] Int2 real_type; ^ asncode.c:1517:20: warning: variable 'valslot' set but not used [-Wunused-but-set-variable] CharPtr valslot; ^ asncode.c: In function 'userobj_and_basetype_SETOF': asncode.c:2472:20: warning: variable 'valslot' set but not used [-Wunused-but-set-variable] CharPtr valslot; ^ asncode.c: In function 'AsnCodeIsReallyChoice': asncode.c:3201:7: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (now_atp) ^ asncode.c: In function 'AsnCodeFunctionWriteFuncChoiceStart': asncode.c:3623:20: warning: variable 'obj_use' set but not used [-Wunused-but-set-variable] CharPtr obj_use = which_node->obj_name; ^ asncode.c: In function 'AsnCodeIter': asncode.c:4237:7: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (iter->atp != NULL) ^ asncode.c: In function 'AsnCode': asncode.c:4316:48: warning: variable 'objnamety' set but not used [-Wunused-but-set-variable] CharPtr objnameuc = NULL, objnamemc = NULL, objnamety = NULL; ^ asncode.c: At top level: asncode.c:286:17: warning: 'defptr' defined but not used [-Wunused-variable] static CharPtr defptr = "ASNCODE_PTRVAL_SLOT"; ^ asncode.c:288:17: warning: 'defbigint' defined but not used [-Wunused-variable] static CharPtr defbigint = "ASNCODE_BIGINTVAL_SLOT"; ^ asncode.c:289:17: warning: 'defreal' defined but not used [-Wunused-variable] static CharPtr defreal = "ASNCODE_REALVAL_SLOT"; ^ asncode.c:290:17: warning: 'defbool' defined but not used [-Wunused-variable] static CharPtr defbool = "ASNCODE_BOOLVAL_SLOT"; ^ asncode.c:291:17: warning: 'defbyte' defined but not used [-Wunused-variable] static CharPtr defbyte = "ASNCODE_BYTEVAL_SLOT"; ^ ../lib/libncbi.a(ncbifile.o): In function `Nlm_TmpNam': /«PKGBUILDDIR»/build/ncbifile.c:1209: warning: the use of `tempnam' is dangerous, better use `mkstemp' cp -p asntool ../bin make[2]: Leaving directory '/«PKGBUILDDIR»/build' /usr/bin/make -C build -f makenet.unx LCL=lnx CC="gcc " LDFLAGS1="-g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='\"Dec 10 2015\"' -DBUILD_TIME='\"06:19:59\"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now" RAN="ranlib" OTHERLIBS="-lm" VIBLIBS="-lXm -lXmu -lXt -lX11 " VIBFLAG="-DWIN_MOTIF" NCBI_LINKINGLIBDIR="../shlib" \ CFLAGS1="-c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='\"Dec 10 2015\"' -DBUILD_TIME='\"06:19:59\"' -fPIC" \ LDFLAGS="-Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now" \ NETENTREZVERSION="2.02c2ASN1SPEC6" \ BLIB31=libvibnet.a OGLLIBS="-lGLU -lGL -lpng " all libncbimla.a libnetblast.a libncbitxc2.a libncbiid1.a shlib make[2]: Entering directory '/«PKGBUILDDIR»/build' ./ln-if-absent ../connect/test/*.c . ./ln-if-absent ../network/entrez/client/*.h ../include ./ln-if-absent ../network/entrez/client/*.c . ./ln-if-absent ../network/medarch/client/*.h ../include ./ln-if-absent ../network/medarch/client/*.c . ./ln-if-absent ../network/taxonomy/client/*.h ../include set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../network/taxonomy/client/*.c . set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../network/taxon1/common/*.h ../include ./ln-if-absent ../network/taxon1/common/*.c . ./ln-if-absent ../network/taxon1/taxon2/*.h ../include ./ln-if-absent ../network/taxon1/taxon2/*.c . ./ln-if-absent ../network/id0arch/client/*.h ../include set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../network/id0arch/client/*.c . set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../network/id1arch/*.h ../include ./ln-if-absent ../network/id1arch/*.c . ./ln-if-absent ../network/id2arch/*.h ../include ./ln-if-absent ../network/id2arch/*.c . ./ln-if-absent ../network/spell/client/*.h ../include ./ln-if-absent ../network/spell/client/*.c . ./ln-if-absent ../network/suggest/client/*.h ../include ./ln-if-absent ../network/suggest/client/*.c . ./ln-if-absent ../network/blast3/client/*.h ../include ./ln-if-absent ../network/blast3/client/*.c . ./ln-if-absent ../tools/taxblast.h ../include ./ln-if-absent ../tools/taxblast.c . ./ln-if-absent /*.c . set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/misc/*.c . set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/misc/*.h ../include set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/ssparse/*.c . set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/ssparse/*.h ../include set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/libparsn/*.c . set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/libparsn/*.h ../include set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/smart/smartnet/*.c . set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/smart/smartnet/*.h ../include set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/www/*.c . set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/www/*.h ../include set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/query/*.c . set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/query/*.h ../include set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../network/sybutils/ctlib/*.c . set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../network/sybutils/ctlib/*.h ../include set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../network/sybutils/oslib/*.c . set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../network/sybutils/oslib/*.h ../include set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../network/sybutils/idloadlib/*.c . set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../network/sybutils/idloadlib/*.h ../include set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../network/nsclilib/*.h ../include ./ln-if-absent ../network/nsclilib/*.c . ./ln-if-absent ../network/vibnet/*.c . ./ln-if-absent ../network/vibnet/*.h ../include ./ln-if-absent ../cdromlib/*.h ../include ./ln-if-absent ../network/wwwblast/Src/*.c . ./ln-if-absent ../cdromlib/accentr.c . ./ln-if-absent ../cdromlib/accutils.c . ./ln-if-absent ../sequin/*.* . ./ln-if-absent ../demo/entrez.c . ./ln-if-absent ../demo/seqget.c . ./ln-if-absent ../demo/entrcmd.c . ./ln-if-absent ../demo/batch.c . ./ln-if-absent ../demo/qbatch.c . ./ln-if-absent ../demo/elecpcr.c . ./ln-if-absent ../demo/asn2fast.c . ./ln-if-absent ../demo/asn2asn.c . ./ln-if-absent ../demo/cleanasn.c . ./ln-if-absent ../demo/cspeedtest.c . ./ln-if-absent ../demo/sqn2agp.c . ./ln-if-absent ../demo/sugint.c . ./ln-if-absent ../demo/fetchent.c . ./ln-if-absent ../demo/udvmain.c . ./ln-if-absent ../demo/rtestval.c . ./ln-if-absent ../demo/aceread_tst.c . ./ln-if-absent ../demo/asn2ff.c . ./ln-if-absent ../demo/asn2gb.c . ./ln-if-absent ../demo/asn2fsa.c . ./ln-if-absent ../demo/asn2all.c . ./ln-if-absent ../demo/gene2xml.c . ./ln-if-absent ../demo/asnval.c . ./ln-if-absent ../demo/asndisc.c . ./ln-if-absent ../demo/asnbarval.c . ./ln-if-absent ../demo/aceread_tst.c . ./ln-if-absent ../demo/asnmacro.c . ./ln-if-absent ../demo/asnstrip.c . ./ln-if-absent ../demo/tbl2asn.c . ./ln-if-absent ../demo/raw2delt.c . ./ln-if-absent ../demo/flint.c . ./ln-if-absent ../demo/xlint.c . ./ln-if-absent ../demo/diffshift.c . ./ln-if-absent ../demo/gbseqget.c . ./ln-if-absent ../demo/insdseqget.c . ./ln-if-absent ../demo/nps2gps.c . ./ln-if-absent ../demo/testent2.c . ./ln-if-absent ../demo/trna2sap.c . ./ln-if-absent ../demo/trna2tbl.c . ./ln-if-absent ../demo/entrez2.c . ./ln-if-absent ../demo/condense.c . ./ln-if-absent ../demo/spideymain.c . ./ln-if-absent ../demo/dotmain.c . ./ln-if-absent ../demo/ingenmain.c . ./ln-if-absent ../demo/bl2seq.c . ./ln-if-absent ../demo/blastall.c . ./ln-if-absent ../demo/blast_driver.c . ./ln-if-absent ../demo/src_chk.c . ./ln-if-absent ../demo/tbl_chk.c . ./ln-if-absent ../demo/srchnt.c ../demo/srchaa.c ../demo/mts.c ../demo/sigme.c ../demo/dst.c ../demo/ccp.c ../demo/epi.c ../demo/twop.c ../demo/cnsrt.c ../demo/cnsgn.c ../demo/ccpv.c ../demo/dustv.c ../demo/epiv.c ../demo/sigmev.c ../demo/twopv.c ../demo/cnsrtv.c ../demo/cnsgnv.c ../demo/searchv.c . ./ln-if-absent ../network/entrez/server/*.* . set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../network/suggest/server/*.* . chmod -R ug+rw,o+r . echo Waiting...go Waiting...go gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" ni_lib_.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" ni_debug.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" ni_service.c ni_service.c: In function 's_GenericGetService': ni_service.c:199:19: warning: unused variable 'c' [-Wunused-variable] CONNECTOR c; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" ni_error.c rm -f libnetcli.a ar cru libnetcli.a ni_lib_.o ni_debug.o ni_service.o ni_error.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libnetcli.a ../lib ranlib ../lib/libnetcli.a gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" netentr.c netentr.c: In function 's_NetEntTLEvalCount': netentr.c:798:5: warning: "/*" within comment [-Wcomment] /*MsgSetReadTimeout(Entrez_ni, 60);*/ ^ netentr.c: In function 's_NetDocSumListGet': netentr.c:856:18: warning: variable 'amp' set but not used [-Wunused-but-set-variable] AsnModulePtr amp; ^ netentr.c: In function 's_NetTermListByTerm': netentr.c:1212:9: warning: variable 'terms_to_read' set but not used [-Wunused-but-set-variable] int terms_to_read; ^ netentr.c:1200:14: warning: unused variable 'asnout' [-Wunused-variable] AsnIoPtr asnout = Entrez_asnout; ^ netentr.c: In function 's_NetTermListByPage': netentr.c:1343:14: warning: unused variable 'asnout' [-Wunused-variable] AsnIoPtr asnout = Entrez_asnout; ^ netentr.c: In function 'NetEntTLEval': netentr.c:675:12: warning: 'lsp' may be used uninitialized in this function [-Wmaybe-uninitialized] return lsp; ^ netentr.c: In function 'NetEntTLEvalCount': netentr.c:800:8: warning: 'atp' may be used uninitialized in this function [-Wmaybe-uninitialized] if (atp == ENTREZ_BACK_eval_count) ^ netentr.c:782:16: note: 'atp' was declared here AsnTypePtr atp; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" netlib.c netlib.c: In function 'BoolExprAsnWrite': netlib.c:307:16: warning: unused variable 'n' [-Wunused-variable] static int n = 0; ^ netlib.c: At top level: netlib.c:96:16: warning: 'loaded' defined but not used [-Wunused-variable] static Boolean loaded = FALSE; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" objneten.c objneten.c: In function 'EntrezNeighborTextAsnRead': objneten.c:2938:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c: In function 'ChildLinkAsnRead': objneten.c:3148:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c: In function 'EntrezHierarchyAsnRead': objneten.c:3442:15: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c: In function 'EntrezBlastreqAsnRead': objneten.c:3705:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c:3704:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objneten.c: In function 'EntrezExtraInfoAsnRead': objneten.c:3911:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c:3910:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objneten.c: In function 'ClusterArticlesAsnRead': objneten.c:4262:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c:4261:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objneten.c: In function 'ClusterRespAsnRead': objneten.c:4455:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c: In function 'DateConstraintsAsnRead': objneten.c:4622:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c: In function 'DateVectorAsnRead': objneten.c:4785:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c:4784:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objneten.c: In function 'GetByFidAsnRead': objneten.c:4963:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c:4962:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objneten.c: In function 'GetFeatIdsAsnRead': objneten.c:5133:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c:5132:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ rm -f libnetentr.a ar cru libnetentr.a netentr.o netlib.o objneten.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libnetentr.a ../lib ranlib ../lib/libnetentr.a ./ln-if-absent accentr.c Naccentr.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" -D_NETENT_ Naccentr.c Naccentr.c:357:93: warning: missing braces around initializer [-Wmissing-braces] Uint1 AdaptiveDocSumMatrix[MAX_CHUNK_IN_ADAPTIVE_MATRIX+1][MAX_SECS_IN_ADAPTIVE_MATRIX+1] = { ^ Naccentr.c:357:93: note: (near initialization for 'AdaptiveDocSumMatrix') Naccentr.c: In function 'EntrezDocSumListGet': Naccentr.c:1409:14: warning: variable 'actual' set but not used [-Wunused-but-set-variable] Int2 actual; ^ rm -f libncbiNacc.a ar cru libncbiNacc.a Naccentr.o accutils.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libncbiNacc.a ../lib ranlib ../lib/libncbiNacc.a ./ln-if-absent accentr.c Caccentr.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" -D_NET_AND_CD_ Caccentr.c Caccentr.c:357:93: warning: missing braces around initializer [-Wmissing-braces] Uint1 AdaptiveDocSumMatrix[MAX_CHUNK_IN_ADAPTIVE_MATRIX+1][MAX_SECS_IN_ADAPTIVE_MATRIX+1] = { ^ Caccentr.c:357:93: note: (near initialization for 'AdaptiveDocSumMatrix') Caccentr.c: In function 'EntrezDocSumListGet': Caccentr.c:1409:14: warning: variable 'actual' set but not used [-Wunused-but-set-variable] Int2 actual; ^ rm -f libncbiCacc.a ar cru libncbiCacc.a Caccentr.o accutils.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libncbiCacc.a ../lib ranlib ../lib/libncbiCacc.a gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" netcnfg.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" trmlst.c trmlst.c: In function 'FetchFromTermList': trmlst.c:1048:16: warning: variable 'numRead' set but not used [-Wunused-but-set-variable] Int2 numRead; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" docsum.c docsum.c: In function 'ImportDocSumForm': docsum.c:2298:21: warning: unused variable 'sephead' [-Wunused-variable] SeqEntryPtr sephead = NULL; ^ docsum.c:2296:21: warning: unused variable 'is_na' [-Wunused-variable] Boolean is_na = TRUE; ^ docsum.c:2290:21: warning: unused variable 'choice' [-Wunused-variable] Uint1 choice = 0; ^ docsum.c: In function 'SaveDocsumProject': docsum.c:3042:16: warning: variable 'sfp' set but not used [-Wunused-but-set-variable] SummFormPtr sfp; ^ docsum.c: At top level: docsum.c:439:15: warning: 'checkmark' defined but not used [-Wunused-variable] static Uint1 checkmark [] = { ^ docsum.c: In function 'LaunchStructureViewer': docsum.c:4192:3: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ docsum.c: In function 'FetchLocalBioseq': docsum.c:1223:6: warning: 'str' may be used uninitialized in this function [-Wmaybe-uninitialized] if (str == NULL) return failed; ^ rm -f libvibnet.a ar cru libvibnet.a netcnfg.o trmlst.o docsum.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libvibnet.a ../lib ranlib ../lib/libvibnet.a gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" -DNLM_OBJ_INCL=\"mapmla.h\" objmla.c objmla.c: In function 'MlaRequestFree': objmla.c:49:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmla.c: In function 'MlaRequestAsnRead': objmla.c:96:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmla.c: In function 'TitleMsgAsnRead': objmla.c:447:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmla.c:446:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmla.c: In function 'TitleMsgListAsnRead': objmla.c:612:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmla.c: In function 'MlaRequestAsnRead': objmla.c:249:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmla.c: In function 'MlaBackAsnRead': objmla.c:902:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" medarch.c medarch.c:710:8: warning: 's_MedArchPubSetEntryGetPmId' defined but not used [-Wunused-function] /*FCN*/s_MedArchPubSetEntryGetPmId ( ^ medarch.c:758:8: warning: 's_MedArchPubSetEntryGetUid' defined but not used [-Wunused-function] /*FCN*/s_MedArchPubSetEntryGetUid ( ^ medarch.c: In function 'MedArchPubSetCreate': medarch.c:1693:9: warning: 'pubSetEAtp' may be used uninitialized in this function [-Wmaybe-uninitialized] MedlineEntryAsnWrite (lastmep, aip, pubSetEAtp); ^ In file included from ../include/ni_types.h:85:0, from ../include/ncbinet.h:84, from medarch.c:122: ../include/asn.h:465:27: warning: 'pubSetAtp' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AsnEndStruct(x,y) AsnCloseStruct(x, y, NULL) ^ medarch.c:1625:16: note: 'pubSetAtp' was declared here AsnTypePtr pubSetAtp; ^ medarch.c:1655:5: warning: 'startAtp' may be used uninitialized in this function [-Wmaybe-uninitialized] AsnWrite (aip, startAtp, NULL); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" medutil.c rm -f libncbimla.a ar cru libncbimla.a objmla.o medarch.o medutil.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libncbimla.a ../lib ranlib ../lib/libncbimla.a gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" objblst3.c objblst3.c: In function 'BlastSearchAsnRead': objblst3.c:91:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:90:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'BlastRequestFree': objblst3.c:287:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objblst3.c: In function 'BlastRequestAsnRead': objblst3.c:337:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'Cutoff2_cutoff2Free': objblst3.c:999:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objblst3.c: In function 'BlastParametersAsnRead': objblst3.c:1027:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c: In function 'Cutoff2_cutoff2AsnRead': objblst3.c:1422:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'Cutoff_cutoffAsnRead': objblst3.c:1788:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'Cutoff_cutoffFree': objblst3.c:1871:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objblst3.c: In function 'BlastMatrixAsnRead': objblst3.c:1936:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c: In function 'BlastDbinfoAsnRead': objblst3.c:2153:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:2152:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'BlastMaskAsnRead': objblst3.c:2357:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c: In function 'BlastKABlkAsnRead': objblst3.c:2517:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:2516:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'BlastErrorAsnRead': objblst3.c:2697:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:2696:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'BlastPhialignAsnRead': objblst3.c:2861:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c: In function 'BlastDbinfoGetAsnRead': objblst3.c:3022:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:3021:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'BlastSeqIdAsnRead': objblst3.c:3187:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:3186:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'BlastSequenceAsnRead': objblst3.c:3364:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:3363:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'BlastPartsAsnRead': objblst3.c:3532:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c: In function 'BlastQueuedAsnRead': objblst3.c:3694:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:3693:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'BlastProgressAsnRead': objblst3.c:3846:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:3845:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'BlastDeflineAsnRead': objblst3.c:4000:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:3999:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'BlastVersionAsnRead': objblst3.c:4168:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:4167:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'MegaBlastHitAsnRead': objblst3.c:4335:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:4334:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'MegaBlastResultsAsnRead': objblst3.c:4546:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c: In function 'BlastRequestAsnRead': objblst3.c:430:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objblst3.c: In function 'BlastResponseAsnRead': objblst3.c:791:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objblst3.c: In function 'BlastParametersAsnRead': objblst3.c:1474:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objblst3.c:1421:10: note: 'choice' was declared here Uint1 choice; ^ objblst3.c:1840:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objblst3.c:1787:10: note: 'choice' was declared here Uint1 choice; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" netblap3.c netblap3.c: In function 'BlastNetBioseqFetchFunc': netblap3.c:1835:16: warning: variable 'omdp' set but not used [-Wunused-but-set-variable] OMUserDataPtr omdp; ^ netblap3.c: In function 'MegaBlastSeqLocNetCore': netblap3.c:2049:8: warning: variable 'entityID' set but not used [-Wunused-but-set-variable] Uint2 entityID = 0; ^ In file included from ../include/netblap3.h:134:0, from netblap3.c:364: netblap3.c: At top level: ../include/blstspc.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "blstspc.h23"; ^ ../include/blstspc.h:227:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^ ../include/blstspc.h:228:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/blstspc.h:229:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ In file included from ../include/netblap3.h:135:0, from netblap3.c:364: ../include/objblst3.h:180:35: warning: 'Cutoff2_cutoff2Free' declared 'static' but never defined [-Wunused-function] static Cutoff2_cutoff2Ptr LIBCALL Cutoff2_cutoff2Free PROTO ((Cutoff2_cutoff2Ptr )); ^ ../include/objblst3.h:181:35: warning: 'Cutoff2_cutoff2AsnRead' declared 'static' but never defined [-Wunused-function] static Cutoff2_cutoff2Ptr LIBCALL Cutoff2_cutoff2AsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:182:24: warning: 'Cutoff2_cutoff2AsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Cutoff2_cutoff2AsnWrite PROTO (( Cutoff2_cutoff2Ptr , AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:199:33: warning: 'Cutoff_cutoffFree' declared 'static' but never defined [-Wunused-function] static Cutoff_cutoffPtr LIBCALL Cutoff_cutoffFree PROTO ((Cutoff_cutoffPtr )); ^ ../include/objblst3.h:200:33: warning: 'Cutoff_cutoffAsnRead' declared 'static' but never defined [-Wunused-function] static Cutoff_cutoffPtr LIBCALL Cutoff_cutoffAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:201:24: warning: 'Cutoff_cutoffAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Cutoff_cutoffAsnWrite PROTO (( Cutoff_cutoffPtr , AsnIoPtr, AsnTypePtr)); ^ netblap3.c:430:1: warning: 'BlastSetErrorHook' defined but not used [-Wunused-function] BlastSetErrorHook(void) ^ netblap3.c:438:1: warning: 'BlastSetErrorStatus' defined but not used [-Wunused-function] BlastSetErrorStatus(Boolean status) ^ netblap3.c:445:1: warning: 'BlastGetErrorStatus' defined but not used [-Wunused-function] BlastGetErrorStatus(void) ^ netblap3.c:452:1: warning: 'BlastResetOldHook' defined but not used [-Wunused-function] BlastResetOldHook(void) ^ netblap3.c: In function 'BlastNetMatrixToBlastMatrix': netblap3.c:1212:35: warning: 'index2' may be used uninitialized in this function [-Wmaybe-uninitialized] if (index1 != blast_matrix->rows || index2 != blast_matrix->columns) ^ netblap3.c: In function 'TraditionalBlastReportEngine': netblap3.c:2570:11: warning: 'next_seqalign' may be used uninitialized in this function [-Wmaybe-uninitialized] while (seqalign) { ^ rm -f libnetblast.a ar cru libnetblast.a objblst3.o netblap3.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libnetblast.a ../lib ranlib ../lib/libnetblast.a gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" objtax1.c objtax1.c: In function 'Taxon1ReqFree': objtax1.c:49:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objtax1.c: In function 'Taxon1ReqAsnRead': objtax1.c:96:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objtax1.c: In function 'Taxon1InfoAsnRead': objtax1.c:467:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax1.c:466:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objtax1.c: In function 'Taxon1ErrorAsnRead': objtax1.c:1067:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax1.c:1066:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objtax1.c: In function 'Taxon1NameAsnRead': objtax1.c:1232:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax1.c:1231:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objtax1.c: In function 'Taxon1DataAsnRead': objtax1.c:1418:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax1.c:1417:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objtax1.c: In function 'Taxon2DataAsnRead': objtax1.c:1606:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax1.c: In function 'Taxon1ReqAsnRead': objtax1.c:265:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objtax1.c: In function 'Taxon1RespAsnRead': objtax1.c:868:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" taxutil.c taxutil.c: In function 'taxname_match': taxutil.c:66:24: warning: unused variable 'taxstr' [-Wunused-variable] CharPtr taxstr = NULL; ^ taxutil.c: In function 'get_lineage': taxutil.c:140:28: warning: 'onp' may be used uninitialized in this function [-Wmaybe-uninitialized] return Nlm_StringSave(onp->lineage); ^ taxutil.c: In function 'get_gcode': taxutil.c:160:23: warning: 'onp' may be used uninitialized in this function [-Wmaybe-uninitialized] gclp->genomic = onp->gcode; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" -c -o tc2dproc.o -DTAXSERVICE tc2proc.c tc2proc.c: In function 'getIdByOrgRef': tc2proc.c:407:17: warning: unused variable 'om_flag' [-Wunused-variable] Boolean om_flag= FALSE; ^ tc2proc.c: In function 'bldLineage': tc2proc.c:1095:10: warning: unused variable 'rank' [-Wunused-variable] Int2 rank= 0; ^ tc2proc.c: In function 'storedTaxId': tc2proc.c:2114:17: warning: unused variable 'object_id' [-Wunused-variable] ObjectIdPtr object_id; ^ tc2proc.c: In function 'tax1e_needUpdate': tc2proc.c:2181:13: warning: unused variable 'hit_name' [-Wunused-variable] CharPtr hit_name; ^ tc2proc.c:2180:13: warning: unused variable 'need_search_name' [-Wunused-variable] Boolean need_search_name= TRUE; ^ tc2proc.c:2179:9: warning: unused variable 'is_species' [-Wunused-variable] int is_species; ^ tc2proc.c:2176:19: warning: unused variable 'res' [-Wunused-variable] Taxon1DataPtr res; ^ tc2proc.c: At top level: tc2proc.c:403:13: warning: 'getIdByOrgRef' defined but not used [-Wunused-function] static Int4 getIdByOrgRef(CharPtr sname, OrgNamePtr orNm) ^ tc2proc.c: In function 'mergeOrgMod': tc2proc.c:1611:22: warning: 'lst' may be used uninitialized in this function [-Wmaybe-uninitialized] lst->next= dst= OrgModNew(); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" -c -o txcdproc.o -DTAXSERVICE txcdproc.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" parttree.c parttree.c: In function 'tax_ptree_addSubtree': parttree.c:392:13: warning: unused variable 'need_remove' [-Wunused-variable] Boolean need_remove= FALSE; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" taxcs.c gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" taxblast.c taxblast.c: In function 'TXBHtmlReportInternal': taxblast.c:1294:37: warning: variable 'linlines' set but not used [-Wunused-but-set-variable] Int2 numtaxa, numorgs, numhits, linlines, longname; ^ taxblast.c: At top level: taxblast.c:1902:13: warning: 'getTotalTaxIdCount' defined but not used [-Wunused-function] static Int4 getTotalTaxIdCount(TreeCursorPtr cursor) ^ taxblast.c: In function 'RDTaxLookupReset': taxblast.c:1985:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ taxblast.c: In function 'TXBGetTargetGi.isra.2': taxblast.c:501:12: warning: 'gi' may be used uninitialized in this function [-Wmaybe-uninitialized] return gi; ^ rm -f libncbitxc2.a ar cru libncbitxc2.a objtax1.o taxutil.o tc2dproc.o txcdproc.o parttree.o taxcs.o taxblast.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libncbitxc2.a ../lib ranlib ../lib/libncbitxc2.a gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" id1gen.c id1gen.c: In function 'ID1serverRequestFree': id1gen.c:49:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ id1gen.c: In function 'ID1serverRequestAsnRead': id1gen.c:90:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ id1gen.c: In function 'ID1serverMaxcomplexAsnRead': id1gen.c:348:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ id1gen.c:347:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ id1gen.c: In function 'ID1SeqHistAsnRead': id1gen.c:530:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ id1gen.c:529:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ id1gen.c: In function 'ID1SeqEntryInfoAsnRead': id1gen.c:979:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ id1gen.c:978:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ id1gen.c: In function 'ID1blobInfoAsnRead': id1gen.c:1147:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ id1gen.c:1146:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ id1gen.c: In function 'ID1serverDebugAsnRead': id1gen.c:1368:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ id1gen.c: In function 'ID1serverBackAsnRead': id1gen.c:811:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ id1gen.c: In function 'ID1serverRequestAsnRead': id1gen.c:186:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" id1arch.c id1arch.c: In function 'ID1ArchSeqEntryGet': id1arch.c:173:7: warning: unused variable 'retval' [-Wunused-variable] Int4 retval = 0; ^ id1arch.c: In function 'ID1ArchGIGet': id1arch.c:486:10: warning: unused variable 'retval' [-Wunused-variable] Int4 retval = 0; ^ id1arch.c: In function 'SeqHistPrintTable': id1arch.c:553:59: warning: '0' flag ignored with precision and '%d' gnu_printf format [-Wformat=] sprintf(repl_date,"%0.2d/%0.2d/%0.4d", ^ id1arch.c:553:59: warning: '0' flag ignored with precision and '%d' gnu_printf format [-Wformat=] id1arch.c:553:59: warning: '0' flag ignored with precision and '%d' gnu_printf format [-Wformat=] id1arch.c:563:36: warning: spurious trailing '%' in format [-Wformat=] fprintf(fp,"%-20d%-20s%",old_gi,repl_date); ^ gcc -c -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" accid1.c accid1.c: In function 's_ID1BioseqFetchFunc': accid1.c:262:9: warning: unused variable 'retcode' [-Wunused-variable] Int2 retcode=0; ^ rm -f libncbiid1.a ar cru libncbiid1.a id1gen.o id1arch.o accid1.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libncbiid1.a ../lib ranlib ../lib/libncbiid1.a mkdir ../shlib rm -f ../shlib/*.a ln ../lib/*.a ../shlib cd ../shlib; make -f ../make/makeshlb.unx `ls *.a | sed "s/\.a/.so.6/"` SH1="gcc -o" SH2="-shared *.o" make[3]: Entering directory '/«PKGBUILDDIR»/shlib' gcc -shared -Wl,-soname=libblastcompadj.so.6 -o libblastcompadj.so.6.1.20120620 \ -Wl,--whole-archive libblastcompadj.a -Wl,--no-whole-archive -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now \ -lm gcc -shared -Wl,-soname=libncbi.so.6 -o libncbi.so.6.1.20120620 \ -Wl,--whole-archive libncbi.a -Wl,--no-whole-archive -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now \ -lm libncbi.a(ncbifile.o): In function `Nlm_TmpNam': /«PKGBUILDDIR»/build/ncbifile.c:1209: warning: the use of `tempnam' is dangerous, better use `mkstemp' gcc -shared -Wl,-soname=libblast.so.6 -o libblast.so.6.1.20120620 \ -Wl,--whole-archive libblast.a -Wl,--no-whole-archive -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now \ libblastcompadj.so.6.1.20120620 libncbi.so.6.1.20120620 -lm ln -s libblast.so.6.1.20120620 libblast.so.6 ln -s libblast.so.6.1.20120620 libblast.so gcc -shared -Wl,-soname=libncbiobj.so.6 -o libncbiobj.so.6.1.20120620 \ -Wl,--whole-archive libncbiobj.a -Wl,--no-whole-archive -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now \ libncbi.so.6.1.20120620 -lm gcc -shared -Wl,-soname=libncbitool.so.6 -o libncbitool.so.6.1.20120620 \ -Wl,--whole-archive libncbitool.a -Wl,--no-whole-archive -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now \ libblastcompadj.so.6.1.20120620 libncbiobj.so.6.1.20120620 libncbi.so.6.1.20120620 -lm gcc -shared -Wl,-soname=libblastapi.so.6 -o libblastapi.so.6.1.20120620 \ -Wl,--whole-archive libblastapi.a -Wl,--no-whole-archive -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now \ libblast.so.6.1.20120620 libncbitool.so.6.1.20120620 libncbiobj.so.6.1.20120620 libncbi.so.6.1.20120620 -lm ln -s libblastapi.so.6.1.20120620 libblastapi.so.6 ln -s libblastapi.so.6.1.20120620 libblastapi.so ln -s libblastcompadj.so.6.1.20120620 libblastcompadj.so.6 ln -s libblastcompadj.so.6.1.20120620 libblastcompadj.so gcc -shared -Wl,-soname=libnetcli.so.6 -o libnetcli.so.6.1.20120620 \ -Wl,--whole-archive libnetcli.a -Wl,--no-whole-archive -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now \ libncbi.so.6.1.20120620 gcc -shared -Wl,-soname=libncbiid1.so.6 -o libncbiid1.so.6.1.20120620 \ -Wl,--whole-archive libncbiid1.a -Wl,--no-whole-archive -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now \ libncbiobj.so.6.1.20120620 libnetcli.so.6.1.20120620 libncbi.so.6.1.20120620 gcc -shared -Wl,-soname=libncbimmdb.so.6 -o libncbimmdb.so.6.1.20120620 \ -Wl,--whole-archive libncbimmdb.a -Wl,--no-whole-archive -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now \ libncbiid1.so.6.1.20120620 libncbitool.so.6.1.20120620 libncbiobj.so.6.1.20120620 libncbi.so.6.1.20120620 -lm gcc -shared -Wl,-soname=libvibrantOGL.so.6 -o libvibrantOGL.so.6.1.20120620 \ -Wl,--whole-archive libvibrantOGL.a -Wl,--no-whole-archive -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now \ libncbiobj.so.6.1.20120620 libncbi.so.6.1.20120620 -lGLU -lGL -lpng -lXm -lXmu -lXt -lX11 -lm gcc -shared -Wl,-soname=libncbidesk.so.6 -o libncbidesk.so.6.1.20120620 \ -Wl,--whole-archive libncbidesk.a -Wl,--no-whole-archive -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now \ libblastapi.so.6.1.20120620 libncbimmdb.so.6.1.20120620 libncbitool.so.6.1.20120620 libvibrantOGL.so.6.1.20120620 libncbiobj.so.6.1.20120620 libncbi.so.6.1.20120620 -lm gcc -shared -Wl,-soname=libddvlib.so.6 -o libddvlib.so.6.1.20120620 \ -Wl,--whole-archive libddvlib.a -Wl,--no-whole-archive -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now \ libncbidesk.so.6.1.20120620 libvibrantOGL.so.6.1.20120620 libncbitool.so.6.1.20120620 libncbiobj.so.6.1.20120620 libncbi.so.6.1.20120620 ln -s libddvlib.so.6.1.20120620 libddvlib.so.6 ln -s libddvlib.so.6.1.20120620 libddvlib.so ln -s libncbi.so.6.1.20120620 libncbi.so.6 ln -s libncbi.so.6.1.20120620 libncbi.so ln -s libncbiNacc.so.6.1.20120620 libncbiCacc.so.6.1.20120620 ln -s libncbiCacc.so.6.1.20120620 libncbiCacc.so.6 ln -s libncbiCacc.so.6.1.20120620 libncbiCacc.so gcc -shared -Wl,-soname=libncbicdr.so.6 -o libncbicdr.so.6.1.20120620 \ -Wl,--whole-archive libncbicdr.a -Wl,--no-whole-archive -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now \ libncbiobj.so.6.1.20120620 libncbi.so.6.1.20120620 gcc -shared -Wl,-soname=libncbiNacc.so.6 -o libncbiNacc.so.6.1.20120620 \ -Wl,--whole-archive libncbiNacc.a -Wl,--no-whole-archive -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now \ libncbicdr.so.6.1.20120620 libnetentr.a libnetcli.so.6.1.20120620 libncbiobj.so.6.1.20120620 libncbi.so.6.1.20120620 -lm ln -s libncbiNacc.so.6.1.20120620 libncbiNacc.so.6 ln -s libncbiNacc.so.6.1.20120620 libncbiNacc.so ln -s libncbiNacc.so.6.1.20120620 libncbiacc.so.6.1.20120620 ln -s libncbiacc.so.6.1.20120620 libncbiacc.so.6 ln -s libncbiacc.so.6.1.20120620 libncbiacc.so ln -s libncbicdr.so.6.1.20120620 libncbicdr.so.6 ln -s libncbicdr.so.6.1.20120620 libncbicdr.so ln -s libncbicn3dOGL.so.6.1.20120620 libncbicn3d.so.6.1.20120620 ln -s libncbicn3d.so.6.1.20120620 libncbicn3d.so.6 ln -s libncbicn3d.so.6.1.20120620 libncbicn3d.so gcc -shared -Wl,-soname=libncbicn3dOGL.so.6 -o libncbicn3dOGL.so.6.1.20120620 \ -Wl,--whole-archive libncbicn3dOGL.a -Wl,--no-whole-archive -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now \ libncbiNacc.so.6.1.20120620 libddvlib.so.6.1.20120620 libncbidesk.so.6.1.20120620 libncbimmdb.so.6.1.20120620 libncbitool.so.6.1.20120620 libncbiobj.so.6.1.20120620 libncbi.so.6.1.20120620 libvibrantOGL.so.6.1.20120620 -lm ln -s libncbicn3dOGL.so.6.1.20120620 libncbicn3dOGL.so.6 ln -s libncbicn3dOGL.so.6.1.20120620 libncbicn3dOGL.so ln -s libncbidesk.so.6.1.20120620 libncbidesk.so.6 ln -s libncbidesk.so.6.1.20120620 libncbidesk.so ln -s libncbiid1.so.6.1.20120620 libncbiid1.so.6 ln -s libncbiid1.so.6.1.20120620 libncbiid1.so gcc -shared -Wl,-soname=libncbimla.so.6 -o libncbimla.so.6.1.20120620 \ -Wl,--whole-archive libncbimla.a -Wl,--no-whole-archive -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now \ libncbiobj.so.6.1.20120620 libnetcli.so.6.1.20120620 libncbi.so.6.1.20120620 ln -s libncbimla.so.6.1.20120620 libncbimla.so.6 ln -s libncbimla.so.6.1.20120620 libncbimla.so ln -s libncbimmdb.so.6.1.20120620 libncbimmdb.so.6 ln -s libncbimmdb.so.6.1.20120620 libncbimmdb.so ln -s libncbiobj.so.6.1.20120620 libncbiobj.so.6 ln -s libncbiobj.so.6.1.20120620 libncbiobj.so ln -s libncbitool.so.6.1.20120620 libncbitool.so.6 ln -s libncbitool.so.6.1.20120620 libncbitool.so gcc -shared -Wl,-soname=libncbitxc2.so.6 -o libncbitxc2.so.6.1.20120620 \ -Wl,--whole-archive libncbitxc2.a -Wl,--no-whole-archive -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now \ libncbitool.so.6.1.20120620 libnetcli.so.6.1.20120620 libncbiobj.so.6.1.20120620 libncbi.so.6.1.20120620 -lm ln -s libncbitxc2.so.6.1.20120620 libncbitxc2.so.6 ln -s libncbitxc2.so.6.1.20120620 libncbitxc2.so gcc -shared -Wl,-soname=libnetblast.so.6 -o libnetblast.so.6.1.20120620 \ -Wl,--whole-archive libnetblast.a -Wl,--no-whole-archive -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now \ libncbitool.so.6.1.20120620 libnetcli.so.6.1.20120620 libncbiobj.so.6.1.20120620 libncbi.so.6.1.20120620 ln -s libnetblast.so.6.1.20120620 libnetblast.so.6 ln -s libnetblast.so.6.1.20120620 libnetblast.so ln -s libnetcli.so.6.1.20120620 libnetcli.so.6 ln -s libnetcli.so.6.1.20120620 libnetcli.so ln -s libncbiNacc.so.6.1.20120620 libnetentr.so.6.1.20120620 ln -s libnetentr.so.6.1.20120620 libnetentr.so.6 ln -s libnetentr.so.6.1.20120620 libnetentr.so gcc -shared -Wl,-soname=libvibgif.so.6 -o libvibgif.so.6.1.20120620 \ -Wl,--whole-archive libvibgif.a -Wl,--no-whole-archive -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now \ libncbi.so.6.1.20120620 -lm ln -s libvibgif.so.6.1.20120620 libvibgif.so.6 ln -s libvibgif.so.6.1.20120620 libvibgif.so gcc -shared -Wl,-soname=libvibnet.so.6 -o libvibnet.so.6.1.20120620 \ -Wl,--whole-archive libvibnet.a -Wl,--no-whole-archive -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now \ libncbiNacc.so.6.1.20120620 libncbidesk.so.6.1.20120620 libncbimmdb.so.6.1.20120620 libvibrantOGL.so.6.1.20120620 libncbitool.so.6.1.20120620 libncbicdr.so.6.1.20120620 libncbiobj.so.6.1.20120620 libncbi.so.6.1.20120620 ln -s libvibnet.so.6.1.20120620 libvibnet.so.6 ln -s libvibnet.so.6.1.20120620 libvibnet.so ln -s libvibrantOGL.so.6.1.20120620 libvibrant.so.6.1.20120620 ln -s libvibrant.so.6.1.20120620 libvibrant.so.6 ln -s libvibrant.so.6.1.20120620 libvibrant.so ln -s libvibrantOGL.so.6.1.20120620 libvibrantOGL.so.6 ln -s libvibrantOGL.so.6.1.20120620 libvibrantOGL.so make[3]: Leaving directory '/«PKGBUILDDIR»/shlib' rm -f ../shlib/*.a make[2]: Leaving directory '/«PKGBUILDDIR»/build' /usr/bin/make -C build clean make[2]: Entering directory '/«PKGBUILDDIR»/build' rm -f *.[acho] *.glo make[2]: Leaving directory '/«PKGBUILDDIR»/build' /usr/bin/make -C build all LCL=lnx CC="gcc " LDFLAGS1="-g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='\"Dec 10 2015\"' -DBUILD_TIME='\"06:19:59\"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now" RAN="ranlib" OTHERLIBS="-lm" VIBLIBS="-lXm -lXmu -lXt -lX11 " VIBFLAG="-DWIN_MOTIF" NCBI_LINKINGLIBDIR="../shlib" \ CFLAGS1="-c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='\"Dec 10 2015\"' -DBUILD_TIME='\"06:19:59\"' -D_PNG" \ LIB4=libvibrant.a LIB20=libncbidesk.a LIB28=libvibgif.a \ LIB30=libncbicn3d.a LIB45=libddvlib.a LIB400=libvibrantOGL.a LIB3000=libncbicn3dOGL.a make[2]: Entering directory '/«PKGBUILDDIR»/build' chmod -R ug+rw,o+r . ../include ./ln-if-absent ../corelib/tsprintf.h ../include ./ln-if-absent ../corelib/gifgen.h ../include ./ln-if-absent ../corelib/ncbi*.h ../include ./ln-if-absent ../corelib/tree*.h ../include ./ln-if-absent ../corelib/regex.h ../include ./ln-if-absent ../corelib/matrix.h ../include ./ln-if-absent ../corelib/binary.h ../include ./ln-if-absent ../corelib/morefile/*.h ../include ./ln-if-absent ../corelib/morefile/*.c . ./ln-if-absent ../link/macmet/MoreCarbonAccessors.h ../include ./ln-if-absent ../corelib/ncbilcl.lnx ../include/ncbilcl.h ./ln-if-absent ../corelib/*.c . ./ln-if-absent ../corelib/core*.h . ./ln-if-absent ../asnlib/*.h . rm -f ../include/asn.h mv asn.h ../include ./ln-if-absent ../asnlib/*.c . ./ln-if-absent ../connect/*.c . ./ln-if-absent ../connect/ncbi_ansi_ext.h . ./ln-if-absent ../connect/ncbi_assert.h . ./ln-if-absent ../connect/ncbi_priv.h . ./ln-if-absent ../connect/ncbi_comm.h . ./ln-if-absent ../connect/ncbi_config.h . ./ln-if-absent ../connect/ncbi_connssl.h . ./ln-if-absent ../connect/ncbi_lbsm.h . makefile:679: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../connect/ncbi_lbsm_ipc.h . makefile:679: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../connect/ncbi_host_infop.h . ./ln-if-absent ../connect/ncbi_server_infop.h . ./ln-if-absent ../connect/ncbi_servicep.h . ./ln-if-absent ../connect/ncbi_socketp.h . ./ln-if-absent ../connect/ncbi_dispd.h . ./ln-if-absent ../connect/ncbi_lbsmd.h . ./ln-if-absent ../connect/ncbi_local.h . ./ln-if-absent ../connect/ncbi_lb.h . ./ln-if-absent ../connect/ncbi_version.h . ./ln-if-absent ../connect/ncbi_base64.h . ./ln-if-absent ../connect/urlquery.h ../include mkdir ../include/connect mkdir: cannot create directory '../include/connect': File exists makefile:679: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) chmod ug+rw,o+r ../include/connect cp -fp ../connect/ncbi_*.h ../connect/connect_export.h ../include/connect ./ln-if-absent ../util/tables/*.c . mkdir -p ../include/util/tables cp -fp ../util/tables/*.h ../include/util/tables ./ln-if-absent ../util/creaders/*.c . mkdir -p ../include/util/creaders cp -fp ../util/creaders/*.h ../include/util/creaders ./ln-if-absent ../ctools/*.c . ./ln-if-absent ../ctools/*.h . mkdir ../include/ctools mkdir: cannot create directory '../include/ctools': File exists makefile:679: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) chmod ug+rw,o+r ../include/ctools cp -fp ../ctools/*.h ../include/ctools ./ln-if-absent ../object/*.c . ./ln-if-absent ../object/*.h ../include ./ln-if-absent ../access/*.c . ./ln-if-absent ../access/*.h ../include ./ln-if-absent ../asnstat/*.h ../include ./ln-if-absent ../api/*.h ../include ./ln-if-absent ../api/*.c . ./ln-if-absent ../api/*.inc . ./ln-if-absent ../cdromlib/*.h ../include ./ln-if-absent ../cdromlib/*.c . ./ln-if-absent ../vibrant/*.h ../include ./ln-if-absent ../vibrant/*.c . ./ln-if-absent ../desktop/*.h ../include ./ln-if-absent ../desktop/*.c . ./ln-if-absent ../biostruc/*.h ../include ./ln-if-absent ../biostruc/*.c . ./ln-if-absent ../biostruc/cdd/*.h ../include ./ln-if-absent ../biostruc/cdd/*.c . ./ln-if-absent ../biostruc/cn3d/*.h ../include ./ln-if-absent ../biostruc/cn3d/*.c . ./ln-if-absent ../tools/*.h ../include ./ln-if-absent ../tools/*.c . ./ln-if-absent ../cn3d/*.h ../include ./ln-if-absent ../cn3d/*.c . ./ln-if-absent ../gif/*.c . ./ln-if-absent ../gif/*.h ../include ./ln-if-absent ../ddv/*.h ../include ./ln-if-absent ../ddv/*.c . ./ln-if-absent ../regexp/*.c . ./ln-if-absent ../regexp/*.h ../include ./ln-if-absent ../internal/compr/*.c . set: No match. make[2]: [copy] Error 1 (ignored) makefile:679: recipe for target 'copy' failed ./ln-if-absent ../internal/compr/*.h ../include set: No match. make[2]: [copy] Error 1 (ignored) makefile:679: recipe for target 'copy' failed ./ln-if-absent ../internal/libindx/*.c . set: No match. make[2]: [copy] Error 1 (ignored) makefile:679: recipe for target 'copy' failed ./ln-if-absent ../internal/libindx/*.h ../include set: No match. make[2]: [copy] Error 1 (ignored) makefile:679: recipe for target 'copy' failed ./ln-if-absent ../internal/libpars/*.c . set: No match. make[2]: [copy] Error 1 (ignored) makefile:679: recipe for target 'copy' failed ./ln-if-absent ../internal/libpars/*.h ../include set: No match. make[2]: [copy] Error 1 (ignored) makefile:679: recipe for target 'copy' failed ./ln-if-absent ../internal/ideogram/*.c . set: No match. make[2]: [copy] Error 1 (ignored) makefile:679: recipe for target 'copy' failed ./ln-if-absent ../internal/ideogram/*.dat . set: No match. make[2]: [copy] Error 1 (ignored) makefile:679: recipe for target 'copy' failed ./ln-if-absent ../internal/ideogram/ideochr*.h ../include set: No match. make[2]: [copy] Error 1 (ignored) makefile:679: recipe for target 'copy' failed ./ln-if-absent ../internal/ideogram/ideoorgs.h . make[2]: [copy] Error 1 (ignored) makefile:679: recipe for target 'copy' failed ./ln-if-absent ../internal/ccap/*.c . set: No match. make[2]: [copy] Error 1 (ignored) makefile:679: recipe for target 'copy' failed ./ln-if-absent ../internal/ccap/*.dat . set: No match. make[2]: [copy] Error 1 (ignored) makefile:679: recipe for target 'copy' failed ./ln-if-absent ../internal/ccap/*.h ../include set: No match. make[2]: [copy] Error 1 (ignored) makefile:679: recipe for target 'copy' failed ./ln-if-absent ncbidraw.c ncbidrwg.c ./ln-if-absent ncbithr.c ncbithrs.c ./ln-if-absent ../network/nsclilib/*.h ../include ./ln-if-absent ../network/blast3/client/*.h ../include ./ln-if-absent ../network/id1arch/*.h ../include ./ln-if-absent ../network/id2arch/*.h ../include mkdir -p ../include/algo/blast/core ./ln-if-absent ../algo/blast/core/*.c . ./ln-if-absent ../algo/blast/core/*.h . ./ln-if-absent ../algo/blast/core/*.inl . cp -fp ../algo/blast/core/*.h ../include/algo/blast/core mkdir -p ../include/algo/blast/composition_adjustment ./ln-if-absent ../algo/blast/composition_adjustment/*.c . cp -fp ../algo/blast/composition_adjustment/*.h \ ../include/algo/blast/composition_adjustment mkdir -p ../include/algo/blast/api ./ln-if-absent ../algo/blast/api/*.c . cp -fp ../algo/blast/api/*.h ../include/algo/blast/api chmod -R ug+rw,o+r . echo Waiting...go Waiting...go gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbithr.c ncbithr.c: In function 's_TlsDestroyAll': ncbithr.c:2529:11: warning: variable 'err_code' set but not used [-Wunused-but-set-variable] int err_code = 0; ^ cp -p ncbithr.o ../lib gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbimain.c ncbimain.c:82:1: warning: return type defaults to 'int' [-Wimplicit-int] main(int argc, char *argv[]) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbibs.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF wwwutils.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbierr.c In file included from /usr/include/string.h:639:0, from ../include/ncbilcl.h:156, from ../include/ncbi.h:57, from corepriv.h:85, from ncbierr.c:235: In function 'strncat', inlined from 'ErrMsgRoot_fopen.isra.1' at ncbierr.c:955:13: /usr/include/x86_64-linux-gnu/bits/string3.h:156:10: warning: call to __builtin___strncat_chk might overflow destination buffer return __builtin___strncat_chk (__dest, __src, __len, __bos (__dest)); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbienv.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbifile.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbiprop.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbimath.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbimem.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbimisc.c ncbimisc.c: In function 'Nlm_MD5Final': ncbimisc.c:2250:26: warning: argument to 'sizeof' in 'memset' call is the same expression as the destination; did you mean to dereference it? [-Wsizeof-pointer-memaccess] memset(ctx, 0, sizeof(ctx)); /* In case it's sensitive */ ^ ncbimisc.c: In function 'XmlPathSuffixIs': ncbimisc.c:2947:58: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if (StringHasNoText (parentFilter) || parent != NULL && StringICmp (parent->name, parentFilter) == 0) { ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbimsg.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbistr.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbisgml.c In file included from /usr/include/string.h:639:0, from ../include/ncbilcl.h:156, from ../include/ncbi.h:57, from ncbisgml.c:80: In function 'strncat', inlined from 'Nlm_Sgml2Ascii' at ncbisgml.c:284:5: /usr/include/x86_64-linux-gnu/bits/string3.h:156:10: warning: call to __builtin___strncat_chk might overflow destination buffer return __builtin___strncat_chk (__dest, __src, __len, __bos (__dest)); ^ In function 'strncat', inlined from 'Nlm_Sgml2Ascii' at ncbisgml.c:265:5: /usr/include/x86_64-linux-gnu/bits/string3.h:156:10: warning: call to __builtin___strncat_chk might overflow destination buffer return __builtin___strncat_chk (__dest, __src, __len, __bos (__dest)); ^ In function 'strncat', inlined from 'Nlm_Sgml2AsciiLen' at ncbisgml.c:354:5: /usr/include/x86_64-linux-gnu/bits/string3.h:156:10: warning: call to __builtin___strncat_chk might overflow destination buffer return __builtin___strncat_chk (__dest, __src, __len, __bos (__dest)); ^ In function 'strncat', inlined from 'Nlm_Sgml2AsciiLen' at ncbisgml.c:340:5: /usr/include/x86_64-linux-gnu/bits/string3.h:156:10: warning: call to __builtin___strncat_chk might overflow destination buffer return __builtin___strncat_chk (__dest, __src, __len, __bos (__dest)); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbitime.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbilang.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF asnbufo.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF asndebin.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF asnenbin.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF asngen.c asngen.c: In function 'AsnFindNthPieceOfObject': asngen.c:540:16: warning: variable 'aeop' set but not used [-Wunused-but-set-variable] AsnExpOptPtr aeop; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF asnio.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF asnlex.c asnlex.c:1322:13: warning: 'AsnLexWordUTF8' defined but not used [-Wunused-function] static Int2 AsnLexWordUTF8 (AsnIoPtr aip) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF asnlext.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF asnout.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF asnprint.c asnprint.c: In function 'GetXMLModuleName': asnprint.c:102:2: warning: statement with no effect [-Wunused-value] for (currmod; currmod != NULL; currmod = currmod->next) ^ asnprint.c: In function 'AsnPrintCloseStruct': asnprint.c:1771:7: warning: variable 'isa' set but not used [-Wunused-but-set-variable] Int2 isa; ^ asnprint.c: In function 'AsnPrintModuleXMLInc': asnprint.c:2092:10: warning: variable 'ptr' set but not used [-Wunused-but-set-variable] CharPtr ptr; ^ asnprint.c: In function 'AsnPrintTreeType': asnprint.c:2572:8: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] ptr = (Uint4)(atp); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF asntypes.c asntypes.c: In function 'AsnTreeLoad': asntypes.c:1274:5: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fp, "%d %d %d", &numval, &numtype, &nummod); ^ asntypes.c:1288:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fp, "%d %s %ld %lf %d", &isa, name, &intvalue, &realvalue, &next); ^ asntypes.c:1301:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fp, "%d %s %d %d %d %d %d %d %d %d %d %d %d", ^ asntypes.c:1333:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fp, "%s %s %d %d", name, fname, &type, &next); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF asngenob.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF gifgen.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF togif.c togif.c: In function 'gdImageCreateFromGif': togif.c:961:12: warning: variable 'AspectRatio' set but not used [-Wunused-but-set-variable] int AspectRatio; ^ togif.c:960:12: warning: variable 'Background' set but not used [-Wunused-but-set-variable] int Background; ^ togif.c:959:12: warning: variable 'ColorResolution' set but not used [-Wunused-but-set-variable] int ColorResolution; ^ gcc -DNCBI_NOTHREADS_AVAIL -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbithrs.c ncbithrs.c: In function 's_TlsDestroyAll': ncbithrs.c:2529:11: warning: unused variable 'err_code' [-Wunused-variable] int err_code = 0; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -DHAVE_STRING_H -DREGEX_MALLOC regex.c regex.c: In function 're_match_2': regex.c:3762:31: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] if ((int) old_regend[r] >= (int) regstart[r]) ^ regex.c:3762:54: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] if ((int) old_regend[r] >= (int) regstart[r]) ^ regex.c:2342:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item ^ regex.c:2421:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' PUSH_FAILURE_ITEM (lowest_active_reg); \ ^ regex.c:3768:19: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (p1 + mcnt, d, -2); ^ regex.c:2342:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item ^ regex.c:2424:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' PUSH_FAILURE_ITEM (highest_active_reg); \ ^ regex.c:3768:19: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (p1 + mcnt, d, -2); ^ regex.c:2368:11: warning: unused variable 'destination' [-Wunused-variable] char *destination; \ ^ regex.c:3768:19: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (p1 + mcnt, d, -2); ^ regex.c:2342:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item ^ regex.c:2421:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' PUSH_FAILURE_ITEM (lowest_active_reg); \ ^ regex.c:3915:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (p + mcnt, NULL, -2); ^ regex.c:2342:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item ^ regex.c:2424:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' PUSH_FAILURE_ITEM (highest_active_reg); \ ^ regex.c:3915:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (p + mcnt, NULL, -2); ^ regex.c:2368:11: warning: unused variable 'destination' [-Wunused-variable] char *destination; \ ^ regex.c:3915:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (p + mcnt, NULL, -2); ^ regex.c:2342:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item ^ regex.c:2421:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' PUSH_FAILURE_ITEM (lowest_active_reg); \ ^ regex.c:3968:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (p + mcnt, d, -2); ^ regex.c:2342:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item ^ regex.c:2424:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' PUSH_FAILURE_ITEM (highest_active_reg); \ ^ regex.c:3968:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (p + mcnt, d, -2); ^ regex.c:2368:11: warning: unused variable 'destination' [-Wunused-variable] char *destination; \ ^ regex.c:3968:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (p + mcnt, d, -2); ^ regex.c:2509:14: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] high_reg = (unsigned) POP_FAILURE_ITEM (); \ ^ regex.c:4074:13: note: in expansion of macro 'POP_FAILURE_POINT' POP_FAILURE_POINT (sdummy, pdummy, ^ regex.c:2512:13: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] low_reg = (unsigned) POP_FAILURE_ITEM (); \ ^ regex.c:4074:13: note: in expansion of macro 'POP_FAILURE_POINT' POP_FAILURE_POINT (sdummy, pdummy, ^ regex.c:4071:25: warning: variable 'sdummy' set but not used [-Wunused-but-set-variable] const char *sdummy; ^ regex.c:4070:28: warning: variable 'pdummy' set but not used [-Wunused-but-set-variable] unsigned char *pdummy; ^ regex.c:2342:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item ^ regex.c:2421:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' PUSH_FAILURE_ITEM (lowest_active_reg); \ ^ regex.c:4107:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (0, 0, -2); ^ regex.c:2342:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item ^ regex.c:2424:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' PUSH_FAILURE_ITEM (highest_active_reg); \ ^ regex.c:4107:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (0, 0, -2); ^ regex.c:2368:11: warning: unused variable 'destination' [-Wunused-variable] char *destination; \ ^ regex.c:4107:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (0, 0, -2); ^ regex.c:2342:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item ^ regex.c:2421:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' PUSH_FAILURE_ITEM (lowest_active_reg); \ ^ regex.c:4120:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (0, 0, -2); ^ regex.c:2342:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item ^ regex.c:2424:5: note: in expansion of macro 'PUSH_FAILURE_ITEM' PUSH_FAILURE_ITEM (highest_active_reg); \ ^ regex.c:4120:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (0, 0, -2); ^ regex.c:2368:11: warning: unused variable 'destination' [-Wunused-variable] char *destination; \ ^ regex.c:4120:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (0, 0, -2); ^ regex.c:2509:14: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] high_reg = (unsigned) POP_FAILURE_ITEM (); \ ^ regex.c:4288:11: note: in expansion of macro 'POP_FAILURE_POINT' POP_FAILURE_POINT (d, p, ^ regex.c:2512:13: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] low_reg = (unsigned) POP_FAILURE_ITEM (); \ ^ regex.c:4288:11: note: in expansion of macro 'POP_FAILURE_POINT' POP_FAILURE_POINT (d, p, ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF tsprintf.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbiargs.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF tree.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF matrix.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbi_socket.c ncbi_socket.c: In function 's_GetLocalPort': ncbi_socket.c:386:50: warning: pointer targets in passing argument 3 of 'getsockname' differ in signedness [-Wpointer-sign] if (getsockname(fd, (struct sockaddr*) &sin, &sinlen) == 0 ^ In file included from ncbi_socketp.h:53:0, from ncbi_connssl.h:37, from ncbi_socket.c:38: /usr/include/x86_64-linux-gnu/sys/socket.h:127:12: note: expected 'socklen_t * restrict {aka unsigned int * restrict}' but argument is of type 'TSOCK_socklen_t * {aka int *}' extern int getsockname (int __fd, __SOCKADDR_ARG __addr, ^ ncbi_socket.c: In function 's_IsConnected': ncbi_socket.c:2435:73: warning: pointer targets in passing argument 5 of 'getsockopt' differ in signedness [-Wpointer-sign] if (getsockopt(sock->sock, SOL_SOCKET, SO_ERROR, (void*) error, &len) ^ In file included from ncbi_socketp.h:53:0, from ncbi_connssl.h:37, from ncbi_socket.c:38: /usr/include/x86_64-linux-gnu/sys/socket.h:219:12: note: expected 'socklen_t * restrict {aka unsigned int * restrict}' but argument is of type 'TSOCK_socklen_t * {aka int *}' extern int getsockopt (int __fd, int __level, int __optname, ^ ncbi_socket.c: In function 'TRIGGER_Create': ncbi_socket.c:4002:18: warning: unused variable 'x_id' [-Wunused-variable] unsigned int x_id = ++s_ID_Counter; ^ ncbi_socket.c: In function 's_CreateListening': ncbi_socket.c:4454:50: warning: pointer targets in passing argument 3 of 'getsockname' differ in signedness [-Wpointer-sign] x_error = getsockname(x_lsock, &addr.sa, &addrlen) != 0 ^ In file included from ncbi_socketp.h:53:0, from ncbi_connssl.h:37, from ncbi_socket.c:38: /usr/include/x86_64-linux-gnu/sys/socket.h:127:12: note: expected 'socklen_t * restrict {aka unsigned int * restrict}' but argument is of type 'TSOCK_socklen_t * {aka int *}' extern int getsockname (int __fd, __SOCKADDR_ARG __addr, ^ ncbi_socket.c: In function 's_Accept': ncbi_socket.c:4722:49: warning: pointer targets in passing argument 3 of 'accept' differ in signedness [-Wpointer-sign] if ((x_sock = accept(lsock->sock, &addr.sa, &addrlen)) == SOCK_INVALID) { ^ In file included from ncbi_socketp.h:53:0, from ncbi_connssl.h:37, from ncbi_socket.c:38: /usr/include/x86_64-linux-gnu/sys/socket.h:243:12: note: expected 'socklen_t * restrict {aka unsigned int * restrict}' but argument is of type 'TSOCK_socklen_t * {aka int *}' extern int accept (int __fd, __SOCKADDR_ARG __addr, ^ ncbi_socket.c: In function 's_CreateOnTop': ncbi_socket.c:5174:35: warning: pointer targets in passing argument 3 of 'getpeername' differ in signedness [-Wpointer-sign] if (getpeername(fd, &peer.sa, &peerlen) != 0) { ^ In file included from ncbi_socketp.h:53:0, from ncbi_connssl.h:37, from ncbi_socket.c:38: /usr/include/x86_64-linux-gnu/sys/socket.h:141:12: note: expected 'socklen_t * restrict {aka unsigned int * restrict}' but argument is of type 'TSOCK_socklen_t * {aka int *}' extern int getpeername (int __fd, __SOCKADDR_ARG __addr, ^ ncbi_socket.c:5210:43: warning: pointer targets in passing argument 3 of 'getsockname' differ in signedness [-Wpointer-sign] if (getsockname(fd, &peer.sa, &peerlen) != 0) ^ In file included from ncbi_socketp.h:53:0, from ncbi_connssl.h:37, from ncbi_socket.c:38: /usr/include/x86_64-linux-gnu/sys/socket.h:127:12: note: expected 'socklen_t * restrict {aka unsigned int * restrict}' but argument is of type 'TSOCK_socklen_t * {aka int *}' extern int getsockname (int __fd, __SOCKADDR_ARG __addr, ^ ncbi_socket.c: In function 'DSOCK_Bind': ncbi_socket.c:6609:53: warning: pointer targets in passing argument 3 of 'getsockname' differ in signedness [-Wpointer-sign] x_error = getsockname(sock->sock, &addr.sa, &addrlen) != 0 ^ In file included from ncbi_socketp.h:53:0, from ncbi_connssl.h:37, from ncbi_socket.c:38: /usr/include/x86_64-linux-gnu/sys/socket.h:127:12: note: expected 'socklen_t * restrict {aka unsigned int * restrict}' but argument is of type 'TSOCK_socklen_t * {aka int *}' extern int getsockname (int __fd, __SOCKADDR_ARG __addr, ^ ncbi_socket.c: In function 'DSOCK_RecvMsg': ncbi_socket.c:7002:52: warning: pointer targets in passing argument 6 of 'recvfrom' differ in signedness [-Wpointer-sign] (struct sockaddr*) &sin, &sinlen); ^ In file included from /usr/include/x86_64-linux-gnu/sys/socket.h:280:0, from ncbi_socketp.h:53, from ncbi_connssl.h:37, from ncbi_socket.c:38: /usr/include/x86_64-linux-gnu/bits/socket2.h:64:1: note: expected 'socklen_t * restrict {aka unsigned int * restrict}' but argument is of type 'TSOCK_socklen_t * {aka int *}' recvfrom (int __fd, void *__restrict __buf, size_t __n, int __flags, ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbi_buffer.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbi_types.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbi_core.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbi_core_c.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbi_util.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbi_priv.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbi_ansi_ext.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbi_connection.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbi_connector.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbi_connutil.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbi_file_connector.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbi_heapmgr.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbi_http_connector.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbi_memory_connector.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbi_lbsmd_stub.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbi_host_info.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbi_server_info.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbi_service.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbi_version.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbi_service_connector.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbi_ftp_connector.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbi_dispd.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbi_lb.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbi_local.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbi_socket_connector.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF urlquery.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF binary.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbi_sendmail.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbi_base64.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF asn_connection.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF raw_scoremat.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF drwnflpt.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF drwnfspc.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF drwnmfls.c rm -f libncbi.a ar cru libncbi.a ncbimain.o ncbibs.o wwwutils.o ncbierr.o ncbienv.o ncbifile.o ncbiprop.o ncbimath.o ncbimem.o ncbimisc.o ncbimsg.o ncbistr.o ncbisgml.o ncbitime.o ncbilang.o asnbufo.o asndebin.o asnenbin.o asngen.o asnio.o asnlex.o asnlext.o asnout.o asnprint.o asntypes.o asngenob.o gifgen.o togif.o ncbithrs.o regex.o tsprintf.o ncbiargs.o tree.o matrix.o ncbi_socket.o ncbi_buffer.o ncbi_types.o ncbi_core.o ncbi_core_c.o ncbi_util.o ncbi_priv.o ncbi_ansi_ext.o ncbi_connection.o ncbi_connector.o ncbi_connutil.o ncbi_file_connector.o ncbi_heapmgr.o ncbi_http_connector.o ncbi_memory_connector.o ncbi_lbsmd_stub.o ncbi_host_info.o ncbi_server_info.o ncbi_service.o ncbi_version.o ncbi_service_connector.o ncbi_ftp_connector.o ncbi_dispd.o ncbi_lb.o ncbi_local.o ncbi_socket_connector.o urlquery.o binary.o ncbi_sendmail.o ncbi_base64.o asn_connection.o raw_scoremat.o drwnflpt.o drwnfspc.o drwnmfls.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libncbi.a ../lib ranlib ../lib/libncbi.a gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objacces.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objalign.c objalign.c: In function 'CommonSeqAlignLabelFunc': objalign.c:135:27: warning: variable 'tmp' set but not used [-Wunused-but-set-variable] CharPtr curr, typelabel, tmp; ^ objalign.c: In function 'SplicedSegAsnRead': objalign.c:2169:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalign.c: In function 'SparseSegAsnRead': objalign.c:2409:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalign.c: In function 'SplicedExonAsnRead': objalign.c:2600:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalign.c: In function 'SplicedSegModifierFree': objalign.c:2858:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objalign.c: In function 'ProductPosFree': objalign.c:3031:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objalign.c: In function 'SplicedExonChunkFree': objalign.c:3204:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objalign.c: In function 'SpliceSiteAsnRead': objalign.c:3446:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalign.c: In function 'ProtPosAsnRead': objalign.c:3600:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalign.c: In function 'SparseAlignAsnRead': objalign.c:3769:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalign.c: In function 'SparseSegExtAsnRead': objalign.c:3988:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalign.c: In function 'SplicedSegModifierAsnRead': objalign.c:2938:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objalign.c: In function 'SplicedExonChunkAsnRead': objalign.c:3305:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objall.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objbibli.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objfeat.c objfeat.c: In function 'ModelEvidenceSupportAsnRead': objfeat.c:1494:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'ExperimentSupportAsnRead': objfeat.c:1739:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'ProgramIdAsnRead': objfeat.c:1921:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'EvidenceBasisAsnRead': objfeat.c:2088:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'InferenceSupportAsnRead': objfeat.c:2252:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'ModelEvidenceItemAsnRead': objfeat.c:2465:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'SeqFeatSupportAsnRead': objfeat.c:2667:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'RNAQualAsnRead': objfeat.c:4192:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'RNAQualSetAsnRead': objfeat.c:4341:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'RNAGenAsnRead': objfeat.c:4469:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'GeneNomenclatureAsnRead': objfeat.c:4649:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'PCRPrimerAsnRead': objfeat.c:8191:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'PCRPrimerSetAsnRead': objfeat.c:8333:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'PCRReactionAsnRead': objfeat.c:8454:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'PCRReactionSetAsnRead': objfeat.c:8597:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'CloneRefAsnRead': objfeat.c:8724:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'CloneSeqSetAsnRead': objfeat.c:8914:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'CloneSeqAsnRead': objfeat.c:9044:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'SomaticOriginAsnRead': objfeat.c:9393:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'SomaticOriginConditionAsnRead': objfeat.c:9472:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'VariationRefAsnRead': objfeat.c:9551:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'ConsequenceAsnWrite': objfeat.c:10112:12: warning: variable 'av' set but not used [-Wunused-but-set-variable] DataVal av; ^ objfeat.c: In function 'Consequence_loss_of_heterozygosityAsnRead': objfeat.c:10572:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'Consequence_frameshiftAsnRead': objfeat.c:10650:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'VarRefDataFree': objfeat.c:10750:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objfeat.c: In function 'VarRefDataSetAsnRead': objfeat.c:10803:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'Consequence_elementFree': objfeat.c:10997:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objfeat.c: In function 'VariationInstAsnRead': objfeat.c:11126:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: At top level: objfeat.c:11275:1: warning: "/*" within comment [-Wcomment] /************************************************** ^ objfeat.c: In function 'VariantPropertiesAsnRead': objfeat.c:11304:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'PhenotypeAsnRead': objfeat.c:11625:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'PopulationDataAsnRead': objfeat.c:11821:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'ExtLocAsnRead': objfeat.c:12034:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'Seq_seqFree': objfeat.c:12199:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objfeat.c: In function 'DeltaItemAsnRead': objfeat.c:12232:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objfeat.c: In function 'Consequence_elementAsnRead': objfeat.c:10539:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objfeat.c: In function 'CodeBreakAsnWrite': objfeat.c:3647:11: warning: 'tmp' may be used uninitialized in this function [-Wmaybe-uninitialized] if (! AsnWrite(aip, tmp, &av)) goto erret; ^ objfeat.c: In function 'VarRefDataAsnRead': objfeat.c:10965:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objgen.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objloc.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objmedli.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objpub.c objpub.c: In function 'PubLabelUnique': objpub.c:1353:17: warning: unused variable 'pmid' [-Wunused-variable] Int4 muid = 0, pmid = 0; ^ objpub.c:1353:7: warning: unused variable 'muid' [-Wunused-variable] Int4 muid = 0, pmid = 0; ^ objpub.c: In function 'PubSetAsnRead': objpub.c:869:13: warning: 'func' may be used uninitialized in this function [-Wmaybe-uninitialized] pnt = (* func)(aip, atp); ^ objpub.c:880:25: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] cit->choice = choice; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objres.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objscoremat.c objscoremat.c: In function 'PssmAsnRead': objscoremat.c:93:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objscoremat.c: In function 'PssmIntermediateDataAsnRead': objscoremat.c:336:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objscoremat.c: In function 'PssmFinalDataAsnRead': objscoremat.c:544:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objscoremat.c: In function 'PssmParametersAsnRead': objscoremat.c:759:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objscoremat.c: In function 'PssmWithParametersAsnRead': objscoremat.c:936:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objscoremat.c: In function 'BlockPropertyAsnRead': objscoremat.c:1102:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objscoremat.c: In function 'CoreBlockAsnRead': objscoremat.c:1275:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objscoremat.c: In function 'LoopConstraintAsnRead': objscoremat.c:1463:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objscoremat.c: In function 'CoreDefAsnRead': objscoremat.c:1626:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objscoremat.c: In function 'FormatRpsDbParametersAsnRead': objscoremat.c:1794:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objseq.c objseq.c: In function 'LinkageEvidenceAsnRead': objseq.c:1603:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objseq.c: In function 'SeqGapAsnRead': objseq.c:1755:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objseq.c: In function 'SeqDescrAsnWriteExtra': objseq.c:2023:48: warning: variable 'had_anp' set but not used [-Wunused-but-set-variable] Boolean retval = FALSE, had_extra = FALSE, had_anp = FALSE; ^ objseq.c: In function 'BioseqAsnRead': objseq.c:977:21: warning: 'osp' may be used uninitialized in this function [-Wmaybe-uninitialized] else if (osp->load_by_id) /* don't load it */ ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objblock.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objcode.c objcode.c:45:51: warning: "/*" within comment [-Wcomment] * environment variables to allow reading from data/*.val, replaced tabs in source code with spaces ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objsset.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objsub.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objprt.c objprt.c: In function 'PrintFormEnumAsnRead': objprt.c:934:5: warning: 'ptr' may be used uninitialized in this function [-Wmaybe-uninitialized] if (ptr == NULL) return NULL; ^ objprt.c:951:19: note: 'ptr' was declared here PrintFormEnumPtr ptr; ^ objprt.c: In function 'PrintFormTextAsnRead': objprt.c:1051:5: warning: 'ptr' may be used uninitialized in this function [-Wmaybe-uninitialized] if (ptr == NULL) return NULL; ^ objprt.c:1067:19: note: 'ptr' was declared here PrintFormTextPtr ptr; ^ objprt.c: In function 'PrintFormBooleanAsnRead': objprt.c:877:5: warning: 'ptr' may be used uninitialized in this function [-Wmaybe-uninitialized] ptr=PrintFormBooleanFree(ptr); ^ objprt.c: In function 'PrintFormAsnRead': objprt.c:591:6: warning: 'vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] vnp = PrintFormFree(vnp); ^ objprt.c: In function 'PrintFormatAsnRead': objprt.c:429:5: warning: 'ptr' may be used uninitialized in this function [-Wmaybe-uninitialized] ptr=PrintFormatFree(ptr); ^ objprt.c: In function 'PrintTemplateAsnRead': objprt.c:247:5: warning: 'ptr' may be used uninitialized in this function [-Wmaybe-uninitialized] ptr=PrintTemplateFree(ptr); ^ objprt.c: In function 'PrintFormBlockAsnRead': objprt.c:755:5: warning: 'ptr' may be used uninitialized in this function [-Wmaybe-uninitialized] ptr=PrintFormBlockFree(ptr); ^ objprt.c: In function 'UserFormatAsnRead': objprt.c:1209:5: warning: 'ptr' may be used uninitialized in this function [-Wmaybe-uninitialized] ptr=UserFormatFree(ptr); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objfdef.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objalignloc.c objalignloc.c: In function 'AlignLocSetAsnRead': objalignloc.c:69:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalignloc.c: In function 'Loc_locFree': objalignloc.c:196:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objalignloc.c: In function 'AlignLocAsnRead': objalignloc.c:233:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalignloc.c:232:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objalignloc.c: In function 'Loc_locAsnRead': objalignloc.c:313:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objalignloc.c: In function 'AlignIdFree': objalignloc.c:525:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objalignloc.c: In function 'AlignIdAsnRead': objalignloc.c:557:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objalignloc.c: In function 'AlignBoxAsnRead': objalignloc.c:746:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalignloc.c:745:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objalignloc.c: In function 'AlignRowsAsnRead': objalignloc.c:925:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalignloc.c:924:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objalignloc.c: In function 'AlignColumnsAsnRead': objalignloc.c:1086:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objalignloc.c:1085:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objalignloc.c: In function 'AlignIdAsnRead': objalignloc.c:613:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objtable.c objtable.c: In function 'SeqTableColumnInfoAsnRead': objtable.c:87:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtable.c:86:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objtable.c: In function 'SeqTableColumnAsnRead': objtable.c:268:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtable.c:267:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objtable.c: In function 'SeqTableColumnAsnWrite': objtable.c:364:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objtable.c: In function 'SeqTableAsnRead': objtable.c:472:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtable.c: In function 'CommonStringTableAsnRead': objtable.c:654:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtable.c: In function 'CommonStringTableAsnWrite': objtable.c:729:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objtable.c: In function 'CommonBytesTableAsnRead': objtable.c:815:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtable.c: In function 'CommonBytesTableAsnWrite': objtable.c:890:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objtable.c: In function 'SeqTableSingleDataFree': objtable.c:1220:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objtable.c: In function 'SeqTableSingleDataAsnRead': objtable.c:1264:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objtable.c: In function 'SeqTableMultiDataAsnRead': objtable.c:1106:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objtable.c: In function 'SeqTableSingleDataAsnRead': objtable.c:1349:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objtable.c: In function 'SeqTableSparseIndexAsnRead': objtable.c:1554:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objpubme.c objpubme.c: In function 'PubmedEntryAsnRead': objpubme.c:89:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objpubme.c: In function 'PubmedUrlAsnRead': objpubme.c:285:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objpubme.c:284:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objmdrs.c objmdrs.c: In function 'MedlarsEntryAsnRead': objmdrs.c:85:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmdrs.c: In function 'MedlarsRecordAsnRead': objmdrs.c:256:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmdrs.c:255:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objproj.c objproj.c: In function 'ProjectAsnRead': objproj.c:116:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objproj.c:115:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objproj.c: In function 'ProjectDescrAsnRead': objproj.c:718:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objproj.c: In function 'ProjdescFree': objproj.c:852:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objproj.c: In function 'ProjdescAsnRead': objproj.c:893:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/mmdbapi.h:92, from ../include/mapproj.h:45, from objproj.c:5: objproj.c: At top level: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/mmdbapi.h:92, from ../include/mapproj.h:45, from objproj.c:5: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from ../include/mmdbapi1.h:234, from ../include/mmdbapi.h:92, from ../include/mapproj.h:45, from objproj.c:5: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from ../include/mmdbapi1.h:234, from ../include/mmdbapi.h:92, from ../include/mapproj.h:45, from objproj.c:5: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ objproj.c: In function 'ProjdescAsnRead': objproj.c:953:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objproj.c: In function 'ProjectItemAsnRead': objproj.c:536:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objgbseq.c objgbseq.c: In function 'GBSetAsnRead': objgbseq.c:68:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBSeqAsnRead': objgbseq.c:229:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBReferenceAsnRead': objgbseq.c:725:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBCommentAsnRead': objgbseq.c:963:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBStrucCommentAsnRead': objgbseq.c:1127:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBFeatureAsnRead': objgbseq.c:1295:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBFeatureSetAsnRead': objgbseq.c:1519:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBAltSeqDataAsnRead': objgbseq.c:1683:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBXrefAsnRead': objgbseq.c:1846:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBCommentParagraphAsnRead': objgbseq.c:2012:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBCommentItemAsnRead': objgbseq.c:2163:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBStrucCommentItemAsnRead': objgbseq.c:2330:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBIntervalAsnRead': objgbseq.c:2506:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBQualifierAsnRead': objgbseq.c:2716:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objgbseq.c: In function 'GBAltSeqItemAsnRead': objgbseq.c:2887:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objtseq.c objtseq.c: In function 'TSeqAsnRead': objtseq.c:89:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtseq.c: In function 'TSeqSetAsnRead': objtseq.c:322:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtseq.c: In function 'BioseqToTSeq': objtseq.c:448:8: warning: variable 'seqcode' set but not used [-Wunused-but-set-variable] Uint1 seqcode; ^ objtseq.c: In function 'BioseqToMiniTSeq': objtseq.c:560:8: warning: variable 'seqcode' set but not used [-Wunused-but-set-variable] Uint1 seqcode; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objinsdseq.c objinsdseq.c: In function 'INSDSetAsnRead': objinsdseq.c:68:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDSeqAsnRead': objinsdseq.c:229:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDReferenceAsnRead': objinsdseq.c:725:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDCommentAsnRead': objinsdseq.c:963:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDStrucCommentAsnRead': objinsdseq.c:1127:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDFeatureAsnRead': objinsdseq.c:1295:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDFeatureSetAsnRead': objinsdseq.c:1519:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDAltSeqDataAsnRead': objinsdseq.c:1683:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDXrefAsnRead': objinsdseq.c:1846:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDCommentParagraphAsnRead': objinsdseq.c:2012:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDCommentItemAsnRead': objinsdseq.c:2163:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDStrucCommentItemAsnRead': objinsdseq.c:2330:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDIntervalAsnRead': objinsdseq.c:2506:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDQualifierAsnRead': objinsdseq.c:2716:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objinsdseq.c: In function 'INSDAltSeqItemAsnRead': objinsdseq.c:2887:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objmacro.c objmacro.c: In function 'AECRActionAsnRead': objmacro.c:87:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:86:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ParseActionAsnRead': objmacro.c:269:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:268:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MacroActionListAsnRead': objmacro.c:472:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:469:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'MacroActionListAsnWrite': objmacro.c:525:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'SuspectRuleSetAsnRead': objmacro.c:586:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:583:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'SuspectRuleSetAsnWrite': objmacro.c:639:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'WordSubstitutionAsnRead': objmacro.c:719:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c: In function 'WordSubstitutionSetAsnRead': objmacro.c:884:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:881:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'WordSubstitutionSetAsnWrite': objmacro.c:937:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'StringConstraintAsnRead': objmacro.c:1025:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:1024:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'StringConstraintSetAsnRead': objmacro.c:1266:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:1263:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'StringConstraintSetAsnWrite': objmacro.c:1319:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'LocationPosConstraintFree': objmacro.c:1359:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'LocationPosConstraintAsnRead': objmacro.c:1388:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'LocationConstraintAsnRead': objmacro.c:1587:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:1586:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FeatQualLegalValAsnRead': objmacro.c:1800:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:1799:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FeatQualLegalValChoiceFree': objmacro.c:1927:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'FeatQualLegalValChoiceAsnRead': objmacro.c:1959:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FeatQualLegalSetAsnRead': objmacro.c:2111:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:2108:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'FeatQualLegalSetAsnWrite': objmacro.c:2164:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'FeatQualChoiceFree': objmacro.c:2204:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'FeatQualChoiceAsnRead': objmacro.c:2236:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FeatureFieldAsnRead': objmacro.c:2415:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:2414:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FeatureFieldLegalAsnRead': objmacro.c:2579:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:2578:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FeatureFieldPairAsnRead': objmacro.c:2742:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:2741:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RnaFeatTypeFree': objmacro.c:2882:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'RnaFeatTypeAsnRead': objmacro.c:2914:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RnaQualAsnRead': objmacro.c:3162:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:3161:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RnaQualPairAsnRead': objmacro.c:3327:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:3326:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SourceQualPairAsnRead': objmacro.c:3500:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:3499:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SourceQualChoiceFree': objmacro.c:3625:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'SourceQualChoiceAsnRead': objmacro.c:3654:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SourceQualTextValAsnRead': objmacro.c:3869:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:3868:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SourceQualValChoiceFree': objmacro.c:3996:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'SourceQualValChoiceAsnRead': objmacro.c:4028:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SourceQualValSetAsnRead': objmacro.c:4224:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:4221:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'SourceQualValSetAsnWrite': objmacro.c:4277:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'CDSGeneProtFieldPairAsnRead': objmacro.c:4353:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:4352:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoFieldFree': objmacro.c:4478:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'MolinfoFieldAsnRead': objmacro.c:4507:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoMoleculePairAsnRead': objmacro.c:4732:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:4731:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoTechniquePairAsnRead': objmacro.c:4893:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:4892:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoCompletednessPairAsnRead': objmacro.c:5054:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:5053:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoMolClassPairAsnRead': objmacro.c:5215:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:5214:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoTopologyPairAsnRead': objmacro.c:5376:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:5375:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoStrandPairAsnRead': objmacro.c:5537:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:5536:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoFieldPairFree': objmacro.c:5662:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'MolinfoFieldPairAsnRead': objmacro.c:5709:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoFieldListAsnRead': objmacro.c:5901:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:5898:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'MolinfoFieldListAsnWrite': objmacro.c:5954:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'MolinfoFieldConstraintAsnRead': objmacro.c:6032:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:6031:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'StructuredCommentFieldFree': objmacro.c:6160:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'StructuredCommentFieldAsnRead': objmacro.c:6192:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'StructuredCommentFieldPairAsnRead': objmacro.c:6386:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:6385:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'StructuredCommentFieldPairAsnWrite': objmacro.c:6461:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'DBLinkFieldPairAsnRead': objmacro.c:6553:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:6552:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'PubFieldConstraintAsnRead': objmacro.c:6715:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:6714:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'PubFieldSpecialConstraintTypeFree': objmacro.c:6843:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'PubFieldSpecialConstraintTypeAsnRead': objmacro.c:6872:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'PubFieldSpecialConstraintAsnRead': objmacro.c:7087:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:7086:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'PublicationConstraintAsnRead': objmacro.c:7253:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:7252:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SourceConstraintAsnRead': objmacro.c:7432:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:7431:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'CDSGeneProtPseudoConstraintAsnRead': objmacro.c:7621:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:7620:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'CDSGeneProtConstraintFieldFree': objmacro.c:7746:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'CDSGeneProtConstraintFieldAsnRead': objmacro.c:7775:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'CDSGeneProtQualConstraintAsnRead': objmacro.c:7948:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:7947:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'CDSGeneProtQualConstraintAsnWrite': objmacro.c:8030:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'FieldConstraintAsnRead': objmacro.c:8129:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:8128:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FieldConstraintAsnWrite': objmacro.c:8204:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'FieldTypeFree': objmacro.c:8260:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'FieldTypeAsnRead': objmacro.c:8304:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SequenceConstraintMolTypeConstraintFree': objmacro.c:8511:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'SequenceConstraintMolTypeConstraintAsnRead': objmacro.c:8540:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'QuantityConstraintFree': objmacro.c:8718:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'QuantityConstraintAsnRead': objmacro.c:8747:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SequenceConstraintAsnRead': objmacro.c:8945:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:8944:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'TranslationConstraintAsnRead': objmacro.c:9170:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:9169:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ConstraintChoiceFree': objmacro.c:9322:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'ConstraintChoiceAsnRead': objmacro.c:9384:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ConstraintChoiceSetAsnRead': objmacro.c:9616:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:9613:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'ConstraintChoiceSetAsnWrite': objmacro.c:9669:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'TextMarkerFree': objmacro.c:9709:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'TextMarkerAsnRead': objmacro.c:9741:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'TextPortionAsnRead': objmacro.c:9937:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:9936:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FieldEditAsnRead': objmacro.c:10153:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:10152:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FieldPairTypeFree': objmacro.c:10300:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'FieldPairTypeAsnRead': objmacro.c:10350:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ApplyActionAsnRead': objmacro.c:10567:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:10566:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'EditActionAsnRead': objmacro.c:10744:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:10743:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'EditActionAsnWrite': objmacro.c:10819:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'TextTransformFree': objmacro.c:10875:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'TextTransformAsnRead': objmacro.c:10910:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'TextTransformSetAsnRead': objmacro.c:11081:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:11078:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'TextTransformSetAsnWrite': objmacro.c:11134:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'ConvertActionAsnRead': objmacro.c:11214:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:11213:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'CopyActionAsnRead': objmacro.c:11406:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:11405:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SwapActionAsnRead': objmacro.c:11572:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:11571:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SwapActionAsnWrite': objmacro.c:11647:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'AECRParseActionAsnRead': objmacro.c:11745:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:11744:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RemoveActionAsnRead': objmacro.c:11961:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:11960:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RemoveActionAsnWrite': objmacro.c:12029:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'RemoveOutsideActionAsnRead': objmacro.c:12119:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:12118:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ActionChoiceFree': objmacro.c:12259:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'ActionChoiceAsnRead': objmacro.c:12312:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ParseSrcOrgChoiceFree': objmacro.c:12499:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'ParseSrcOrgChoiceAsnRead': objmacro.c:12528:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ParseSrcOrgAsnRead': objmacro.c:12711:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:12710:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ParseSrcGeneralIdFree': objmacro.c:12839:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'ParseSrcGeneralIdAsnRead': objmacro.c:12871:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ParseSrcFree': objmacro.c:13027:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'ParseSrcAsnRead': objmacro.c:13065:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ParseDstOrgAsnRead': objmacro.c:13319:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:13318:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ParseDestFree': objmacro.c:13447:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'ParseDestAsnRead': objmacro.c:13485:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'LocationIntervalAsnRead': objmacro.c:13693:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:13692:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'LocationChoiceFree': objmacro.c:13818:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'LocationChoiceAsnRead': objmacro.c:13850:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SequenceListAsnRead': objmacro.c:14024:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:14021:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'SequenceListAsnWrite': objmacro.c:14077:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'SequenceListChoiceFree': objmacro.c:14117:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'SequenceListChoiceAsnRead': objmacro.c:14149:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ApplyFeatureActionAsnRead': objmacro.c:14338:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:14337:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RemoveFeatureActionAsnRead': objmacro.c:14602:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:14601:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ConvertFromCDSOptionsAsnRead': objmacro.c:14766:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:14765:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ConvertFeatureSrcOptionsFree': objmacro.c:14900:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'ConvertFeatureSrcOptionsAsnRead': objmacro.c:14932:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RegionTypeAsnRead': objmacro.c:15099:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:15098:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ConvertFeatureDstOptionsFree': objmacro.c:15215:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'ConvertFeatureDstOptionsAsnRead': objmacro.c:15250:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ConvertFeatureActionAsnRead': objmacro.c:15464:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:15463:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'EditLocationStrandAsnRead': objmacro.c:15670:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:15669:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'Partial5SetActionAsnRead': objmacro.c:15831:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:15830:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'Partial3SetActionAsnRead': objmacro.c:15992:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:15991:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'PartialBothSetActionAsnRead': objmacro.c:16153:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:16152:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ExtendToFeatureAsnRead': objmacro.c:16315:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:16314:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'LocationEditTypeFree': objmacro.c:16452:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'LocationEditTypeAsnRead': objmacro.c:16499:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'EditFeatureLocationActionAsnRead': objmacro.c:16774:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:16773:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoBlockAsnRead': objmacro.c:16971:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:16970:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'MolinfoBlockAsnWrite': objmacro.c:17053:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'RemoveDescriptorActionAsnRead': objmacro.c:17151:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:17150:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'AutodefActionAsnRead': objmacro.c:17317:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c: In function 'FixPubCapsActionAsnRead': objmacro.c:17488:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:17487:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SortFieldsActionAsnRead': objmacro.c:17690:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:17689:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FixAuthorCapsAsnRead': objmacro.c:17866:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:17865:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FixCapsActionFree': objmacro.c:17982:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'FixCapsActionAsnRead': objmacro.c:18017:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FixFormatActionFree': objmacro.c:18189:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'FixFormatActionAsnRead': objmacro.c:18218:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RemoveDuplicateFeatureActionAsnRead': objmacro.c:18422:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:18421:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'GeneXrefTypeAsnRead': objmacro.c:18613:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:18612:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'XrefTypeFree': objmacro.c:18747:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'XrefTypeAsnRead': objmacro.c:18779:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RemoveXrefsActionAsnRead': objmacro.c:18948:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:18947:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RemoveXrefsActionAsnWrite': objmacro.c:19023:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'MakeGeneXrefActionAsnRead': objmacro.c:19116:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:19115:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'AuthorFixActionAsnRead': objmacro.c:19281:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:19280:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'UpdateSequencesActionAsnRead': objmacro.c:19447:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:19446:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'CreateTSAIdsSrcFree': objmacro.c:19574:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'CreateTSAIdsSrcAsnRead': objmacro.c:19606:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'CreateTSAIdsActionAsnRead': objmacro.c:19787:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:19786:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'AutofixActionAsnRead': objmacro.c:19966:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:19965:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'FixSetsActionFree': objmacro.c:20084:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'FixSetsActionAsnRead': objmacro.c:20113:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'TableMatchTypeFree': objmacro.c:20269:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'TableMatchTypeAsnRead': objmacro.c:20301:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'TableMatchAsnRead': objmacro.c:20547:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:20546:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ApplyTableExtraDataFree': objmacro.c:20675:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'ApplyTableExtraDataAsnRead': objmacro.c:20704:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ApplyTableActionAsnRead': objmacro.c:20877:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:20876:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'AddFileActionAsnRead': objmacro.c:21057:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:21056:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'AddDescriptorListActionAsnRead': objmacro.c:21225:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:21224:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'AddDescriptorListActionAsnWrite': objmacro.c:21300:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'RemoveSequencesActionAsnRead': objmacro.c:21393:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:21392:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'RemoveSequencesActionAsnWrite': objmacro.c:21461:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objmacro.c: In function 'MacroActionChoiceFree': objmacro.c:21512:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'MacroActionChoiceAsnRead': objmacro.c:21613:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SearchFuncFree': objmacro.c:22093:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'SearchFuncAsnRead': objmacro.c:22131:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SimpleReplaceAsnRead': objmacro.c:22400:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:22399:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ReplaceFuncFree': objmacro.c:22536:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmacro.c: In function 'ReplaceFuncAsnRead': objmacro.c:22571:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'ReplaceRuleAsnRead': objmacro.c:22751:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:22750:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SuspectRuleAsnRead': objmacro.c:22921:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmacro.c:22920:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmacro.c: In function 'SourceQualChoiceAsnRead': objmacro.c:3727:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'SourceQualValChoiceAsnRead': objmacro.c:4098:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'MolinfoFieldAsnRead': objmacro.c:4587:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'MolinfoFieldPairAsnRead': objmacro.c:5771:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'StructuredCommentFieldAsnRead': objmacro.c:6251:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'FieldTypeAsnRead': objmacro.c:8390:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'ConstraintChoiceAsnRead': objmacro.c:9466:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'ParseSrcGeneralIdAsnRead': objmacro.c:12930:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'FixCapsActionAsnRead': objmacro.c:18084:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'FixFormatActionAsnRead': objmacro.c:18284:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'FixSetsActionAsnRead': objmacro.c:20172:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'MacroActionChoiceAsnRead': objmacro.c:21852:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'LocationPosConstraintAsnRead': objmacro.c:1447:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'RnaFeatTypeAsnRead': objmacro.c:3008:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'PubFieldSpecialConstraintTypeAsnRead': objmacro.c:6945:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'SequenceConstraintMolTypeConstraintAsnRead': objmacro.c:8613:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'QuantityConstraintAsnRead': objmacro.c:8806:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'TextMarkerAsnRead': objmacro.c:9800:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'FieldPairTypeAsnRead': objmacro.c:10416:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'ActionChoiceAsnRead': objmacro.c:12382:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'ParseSrcOrgChoiceAsnRead': objmacro.c:12580:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'ParseSrcAsnRead': objmacro.c:13160:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'ParseDestAsnRead': objmacro.c:13552:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'LocationChoiceAsnRead': objmacro.c:13906:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'ConvertFeatureDstOptionsAsnRead': objmacro.c:15320:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'LocationEditTypeAsnRead': objmacro.c:16603:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'TableMatchTypeAsnRead': objmacro.c:20392:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmacro.c: In function 'SearchFuncAsnRead': objmacro.c:22236:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objent2.c objent2.c: In function 'Entrez2IdListAsnRead': objent2.c:87:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:86:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2BooleanExpAsnRead': objent2.c:276:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c: In function 'Entrez2BooleanElementFree': objent2.c:414:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objent2.c: In function 'Entrez2BooleanElementAsnRead': objent2.c:455:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2LimitsAsnRead': objent2.c:664:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:663:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2BooleanTermAsnRead': objent2.c:841:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:840:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2RequestAsnRead': objent2.c:1037:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:1036:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'E2RequestFree': objent2.c:1198:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objent2.c: In function 'E2RequestAsnRead': objent2.c:1251:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2EvalBooleanAsnRead': objent2.c:1488:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:1487:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2TermQueryAsnRead': objent2.c:1664:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:1663:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2TermPosAsnRead': objent2.c:1842:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:1841:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2HierQueryAsnRead': objent2.c:2028:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:2027:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2GetLinksAsnRead': objent2.c:2215:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:2214:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2IdAsnRead': objent2.c:2409:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:2408:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2DtFilterAsnRead': objent2.c:2573:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:2572:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2ReplyAsnRead': objent2.c:2750:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:2749:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'E2ReplyFree': objent2.c:2922:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objent2.c: In function 'E2ReplyAsnRead': objent2.c:2978:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2InfoAsnRead': objent2.c:3224:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c: In function 'Entrez2BooleanReplyAsnRead': objent2.c:3395:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:3394:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2DocsumListAsnRead': objent2.c:3572:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c: In function 'Entrez2TermListAsnRead': objent2.c:3733:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c: In function 'Entrez2HierNodeAsnRead': objent2.c:3905:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c: In function 'Entrez2LinkSetAsnRead': objent2.c:4104:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:4103:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2LinkCountListAsnRead': objent2.c:4280:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c: In function 'Entrez2DbInfoAsnRead': objent2.c:4446:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c: In function 'Entrez2FieldInfoAsnRead': objent2.c:4685:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:4684:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2LinkInfoAsnRead': objent2.c:4928:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:4927:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2DocsumFieldInfoAsnRead': objent2.c:5126:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:5125:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2DocsumAsnRead': objent2.c:5301:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c: In function 'Entrez2DocsumDataAsnRead': objent2.c:5463:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:5462:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2TermAsnRead': objent2.c:5629:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:5628:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2LinkCountAsnRead': objent2.c:5811:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objent2.c:5810:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objent2.c: In function 'Entrez2BooleanElementAsnRead': objent2.c:522:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objent2.c: In function 'E2ReplyAsnRead': objent2.c:3062:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ent2api.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF pmfapi.c pmfapi.c: In function 'PubMedSynchronousQuery': pmfapi.c:1224:58: warning: 'starttime' may be used uninitialized in this function [-Wmaybe-uninitialized] printf ("PubMedWaitForReply %ld\n", (long) (stoptime - starttime)); ^ pmfapi.c: In function 'PubSeqSynchronousQueryEx': pmfapi.c:1458:58: warning: 'starttime' may be used uninitialized in this function [-Wmaybe-uninitialized] printf ("PubSeqWaitForReply %ld\n", (long) (stoptime - starttime)); ^ pmfapi.c: In function 'PubSeqSynchronousQueryTI': pmfapi.c:1636:58: warning: 'starttime' may be used uninitialized in this function [-Wmaybe-uninitialized] printf ("PubSeqWaitForReply %ld\n", (long) (stoptime - starttime)); ^ pmfapi.c: In function 'PubSeqSynchronousQuerySRA': pmfapi.c:1717:58: warning: 'starttime' may be used uninitialized in this function [-Wmaybe-uninitialized] printf ("PubSeqWaitForReply %ld\n", (long) (stoptime - starttime)); ^ pmfapi.c: In function 'GiRevHistSynchronousQuery': pmfapi.c:1790:61: warning: 'starttime' may be used uninitialized in this function [-Wmaybe-uninitialized] printf ("GiRevHistWaitForReply %ld\n", (long) (stoptime - starttime)); ^ pmfapi.c: In function 'GiAccVerSynchronousQuery': pmfapi.c:1842:60: warning: 'starttime' may be used uninitialized in this function [-Wmaybe-uninitialized] printf ("GiAccVerWaitForReply %ld\n", (long) (stoptime - starttime)); ^ pmfapi.c: In function 'AccnRevHistSynchronousQuery': pmfapi.c:1893:63: warning: 'starttime' may be used uninitialized in this function [-Wmaybe-uninitialized] printf ("AccnRevHistWaitForReply %ld\n", (long) (stoptime - starttime)); ^ pmfapi.c: In function 'GiSeqIdSetSynchronousQuery': pmfapi.c:1944:62: warning: 'starttime' may be used uninitialized in this function [-Wmaybe-uninitialized] printf ("GiSeqIdSetWaitForReply %ld\n", (long) (stoptime - starttime)); ^ pmfapi.c: In function 'AccnListSynchronousQuery': pmfapi.c:1994:60: warning: 'starttime' may be used uninitialized in this function [-Wmaybe-uninitialized] printf ("AccnListWaitForReply %ld\n", (long) (stoptime - starttime)); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objtax3.c objtax3.c: In function 'Taxon3RequestAsnRead': objtax3.c:86:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax3.c: In function 'T3RequestFree': objtax3.c:200:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objtax3.c: In function 'SequenceOfIntAsnRead': objtax3.c:418:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax3.c: In function 'Taxon3ReplyAsnRead': objtax3.c:547:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax3.c: In function 'T3ReplyFree': objtax3.c:661:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objtax3.c: In function 'T3ErrorAsnRead': objtax3.c:872:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax3.c: In function 'T3DataAsnRead': objtax3.c:1071:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax3.c: In function 'Value_valueFree': objtax3.c:1252:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objtax3.c: In function 'T3StatusFlagsAsnRead': objtax3.c:1282:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax3.c: In function 'T3RefreshFlagsAsnRead': objtax3.c:1606:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ In file included from ../include/strimprt.h:72:0, from objtax3.c:5: objtax3.c: At top level: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from objtax3.c:5: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from objtax3.c:5: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from objtax3.c:5: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ objtax3.c: In function 'T3RequestAsnRead': objtax3.c:297:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objtax3.c: In function 'T3ReplyAsnRead': objtax3.c:741:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objtax3.c: In function 'T3StatusFlagsAsnRead': objtax3.c:1420:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objtax3.c:1361:10: note: 'choice' was declared here Uint1 choice; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF tax3api.c tax3api.c: In function 'Tax3SynchronousQuery': tax3api.c:188:27: warning: variable 't3' set but not used [-Wunused-but-set-variable] time_t t1, t2, t3; ^ tax3api.c: In function 'CheckSuggestedFixes': tax3api.c:753:20: warning: variable 'tep' set but not used [-Wunused-but-set-variable] T3ErrorPtr tep; ^ tax3api.c: In function 'TryNewSuggestedFixes': tax3api.c:865:20: warning: variable 'tep' set but not used [-Wunused-but-set-variable] T3ErrorPtr tep; ^ tax3api.c: In function 'GetSuggestedNamesFromRank': tax3api.c:1114:20: warning: variable 'tep' set but not used [-Wunused-but-set-variable] T3ErrorPtr tep; ^ tax3api.c: In function 'BioSourceFromBioSample': tax3api.c:3220:16: warning: unused variable 'max' [-Wunused-variable] time_t max = 0; ^ tax3api.c: At top level: tax3api.c:297:13: warning: 'SaveTaxon3Request' defined but not used [-Wunused-function] static void SaveTaxon3Request (Taxon3RequestPtr t3rp, CharPtr path) ^ tax3api.c:361:16: warning: 'HasMisspellingFlag' defined but not used [-Wunused-function] static Boolean HasMisspellingFlag (T3DataPtr t) ^ tax3api.c:616:28: warning: 'TaxFixItemOrigIsOk' defined but not used [-Wunused-function] static Boolean LIBCALLBACK TaxFixItemOrigIsOk (ValNodePtr vnp) ^ tax3api.c:1886:16: warning: 'EndsWithSp' defined but not used [-Wunused-function] static Boolean EndsWithSp (CharPtr str) ^ tax3api.c:2345:16: warning: 'StringIsExactMatchForOrgRef' defined but not used [-Wunused-function] static Boolean StringIsExactMatchForOrgRef (CharPtr str, OrgRefPtr org) ^ tax3api.c:3003:13: warning: 'AddBioSourcesToChecklist' defined but not used [-Wunused-function] static void AddBioSourcesToChecklist (ValNodePtr biop_list, ValNodePtr check_list) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objegkludge.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objentgene.c objentgene.c: In function 'EntrezgeneAsnRead': objentgene.c:103:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objentgene.c: In function 'EntrezgeneSetAsnRead': objentgene.c:411:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objentgene.c:408:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objentgene.c: In function 'EntrezgeneSetAsnWrite': objentgene.c:464:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objentgene.c: In function 'GeneTrackAsnRead': objentgene.c:545:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objentgene.c: In function 'GeneCommentaryAsnRead': objentgene.c:764:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objentgene.c: In function 'Method_methodFree': objentgene.c:1056:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objentgene.c: In function 'MapsAsnRead': objentgene.c:1087:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objentgene.c:1086:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objentgene.c: In function 'Method_methodAsnRead': objentgene.c:1167:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objentgene.c: In function 'GeneSourceAsnRead': objentgene.c:1408:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objentgene.c:1407:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objentgene.c: In function 'XtraTermsAsnRead': objentgene.c:1622:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objentgene.c:1621:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objentgene.c: In function 'OtherSourceAsnRead': objentgene.c:1792:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objentgene.c:1791:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objentgene.c: In function 'MapsAsnRead': objentgene.c:1219:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objentgene.c:1166:10: note: 'choice' was declared here Uint1 choice; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objmla2.c objmla2.c: In function 'Mla2RequestFree': objmla2.c:49:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmla2.c: In function 'Mla22RequestAsnRead': objmla2.c:96:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmla2.c: In function 'TitleMsg2AsnRead': objmla2.c:447:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmla2.c:446:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmla2.c: In function 'TitleMsgList2AsnRead': objmla2.c:612:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmla2.c: In function 'Mla22RequestAsnRead': objmla2.c:249:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmla2.c: In function 'Mla2BackAsnRead': objmla2.c:902:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF mla2api.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF qblastapi.c qblastapi.c: In function 'SecondQBlastCallback': qblastapi.c:259:15: warning: variable 'waiting' set but not used [-Wunused-but-set-variable] Boolean waiting = FALSE; ^ qblastapi.c: In function 'BLASTGetSeqAnnotByRIDEx': qblastapi.c:823:18: warning: variable 'status' set but not used [-Wunused-but-set-variable] EIO_Status status; ^ qblastapi.c: In function 'BLASTGetQueryBioseqByRIDEx': qblastapi.c:868:18: warning: variable 'status' set but not used [-Wunused-but-set-variable] EIO_Status status; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF vecscnapi.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objmim.c objmim.c: In function 'MimSetAsnRead': objmim.c:86:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c: In function 'MimDateAsnRead': objmim.c:248:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c:247:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmim.c: In function 'MimEntryAsnRead': objmim.c:447:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c: In function 'MimCitAsnRead': objmim.c:907:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c:906:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmim.c: In function 'MimTextAsnRead': objmim.c:1093:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c:1092:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmim.c: In function 'MimEditItemAsnRead': objmim.c:1272:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c:1271:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmim.c: In function 'MimAllelicVariantAsnRead': objmim.c:1443:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c: In function 'MimIndexTermAsnRead': objmim.c:1634:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c: In function 'MimReferenceAsnRead': objmim.c:1812:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c: In function 'MimLinkAsnRead': objmim.c:2187:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c:2186:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmim.c: In function 'MimAuthorAsnRead': objmim.c:2360:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c:2359:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmim.c: In function 'MimPageAsnRead': objmim.c:2525:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmim.c:2524:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objvalid.c objvalid.c: In function 'FieldRuleAsnRead': objvalid.c:88:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objvalid.c:87:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objvalid.c: In function 'FieldSetAsnRead': objvalid.c:256:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objvalid.c:253:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objvalid.c: In function 'FieldSetAsnWrite': objvalid.c:309:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objvalid.c: In function 'DependentFieldRuleAsnRead': objvalid.c:390:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objvalid.c:389:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objvalid.c: In function 'DependentFieldSetAsnRead': objvalid.c:573:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objvalid.c:570:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objvalid.c: In function 'DependentFieldSetAsnWrite': objvalid.c:626:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objvalid.c: In function 'CommentRuleAsnRead': objvalid.c:708:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objvalid.c:707:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objvalid.c: In function 'CommentSetAsnRead': objvalid.c:898:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objvalid.c:895:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objvalid.c: In function 'CommentSetAsnWrite': objvalid.c:951:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF mimapi.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF cddapi.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF seqport.c seqport.c: In function 'productLoc_to_locationLoc': seqport.c:4153:13: warning: variable 'is_cdregion' set but not used [-Wunused-but-set-variable] Boolean is_cdregion = FALSE; ^ seqport.c: In function 'NaLocFromNaInterval': seqport.c:4483:8: warning: variable 'p_end_pos' set but not used [-Wunused-but-set-variable] Int4 p_end_pos; /*the end of the product sequence in the current loc*/ ^ seqport.c: In function 'dnaLoc_to_aaLoc': seqport.c:4599:18: warning: variable 'cds_right' set but not used [-Wunused-but-set-variable] Int4 cds_left, cds_right; ^ seqport.c:4599:8: warning: variable 'cds_left' set but not used [-Wunused-but-set-variable] Int4 cds_left, cds_right; ^ seqport.c: In function 'DeltaRevComp': seqport.c:5281:21: warning: variable 'dspnext' set but not used [-Wunused-but-set-variable] DeltaSeqPtr dsp, dspnext; ^ seqport.c: In function 'SeqSearchEnterNucWord': seqport.c:6822:18: warning: variable 'patLen' set but not used [-Wunused-but-set-variable] Int2 next, patLen, state; ^ seqport.c: In function 'ProtSearchEnterProtWord': seqport.c:7696:18: warning: variable 'patLen' set but not used [-Wunused-but-set-variable] Int2 next, patLen, state; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from seqport.c:62: seqport.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF sequtil.c sequtil.c: In function 'GetPointsForLeftAndRightOffsets': sequtil.c:7959:11: warning: variable 'first_strand' set but not used [-Wunused-but-set-variable] Uint1 first_strand, last_strand; ^ sequtil.c: In function 'SeqPointWriteEx': sequtil.c:8492:15: warning: variable 'fuzzlen' set but not used [-Wunused-but-set-variable] Int4 fuzzlen, id_len; ^ sequtil.c: In function 'TaxNameFromCommon': sequtil.c:8647:42: warning: missing braces around initializer [-Wmissing-braces] static Nlm_TaxCommon taxcommon[40] = { ^ sequtil.c:8647:42: note: (near initialization for 'taxcommon') sequtil.c: In function 'GetBestScoreAndEvalueFromScorePtr': sequtil.c:9470:48: warning: variable 'sum_set' set but not used [-Wunused-but-set-variable] Boolean score_set=FALSE, evalue_set=FALSE, sum_set=FALSE, bit_set=FALSE; ^ sequtil.c: In function 'SeqIdFromAccessionEx': sequtil.c:10070:38: warning: variable 'sip2' set but not used [-Wunused-but-set-variable] SeqIdPtr sip2; ^ sequtil.c: In function 'SeqLocCoverage': sequtil.c:6875:12: warning: 'sip' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqIdPtr sip; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF prtutil.c prtutil.c: In function 'StdFormatPrint': prtutil.c:1422:10: warning: unused variable 'ptr' [-Wunused-variable] CharPtr ptr = NULL; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF simple.c In file included from simple.c:69:0: ../include/all.h:7192:0: warning: "RNA_QUAL" redefined #define RNA_QUAL &at[2231] ^ ../include/all.h:5745:0: note: this is the location of the previous definition #define RNA_QUAL &at[1023] ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF tofasta.c tofasta.c: In function 'DoSpecialDefline': tofasta.c:1407:22: warning: variable 'gene' set but not used [-Wunused-but-set-variable] SeqFeatPtr gene = NULL; ^ tofasta.c: At top level: tofasta.c:3072:16: warning: 'get_descr_on_top' defined but not used [-Wunused-function] static Boolean get_descr_on_top (GatherContextPtr gcp) ^ tofasta.c:3101:16: warning: 'get_descr' defined but not used [-Wunused-function] static Boolean get_descr (GatherContextPtr gcp) ^ tofasta.c:3196:19: warning: 'IndexedGatherDescrOnBioseq' defined but not used [-Wunused-function] static ValNodePtr IndexedGatherDescrOnBioseq (ItemInfoPtr iip, BioseqPtr bsp, Uint1 choice) ^ tofasta.c:3359:19: warning: 'GetCDSProtUnindexed' defined but not used [-Wunused-function] static SeqFeatPtr GetCDSProtUnindexed ( ^ tofasta.c:3445:19: warning: 'GatherSeqFeatProt' defined but not used [-Wunused-function] static SeqFeatPtr GatherSeqFeatProt(BioseqPtr bsp) ^ tofasta.c:3479:19: warning: 'GatherGenesForCDS' defined but not used [-Wunused-function] static ValNodePtr GatherGenesForCDS(SeqLocPtr slp) ^ tofasta.c: In function 'FastaToSeqEntryInternalExEx': tofasta.c:2736:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(buffer+1, BuffSize, fd); ^ tofasta.c:2761:13: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(buffer+i+1, FTSE_BUFF_CHUNK, fd); ^ tofasta.c: In function 'FastaReadSequenceInternalEx': tofasta.c:2611:27: warning: 'mask_to' may be used uninitialized in this function [-Wmaybe-uninitialized] mask_sint->to = mask_to; ^ tofasta.c: In function 'FastaToSeqEntryInternalExEx': tofasta.c:2852:13: warning: 'fd' may be used uninitialized in this function [-Wmaybe-uninitialized] ungetc(ch, fd); ^ tofasta.c:2672:25: warning: 'firstchar' may be used uninitialized in this function [-Wmaybe-uninitialized] const Char PNTR firstchar; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF tofile.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF tomedlin.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF valid.c valid.c: In function 'Valid1GatherProc': valid.c:2238:22: warning: variable 'sc_valid' set but not used [-Wunused-but-set-variable] EFieldValid sc_valid; ^ valid.c: In function 'ValidateSeqIdCase': valid.c:3342:21: warning: variable 'gcp' set but not used [-Wunused-but-set-variable] GatherContextPtr gcp; ^ valid.c: In function 'ValidateGenProdSet': valid.c:5551:19: warning: variable 'grp' set but not used [-Wunused-but-set-variable] GeneRefPtr grp; ^ valid.c: In function 'CountAdjacentProc': valid.c:6193:21: warning: variable 'gcp' set but not used [-Wunused-but-set-variable] GatherContextPtr gcp; ^ valid.c: In function 'ValidateBioseqInst': valid.c:6584:19: warning: variable 'tech' set but not used [-Wunused-but-set-variable] Uint1 tech; ^ valid.c:6526:19: warning: variable 'prot' set but not used [-Wunused-but-set-variable] SeqFeatPtr prot; ^ valid.c: In function 'ValidateBioSource': valid.c:13688:19: warning: variable 'id' set but not used [-Wunused-but-set-variable] Int4 id; ^ valid.c: In function 'ValidateDblink': valid.c:14737:21: warning: variable 'gcp' set but not used [-Wunused-but-set-variable] GatherContextPtr gcp; ^ valid.c: In function 'ValidateSeqDescrCommon': valid.c:14795:19: warning: variable 'pdp' set but not used [-Wunused-but-set-variable] PubdescPtr pdp; ^ valid.c: In function 'ValidateBioseqContextIndexed': valid.c:17742:38: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if (bvsp->is_mrna || cdscount == 1 && genecount < 2) { ^ valid.c:17154:41: warning: variable 'utr3gene' set but not used [-Wunused-but-set-variable] SeqFeatPtr cdsgene, utr5gene, utr3gene; ^ valid.c: In function 'ValidateBarcodeIndexNumber': valid.c:18667:21: warning: variable 'bin_len' set but not used [-Wunused-but-set-variable] Int4 bin_len; ^ valid.c: In function 'ValidateBioseqContext': valid.c:18775:19: warning: variable 'taxname' set but not used [-Wunused-but-set-variable] CharPtr taxname = NULL; ^ valid.c: In function 'ValidateRptUnit': valid.c:20323:32: warning: variable 'found' set but not used [-Wunused-but-set-variable] Boolean badchars, found, just_nuc_letters, multi_rpt_unit; ^ valid.c: In function 'CheckForCommonCDSProduct': valid.c:22238:19: warning: variable 'is_nw' set but not used [-Wunused-but-set-variable] Boolean is_nw = FALSE; ^ valid.c:22235:19: warning: variable 'is_nc' set but not used [-Wunused-but-set-variable] Boolean is_nc = FALSE; ^ valid.c: In function 'CheckForIllegalDbxref': valid.c:22617:16: warning: variable 'id' set but not used [-Wunused-but-set-variable] Int4 id; ^ valid.c: In function 'ValidateAnticodon': valid.c:23348:53: warning: variable 'circular' set but not used [-Wunused-but-set-variable] ordered = TRUE, adjacent = FALSE, circular = FALSE, exception = FALSE; ^ valid.c:23347:19: warning: variable 'retval' set but not used [-Wunused-but-set-variable] Boolean retval = TRUE, tmpval, mixed_strand = FALSE, unmarked_strand = FALSE, ^ valid.c: In function 'IsGeneXrefRedundant': valid.c:24599:17: warning: variable 'count' set but not used [-Wunused-but-set-variable] Int2 count; ^ valid.c: In function 'ValidateSeqFeat': valid.c:24763:19: warning: variable 'count' set but not used [-Wunused-but-set-variable] Int2 count; ^ valid.c:24741:19: warning: variable 'pdp' set but not used [-Wunused-but-set-variable] PubdescPtr pdp; ^ valid.c: In function 'CdTransCheck': valid.c:26675:19: warning: variable 'grp' set but not used [-Wunused-but-set-variable] GeneRefPtr grp; ^ valid.c: In function 'SpliceCheckEx': valid.c:27477:19: warning: variable 'sep' set but not used [-Wunused-but-set-variable] SeqEntryPtr sep; ^ valid.c: In function 'CdsProductIdCheck': valid.c:27823:15: warning: variable 'grp' set but not used [-Wunused-but-set-variable] GeneRefPtr grp; ^ valid.c: In function 'ValidateSeqLoc': valid.c:27887:19: warning: variable 'retval' set but not used [-Wunused-but-set-variable] Boolean retval = TRUE, tmpval, mixed_strand = FALSE, unmarked_strand = FALSE, ^ valid.c:27886:24: warning: variable 'prev' set but not used [-Wunused-but-set-variable] SeqLocPtr tmp, prev; ^ valid.c: At top level: valid.c:1415:16: warning: 'IsNotUnclassifiedExcept' defined but not used [-Wunused-function] static Boolean IsNotUnclassifiedExcept (ValidStructPtr vsp) ^ valid.c:4089:13: warning: 'FindLongIdsThatCollideWhenTruncated' defined but not used [-Wunused-function] static void FindLongIdsThatCollideWhenTruncated (SeqEntryPtr sep, ValidStructPtr vsp, Int4 trunc_len) ^ valid.c:5438:13: warning: 'CheckMutSetSources' defined but not used [-Wunused-function] static void CheckMutSetSources (BioSourcePtr biop, Pointer userdata) ^ valid.c:6450:13: warning: 'ReportLongSeqId' defined but not used [-Wunused-function] static void ReportLongSeqId (SeqIdPtr sip, ValidStructPtr vsp, Int4 max_len) ^ valid.c:9394:16: warning: 'ConsistentWithC' defined but not used [-Wunused-function] static Boolean ConsistentWithC (Char ch) ^ valid.c:12157:16: warning: 'LatLonIsValid' defined but not used [-Wunused-function] static Boolean LatLonIsValid (CharPtr name) ^ valid.c:12959:16: warning: 'LatLonInRange' defined but not used [-Wunused-function] static Boolean LatLonInRange ( ^ valid.c:13056:16: warning: 'CountryIsClosestToLatLon' defined but not used [-Wunused-function] static Boolean CountryIsClosestToLatLon ( ^ valid.c:18292:19: warning: 'ListFeaturesContainedInLocation' defined but not used [-Wunused-function] static ValNodePtr ListFeaturesContainedInLocation (BioseqPtr bsp, SeqLocPtr slp, Uint1 seqfeatChoice, Uint1 featdefChoice) ^ valid.c:18342:28: warning: 'MultiGeneOverlapFree' defined but not used [-Wunused-function] static MultiGeneOverlapPtr MultiGeneOverlapFree (MultiGeneOverlapPtr m) ^ valid.c:24281:16: warning: 'CouldExtendPartial' defined but not used [-Wunused-function] static Boolean CouldExtendPartial (SeqLocPtr slp, Boolean partial5) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF valapi.c valapi.c: In function 'DoesStringMatchExpression': valapi.c:253:15: warning: variable 'errstr' set but not used [-Wunused-but-set-variable] const char *errstr; ^ valapi.c: In function 'ReorderStructuredCommentFields': valapi.c:777:82: warning: unused variable 'ufp_last' [-Wunused-variable] UserFieldPtr ufp, ufp_prev = NULL, new_list = NULL, new_prev = NULL, ufp_next, ufp_last = NULL; ^ valapi.c:777:72: warning: unused variable 'ufp_next' [-Wunused-variable] UserFieldPtr ufp, ufp_prev = NULL, new_list = NULL, new_prev = NULL, ufp_next, ufp_last = NULL; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF alignmgr.c alignmgr.c: In function 'AlnMgrIndexParentSA': alignmgr.c:1607:19: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] sap->saip = (Pointer)AMAlignIndexFree(amaip); ^ alignmgr.c: In function 'AlnMgrGetNthBlockRange': alignmgr.c:4182:21: warning: variable 'amaip' set but not used [-Wunused-but-set-variable] AMAlignIndexPtr amaip; ^ alignmgr.c: In function 'AlnMgrMakeFakeMultipleEx': alignmgr.c:5157:21: warning: variable 'nogap' set but not used [-Wunused-but-set-variable] Boolean nogap; ^ alignmgr.c: In function 'AlnMgrMapBioseqToBioseq': alignmgr.c:10840:19: warning: variable 'gap' set but not used [-Wunused-but-set-variable] Uint1 gap; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from alignmgr.c:584: alignmgr.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ alignmgr.c:5405:13: warning: 'AlnMgrMergeNeighbors' defined but not used [-Wunused-function] static void AlnMgrMergeNeighbors(SeqAlignPtr salp) ^ alignmgr.c:10572:16: warning: 'am_merge_after_edit' defined but not used [-Wunused-function] static Boolean am_merge_after_edit (SeqAlignPtr sap) ^ alignmgr.c:6123:18: warning: 'AlnMgrConstructOverlaps' defined but not used [-Wunused-function] static AMmsmsPtr AlnMgrConstructOverlaps(AMmsmsPtr ams_head) ^ alignmgr.c:6650:16: warning: 'AlnMgrJaggedIndex' defined but not used [-Wunused-function] static Boolean AlnMgrJaggedIndex(SeqAlignPtr sap, AMmsmsPtr ams_head, AMmsmsPtr *ams_mhead, Int4 numrows) ^ alignmgr.c: In function 'AlnMgrUnpackSeqAlign': alignmgr.c:1149:33: warning: 'sap_segs_prev' may be used uninitialized in this function [-Wmaybe-uninitialized] sap_segs_prev->next = (SeqAlignPtr)(sap_segs->segs); ^ alignmgr.c: In function 'AlnMgrGetNthSeqRangeInSA': alignmgr.c:4115:19: warning: 'tmp_end' may be used uninitialized in this function [-Wmaybe-uninitialized] *stop = tmp_end; ^ alignmgr.c:4113:20: warning: 'tmp_beg' may be used uninitialized in this function [-Wmaybe-uninitialized] *start = tmp_beg; ^ alignmgr.c: In function 'am_print_seqalign_indexes': alignmgr.c:2416:30: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] for (j=0; j<(saip->ssdp[i]->numsect); j++) ^ alignmgr.c:2481:34: warning: 'amaip' may be used uninitialized in this function [-Wmaybe-uninitialized] for (j=0; j<(amaip->amadp[i]->numseg); j++) ^ alignmgr.c: In function 'am_is_consistent': alignmgr.c:10114:13: warning: 'n' may be used uninitialized in this function [-Wmaybe-uninitialized] AlnMgrGetNthUnalignedForNthRow(sap, n, i, &u_start, &u_stop); ^ alignmgr.c: In function 'AlnMgrGetSubAlign': alignmgr.c:9097:15: warning: 'salp' may be used uninitialized in this function [-Wmaybe-uninitialized] salp = am_cleanupsalp(salp); ^ alignmgr.c: In function 'AlnMgrMakeMultByIntersectOnMaster': alignmgr.c:5592:4: warning: 'sip_tmp' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqIdFree(sip_tmp); ^ alignmgr.c:5885:21: warning: 'sip_tmp' may be used uninitialized in this function [-Wmaybe-uninitialized] sip_tmp = sip_tmp->next; ^ alignmgr.c:5846:18: note: 'sip_tmp' was declared here SeqIdPtr sip_tmp; ^ alignmgr.c:5883:17: warning: 'sip_head' may be used uninitialized in this function [-Wmaybe-uninitialized] if (SAM_OrderSeqID(sip_tmp, sip) == 0) ^ alignmgr.c:5845:18: note: 'sip_head' was declared here SeqIdPtr sip_head; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF aliparse.c aliparse.c: In function 's_IsInterleaved': aliparse.c:929:37: warning: suggest parentheses around '&&' within '||' [-Wparentheses] (s_configInfo.useMaybes == FALSE) && ^ aliparse.c:823:20: warning: variable 'isMaybe' set but not used [-Wunused-but-set-variable] Boolean isMaybe; ^ aliparse.c: In function 's_ProcessInterId': aliparse.c:1000:15: warning: variable 'errPtr' set but not used [-Wunused-but-set-variable] ErrInfoPtr errPtr; ^ aliparse.c: In function 's_ProcessInterSeq': aliparse.c:1090:15: warning: variable 'errPtr' set but not used [-Wunused-but-set-variable] ErrInfoPtr errPtr = NULL; ^ aliparse.c: In function 's_AnalyzeInterleaved': aliparse.c:1193:36: warning: suggest parentheses around '&&' within '||' [-Wparentheses] (seqLinePtr->maybe == TRUE) && (s_configInfo.useMaybes == TRUE)) ^ aliparse.c: In function 's_ProcessContigId': aliparse.c:1385:18: warning: variable 'errPtr' set but not used [-Wunused-but-set-variable] ErrInfoPtr errPtr; ^ aliparse.c: In function 's_ProcessContigSeq': aliparse.c:1476:18: warning: variable 'errPtr' set but not used [-Wunused-but-set-variable] ErrInfoPtr errPtr; ^ aliparse.c: In function 's_AnalyzeContiguous': aliparse.c:1603:36: warning: suggest parentheses around '&&' within '||' [-Wparentheses] (seqLinePtr->maybe == TRUE) && (s_configInfo.useMaybes == TRUE)) ^ aliparse.c: In function 's_CheckContext': aliparse.c:2150:33: warning: suggest parentheses around '&&' within '||' [-Wparentheses] (seqLinePtr->maybe == TRUE) && ^ aliparse.c:2131:20: warning: variable 'errPtr' set but not used [-Wunused-but-set-variable] ErrInfoPtr errPtr; ^ aliparse.c: In function 'PrintOutMultAlign': aliparse.c:3161:10: warning: statement with no effect [-Wunused-value] for (d; dnext = newSeqPart; ^ In file included from ../include/ncbi.h:62:0, from ../include/aliparse.h:12, from aliparse.c:9: ../include/ncbistr.h:337:19: warning: 'currentIdStr' may be used uninitialized in this function [-Wmaybe-uninitialized] #define StringCmp Nlm_StringCmp ^ aliparse.c:631:18: note: 'currentIdStr' was declared here CharPtr currentIdStr; ^ aliparse.c: In function 'Ali_Read': aliparse.c:1355:14: warning: 'previousLength' may be used uninitialized in this function [-Wmaybe-uninitialized] errPtr = Ali_AddError (&(fileInfoPtr->errors),ERR_SEQ_LENGTH_MISMATCH, ^ aliparse.c:1154:20: note: 'previousLength' was declared here Int4 previousLength; ^ aliparse.c:927:18: warning: 'seqLinePtr' may be used uninitialized in this function [-Wmaybe-uninitialized] if (seqLinePtr->sequence != NULL) ^ aliparse.c:820:20: note: 'seqLinePtr' was declared here SeqLineInfoPtr seqLinePtr; ^ aliparse.c:760:3: warning: 'cLineType' may be used uninitialized in this function [-Wmaybe-uninitialized] fprintf(stderr,"%04d: MAYBE SEQUENCE[%c] : %s\n", ^ aliparse.c:723:20: note: 'cLineType' was declared here Char cLineType; ^ aliparse.c: In function 'ALI_ConvertToNCBIData': aliparse.c:3276:4: warning: 'sep_new' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqAlignAddInSeqEntry (sep_head, sanp); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF aliread.c In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from ../include/aliparse.h:15, from aliread.c:6: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF alignval.c alignval.c: In function 'ValidateSeqlengthInDenseSeg': alignval.c:1214:17: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if(stptrtemp[j+i*aligndim]+lenptrtemp[i]>bslen) ^ alignval.c: In function 'PercentStringMatch': alignval.c:1495:32: warning: variable 'max_len' set but not used [-Wunused-but-set-variable] Int4 len1, len2, min_len, k, max_len; ^ alignval.c: In function 'CheckAlnSeqLens': alignval.c:1893:12: warning: variable 'aln_len' set but not used [-Wunused-but-set-variable] Int4 aln_len, start, stop; ^ alignval.c: In function 'ValidateSeqAlign': alignval.c:1991:16: warning: variable 'ans' set but not used [-Wunused-but-set-variable] MsgAnswer ans; ^ alignval.c: In function 'GetAlignmentColumnPercentIdentities': alignval.c:2371:14: warning: variable 'num_match' set but not used [-Wunused-but-set-variable] Int4 num_match; ^ alignval.c: In function 'WeightedAlignmentPercentIdentity': alignval.c:2681:14: warning: variable 'num_match' set but not used [-Wunused-but-set-variable] Int4 num_match; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from alignval.c:57: alignval.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ alignval.c:568:13: warning: 'delete_bioseqs' defined but not used [-Wunused-function] static void delete_bioseqs (ValNodePtr ids, Uint2 entityID) ^ alignval.c:1476:16: warning: 'IsSipContainedInStdseg' defined but not used [-Wunused-function] static Boolean IsSipContainedInStdseg(SeqIdPtr sip, StdSegPtr ssp) ^ alignval.c:1891:13: warning: 'CheckAlnSeqLens' defined but not used [-Wunused-function] static void CheckAlnSeqLens (SeqAlignPtr salp) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF sqnutil1.c sqnutil1.c: In function 'GeneExtendFunc': sqnutil1.c:2514:18: warning: variable 'grp' set but not used [-Wunused-but-set-variable] GeneRefPtr grp; ^ sqnutil1.c: In function 'ParseAnticodon': sqnutil1.c:3961:14: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ sqnutil1.c: In function 'ParseCodeBreak': sqnutil1.c:4081:17: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ sqnutil1.c: In function 'CleanOrgModListEx': sqnutil1.c:6276:48: warning: suggest parentheses around '&&' within '||' [-Wparentheses] } else if (last->subtype == omp->subtype && ^ sqnutil1.c: In function 'CleanUpPubdescAuthors': sqnutil1.c:9213:20: warning: variable 'prev' set but not used [-Wunused-but-set-variable] ValNodePtr PNTR prev; ^ sqnutil1.c: In function 'RemoveUnnecessaryGeneXrefs': sqnutil1.c:14155:24: warning: variable 'count' set but not used [-Wunused-but-set-variable] Int2 count; ^ sqnutil1.c: In function 'LinkTwoFeatures': sqnutil1.c:18204:25: warning: variable 'prev_xref' set but not used [-Wunused-but-set-variable] SeqFeatXrefPtr xref, prev_xref, next_xref; ^ sqnutil1.c: In function 'RemoveBadCodonRecognizedCallback': sqnutil1.c:18750:13: warning: variable 'rcodon' set but not used [-Wunused-but-set-variable] Uint1 rcodon [4]; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from sqnutil1.c:63: sqnutil1.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ sqnutil1.c:2509:16: warning: 'GeneExtendFunc' defined but not used [-Wunused-function] static Boolean GeneExtendFunc (GatherContextPtr gcp) ^ sqnutil1.c:5290:13: warning: 'CleanupConsSplice' defined but not used [-Wunused-function] static void CleanupConsSplice (GBQualPtr gbq) ^ sqnutil1.c:7645:16: warning: 'IsStringSingleToken' defined but not used [-Wunused-function] static Boolean IsStringSingleToken (CharPtr str) ^ sqnutil1.c:10250:13: warning: 'SortGoTermsSfp' defined but not used [-Wunused-function] static void SortGoTermsSfp ( ^ sqnutil1.c:10364:16: warning: 'CleanUpSgml' defined but not used [-Wunused-function] static CharPtr CleanUpSgml ( ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF sqnutil2.c sqnutil2.c: In function 'FindResidueByName': sqnutil2.c:5197:11: warning: variable 'last' set but not used [-Wunused-but-set-variable] Uint1 last; ^ sqnutil2.c: In function 'ReadFeatureTableEx': sqnutil2.c:7202:18: warning: variable 'isnote' set but not used [-Wunused-but-set-variable] Boolean isnote; ^ sqnutil2.c:7194:18: warning: variable 'endsinspace' set but not used [-Wunused-but-set-variable] Boolean endsinspace; ^ sqnutil2.c: In function 'SeqEntryCopyReplace': sqnutil2.c:9199:8: warning: variable 'type' set but not used [-Wunused-but-set-variable] Uint1 type = 0; ^ sqnutil2.c: In function 'StreamingReadBioseq': sqnutil2.c:10024:10: warning: variable 'level' set but not used [-Wunused-but-set-variable] Int2 level; ^ sqnutil2.c: In function 'StreamAsnForDescriptors': sqnutil2.c:10257:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (rval = StreamingReadSeqEntry (aip, sp, &sr)) { ^ sqnutil2.c: In function 'StreamingReadWriteSeqSubmit': sqnutil2.c:10637:1: warning: label 'ret' defined but not used [-Wunused-label] ret: ^ sqnutil2.c: In function 'WriteAsnWithReplacedDescriptors': sqnutil2.c:10676:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (rval = StreamingReadWriteSeqEntry(desc_stream_list, aip_in, aip_out, sp)) { ^ sqnutil2.c: In function 'ReadFeatureTableFile': sqnutil2.c:11627:18: warning: variable 'begin' set but not used [-Wunused-but-set-variable] Int4 begin; ^ sqnutil2.c: In function 'ReadFastaOnly': sqnutil2.c:11821:18: warning: variable 'seqid' set but not used [-Wunused-but-set-variable] Char seqid [2048]; ^ sqnutil2.c: In function 'ReadDeltaFastaWithEmptyDefline': sqnutil2.c:12352:29: warning: variable 'seqid' set but not used [-Wunused-but-set-variable] Char line [4096], seqid [2048]; ^ sqnutil2.c: In function 'PrintQualityScoresToBuffer': sqnutil2.c:12958:17: warning: variable 'entityID' set but not used [-Wunused-but-set-variable] Uint2 entityID; ^ sqnutil2.c: In function 'GetScoresbySeqId': sqnutil2.c:13367:17: warning: variable 'entityID' set but not used [-Wunused-but-set-variable] Uint2 entityID; ^ sqnutil2.c: In function 'IsStringInSpanInList': sqnutil2.c:17223:11: warning: variable 'str_val' set but not used [-Wunused-but-set-variable] Int4 str_val; ^ sqnutil2.c:17221:27: warning: variable 'suffix_len' set but not used [-Wunused-but-set-variable] Int4 prefix_len = 0, suffix_len; ^ sqnutil2.c: In function 'CreateStructuredCommentsFromFile': sqnutil2.c:19251:35: warning: variable 'vnp_h' set but not used [-Wunused-but-set-variable] ValNodePtr table, header, line, vnp_h, vnp_l, tmp; ^ sqnutil2.c: In function 'AlignmentIntervalToString': sqnutil2.c:19615:14: warning: variable 'target_strand' set but not used [-Wunused-but-set-variable] Uint1 target_strand; ^ sqnutil2.c:19614:14: warning: variable 'seq_len' set but not used [-Wunused-but-set-variable] Int4 seq_len; ^ sqnutil2.c: In function 'AdjustForConsensusSpliceCallback': sqnutil2.c:20781:33: warning: variable 'partial5_last' set but not used [-Wunused-but-set-variable] Boolean partial5, partial3, partial5_last, partial3_last, first = TRUE; ^ sqnutil2.c: In function 'RemoveGIProc': sqnutil2.c:21356:18: warning: variable 'nextid' set but not used [-Wunused-but-set-variable] SeqIdPtr nextid, sip; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from sqnutil2.c:58: sqnutil2.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ sqnutil2.c:4661:16: warning: 'IsNonSeqChar' defined but not used [-Wunused-function] static Boolean IsNonSeqChar (Char ch, Boolean is_prot) ^ sqnutil2.c:8266:16: warning: 'DoesSeqEntryAccessionMatchList' defined but not used [-Wunused-function] static Boolean DoesSeqEntryAccessionMatchList (SeqEntryPtr sep, ValNodePtr accn_list) ^ sqnutil2.c:16055:13: warning: 'RevCompFeatsOnBioseq' defined but not used [-Wunused-function] static void RevCompFeatsOnBioseq (BioseqPtr bsp) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF sqnutil3.c sqnutil3.c: In function 'BspLinkCDSmRNAbyOverlap': sqnutil3.c:526:22: warning: variable 'count' set but not used [-Wunused-but-set-variable] Int2 count; ^ sqnutil3.c: In function 'CautiousSeqEntryCleanup': sqnutil3.c:2265:16: warning: variable 'taxserver' set but not used [-Wunused-but-set-variable] Boolean taxserver; ^ sqnutil3.c: In function 'ConvertSegSetsToDeltaSequences': sqnutil3.c:3376:17: warning: variable 'bsp' set but not used [-Wunused-but-set-variable] BioseqPtr bsp, new_bsp = NULL; ^ sqnutil3.c:3370:26: warning: variable 'prev_sep' set but not used [-Wunused-but-set-variable] SeqEntryPtr sub_sep, prev_sep, next_sep; ^ sqnutil3.c: In function 'MakeSequinDataFromAlignmentEx': sqnutil3.c:5124:32: warning: variable 'num_sets' set but not used [-Wunused-but-set-variable] Int4 index, curr_seg, num_sets; ^ sqnutil3.c:5118:26: warning: variable 'salp_last' set but not used [-Wunused-but-set-variable] SeqAlignPtr salp_list, salp_last; ^ sqnutil3.c:5118:15: warning: variable 'salp_list' set but not used [-Wunused-but-set-variable] SeqAlignPtr salp_list, salp_last; ^ sqnutil3.c: In function 'GetCDSformRNA': sqnutil3.c:19157:8: warning: variable 'count' set but not used [-Wunused-but-set-variable] Int2 count; ^ sqnutil3.c: In function 'FindTextInFlatfileEx': sqnutil3.c:20891:19: warning: variable 'okay' set but not used [-Wunused-but-set-variable] Boolean okay; ^ sqnutil3.c: In function 'CheckForTitleAuthorConflicts': sqnutil3.c:21972:14: warning: variable 'author_conflict' set but not used [-Wunused-but-set-variable] Boolean author_conflict = FALSE; ^ sqnutil3.c: In function 'SortVnpByBspProjectId': sqnutil3.c:25733:31: warning: the comparison will always evaluate as 'true' for the address of 'vnp2' will never be NULL [-Waddress] if (vnp1 != NULL &&& vnp2 != NULL) { ^ sqnutil3.c: In function 'GetDiscrepancyItemTextEx': sqnutil3.c:28202:21: warning: variable 'special_flag' set but not used [-Wunused-but-set-variable] Boolean special_flag = FALSE; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from sqnutil3.c:62: sqnutil3.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ sqnutil3.c:9621:19: warning: 'FreePrefixCheckList' defined but not used [-Wunused-function] static ValNodePtr FreePrefixCheckList (ValNodePtr prefix_list) ^ sqnutil3.c:9672:25: warning: 'InconsistentLocusTagPrefix' defined but not used [-Wunused-function] static ClickableItemPtr InconsistentLocusTagPrefix (PrefixCheckPtr pcp) ^ sqnutil3.c:9755:13: warning: 'GeneLocusTagDiscrepancyCallback' defined but not used [-Wunused-function] static void GeneLocusTagDiscrepancyCallback (ValNodePtr item_list, Pointer userdata) ^ sqnutil3.c:10252:13: warning: 'ExtractVnpByStringSearch' defined but not used [-Wunused-function] static void ExtractVnpByStringSearch (ValNodePtr PNTR list, CharPtr search) ^ sqnutil3.c:13399:16: warning: 'ContainsBracketsOrParentheses' defined but not used [-Wunused-function] static Boolean ContainsBracketsOrParentheses (CharPtr pattern, CharPtr search) ^ sqnutil3.c:16581:24: warning: 'IntervalPairFree' defined but not used [-Wunused-function] static IntervalPairPtr IntervalPairFree (IntervalPairPtr i) ^ sqnutil3.c:18676:24: warning: 'SortVnpByHaplotypeThenSequenceAllowNDiff' defined but not used [-Wunused-function] static int LIBCALLBACK SortVnpByHaplotypeThenSequenceAllowNDiff (VoidPtr ptr1, VoidPtr ptr2) ^ sqnutil3.c:19971:16: warning: 'FeatureCountHasNumFeats' defined but not used [-Wunused-function] static Boolean FeatureCountHasNumFeats (ValNodePtr vnp, Pointer data) ^ sqnutil3.c:23725:13: warning: 'FindSuspectrRNAProductsCallback' defined but not used [-Wunused-function] static void FindSuspectrRNAProductsCallback (SeqFeatPtr sfp, Pointer data) ^ sqnutil3.c:31396:13: warning: 'FindBadGPS' defined but not used [-Wunused-function] static void FindBadGPS (BioseqPtr bsp, Pointer userdata) ^ sqnutil3.c:31404:1: warning: 'BarcodeTestForSeqEntry' defined but not used [-Wunused-function] BarcodeTestForSeqEntry ^ sqnutil3.c:33544:13: warning: 'TestLatLonFormatting' defined but not used [-Wunused-function] static void TestLatLonFormatting (FILE *fp) ^ sqnutil3.c: In function 'FillInMissingTraces': sqnutil3.c:31968:5: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ sqnutil3.c: In function 'LinkCDSmRNAbyLabelAndLocationCallback': sqnutil3.c:889:23: warning: 'best_diff' may be used uninitialized in this function [-Wmaybe-uninitialized] } else if (diff < best_diff) { ^ sqnutil3.c: In function 'ValidateInferenceQualifier': sqnutil3.c:6030:6: warning: 'rest' may be used uninitialized in this function [-Wmaybe-uninitialized] if (rest == NULL) return BAD_INFERENCE_BODY; ^ sqnutil3.c:6028:6: warning: 'best' may be used uninitialized in this function [-Wmaybe-uninitialized] if (best < 0 || inferencePrefix [best] == NULL) return BAD_INFERENCE_PREFIX; ^ sqnutil3.c: In function 'tRNASameStrandBioseqCallback': sqnutil3.c:16126:8: warning: 'strand' may be used uninitialized in this function [-Wmaybe-uninitialized] if (strand == Seq_strand_minus) { ^ sqnutil3.c: In function 'CheckForDivConflicts': sqnutil3.c:7901:11: warning: 'sdp' may be used uninitialized in this function [-Wmaybe-uninitialized] else ValNodeAddPointer(&(grp_sdp[i]), OBJ_SEQDESC, sdp); ^ sqnutil3.c: In function 'FindMismatchedComments': sqnutil3.c:25390:47: warning: 'sdp' may be used uninitialized in this function [-Wmaybe-uninitialized] sprintf (fmt, sub_fmt, (CharPtr) sdp->data.ptrvalue); ^ sqnutil3.c: In function 'FixCountryColons': sqnutil3.c:7523:14: warning: 'biop' may be used uninitialized in this function [-Wmaybe-uninitialized] for (ssp = biop->subtype; ssp != NULL; ssp = ssp->next) { ^ sqnutil3.c: In function 'AddmRNAForCDS': sqnutil3.c:19565:10: warning: 'rna' may be used uninitialized in this function [-Wmaybe-uninitialized] return rna; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF sqnutil4.c sqnutil4.c: In function 'ListClauses': sqnutil4.c:8272:43: warning: variable 'twobefore' set but not used [-Wunused-but-set-variable] FeatureClausePtr thisclause, onebefore, twobefore, oneafter, twoafter; ^ sqnutil4.c: In function 'SmashOneTallClause': sqnutil4.c:9576:20: warning: variable 'subclause_featlist' set but not used [-Wunused-but-set-variable] ValNodePtr subclause_featlist; ^ sqnutil4.c: In function 'GetFeatureClauseForSeg': sqnutil4.c:10448:21: warning: variable 'start' set but not used [-Wunused-but-set-variable] Int4 start, stop; ^ sqnutil4.c: In function 'IsAmplifiedMiscFeat': sqnutil4.c:10701:9: warning: suggest parentheses around '&&' within '||' [-Wparentheses] && (StringNICmp (sfp->comment, phrase1, StringLen (phrase1)) == 0) ^ sqnutil4.c: In function 'ConvertProtToImpFunc': sqnutil4.c:13849:17: warning: variable 'entityID' set but not used [-Wunused-but-set-variable] Uint2 entityID; ^ sqnutil4.c: In function 'ExtraCDSCreationActions': sqnutil4.c:14728:28: warning: variable 'nsep' set but not used [-Wunused-but-set-variable] SeqEntryPtr psep, nsep; ^ sqnutil4.c: In function 'TESTDisplayQualCombo': sqnutil4.c:15752:20: warning: variable 'val' set but not used [-Wunused-but-set-variable] Int4 val; ^ sqnutil4.c: In function 'ConvertCDSToMatPeptideForOverlappingCDS': sqnutil4.c:17198:15: warning: variable 'crp' set but not used [-Wunused-but-set-variable] CdRegionPtr crp; ^ sqnutil4.c: In function 'AddNewUniqueAnnotations': sqnutil4.c:17372:39: warning: variable 'sap_tmp_next' set but not used [-Wunused-but-set-variable] SeqAnnotPtr sap, sap_next, sap_tmp, sap_tmp_next, sap_copy, last_sap; ^ sqnutil4.c: In function 'AssignBioseqToLineageGroup': sqnutil4.c:18024:27: warning: variable 'vnp_last' set but not used [-Wunused-but-set-variable] ValNodePtr list, vnp, vnp_last = NULL; ^ sqnutil4.c: In function 'ImportNucleotideFASTASequencesFromFile': sqnutil4.c:26442:17: warning: variable 'count' set but not used [-Wunused-but-set-variable] Int4 count; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from sqnutil4.c:58: sqnutil4.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/tax3api.h:51:0, from sqnutil4.c:63: ../include/objtax3.h:183:31: warning: 'Value_valueFree' declared 'static' but never defined [-Wunused-function] static Value_valuePtr LIBCALL Value_valueFree PROTO ((Value_valuePtr )); ^ ../include/objtax3.h:184:31: warning: 'Value_valueAsnRead' declared 'static' but never defined [-Wunused-function] static Value_valuePtr LIBCALL Value_valueAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objtax3.h:185:24: warning: 'Value_valueAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Value_valueAsnWrite PROTO (( Value_valuePtr , AsnIoPtr, AsnTypePtr)); ^ sqnutil4.c:4945:13: warning: 'CountFeatures' defined but not used [-Wunused-function] static Int4 CountFeatures ( ^ sqnutil4.c:9510:13: warning: 'RemoveFeats' defined but not used [-Wunused-function] static void RemoveFeats ( ^ sqnutil4.c:9674:13: warning: 'SmashTallClauses' defined but not used [-Wunused-function] static void SmashTallClauses ( ^ sqnutil4.c:9705:19: warning: 'RemoveAllButLastCDS' defined but not used [-Wunused-function] static ValNodePtr RemoveAllButLastCDS ( ^ sqnutil4.c:15584:16: warning: 'RemoveFieldFromUniqBioSrcGrpList' defined but not used [-Wunused-function] static Boolean RemoveFieldFromUniqBioSrcGrpList (ValNodePtr list, FieldTypePtr field) ^ sqnutil4.c:15872:19: warning: 'ExpandOneComboListUsingAllPresentQuals' defined but not used [-Wunused-function] static ValNodePtr ExpandOneComboListUsingAllPresentQuals (QualComboPtr q) ^ sqnutil4.c:15901:13: warning: 'TESTDisplayList' defined but not used [-Wunused-function] static void TESTDisplayList (ValNodePtr new_list) ^ sqnutil4.c: In function 'ConvertProtToImpFunc': sqnutil4.c:14023:13: warning: 'topOfGbqList' may be used uninitialized in this function [-Wmaybe-uninitialized] sfp->qual = topOfGbqList; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF subutil.c subutil.c: In function 'AddSeqLitToBioseq': subutil.c:769:16: warning: variable 'vnp' set but not used [-Wunused-but-set-variable] ValNodePtr vnp; ^ subutil.c: In function 'AddReferenceToSegmentedEntry': subutil.c:1163:22: warning: variable 'prev' set but not used [-Wunused-but-set-variable] SeqEntryPtr tmp, prev; ^ subutil.c: In function 'GetDNAConv': subutil.c:1624:15: warning: array subscript has type 'char' [-Wchar-subscripts] dnaconv[*ptr] = *ptr; ^ subutil.c: In function 'GetProteinConv': subutil.c:1646:16: warning: array subscript has type 'char' [-Wchar-subscripts] protconv[*ptr] = *ptr; ^ subutil.c: In function 'AddBasesToByteStore': subutil.c:1669:26: warning: array subscript has type 'char' [-Wchar-subscripts] residue = dnaconv[ch]; ^ subutil.c: In function 'AddAAsToByteStore': subutil.c:1700:25: warning: array subscript has type 'char' [-Wchar-subscripts] residue = aaconv[ch]; ^ subutil.c: In function 'CitArtBuild': subutil.c:2683:21: warning: variable 'tmp' set but not used [-Wunused-but-set-variable] ValNodePtr vnp, tmp; ^ subutil.c: At top level: subutil.c:3546:20: warning: 'TranslateCdRegionNew' defined but not used [-Wunused-function] static SeqEntryPtr TranslateCdRegionNew ( ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF edutil.c edutil.c: In function 'SeqLocsToDeltaSeqs': edutil.c:795:14: warning: variable 'sip' set but not used [-Wunused-but-set-variable] SeqIdPtr sip; ^ edutil.c: In function 'SeqLocCopyPart': edutil.c:2243:13: warning: variable 'done' set but not used [-Wunused-but-set-variable] Boolean done, started, wasa_null, hada_null; ^ edutil.c: In function 'IndexedSeqFeatsCopy': edutil.c:2400:16: warning: variable 'region' set but not used [-Wunused-but-set-variable] ValNodePtr region; ^ edutil.c: In function 'SeqFeatsCopy': edutil.c:2504:16: warning: variable 'region' set but not used [-Wunused-but-set-variable] ValNodePtr region; ^ edutil.c: In function 'SeqLocInsert': edutil.c:3686:10: warning: variable 'diff' set but not used [-Wunused-but-set-variable] Int4 diff, numpnt, i, tpos; ^ edutil.c: In function 'SeqEdRecreateDeletedFeats': edutil.c:4212:19: warning: variable 'sfp' set but not used [-Wunused-but-set-variable] SeqFeatPtr sfp; ^ edutil.c: In function 'SeqEdSeqLocInsert': edutil.c:4512:8: warning: variable 'diff' set but not used [-Wunused-but-set-variable] Int4 diff, numpnt, i, tpos; ^ edutil.c: In function 'SeqEdSeqLocDelete': edutil.c:5069:10: warning: variable 'diff' set but not used [-Wunused-but-set-variable] Int4 diff; ^ edutil.c: In function 'SeqEdInsertAdjustFeat': edutil.c:5300:7: warning: suggest parentheses around '&&' within '||' [-Wparentheses] && sfp->data.choice == SEQFEAT_CDREGION) ^ edutil.c: In function 'SeqEdDeleteFromBsp': edutil.c:6485:11: warning: suggest parentheses around '&&' within '||' [-Wparentheses] && sfp->data.choice == SEQFEAT_CDREGION) ^ edutil.c:6548:11: warning: suggest parentheses around '&&' within '||' [-Wparentheses] && sfp->data.choice == SEQFEAT_CDREGION) ^ edutil.c:6437:21: warning: variable 'merge_mode' set but not used [-Wunused-but-set-variable] Boolean merge_mode; ^ edutil.c:6428:21: warning: variable 'feats_altered' set but not used [-Wunused-but-set-variable] Boolean feats_altered = FALSE; ^ edutil.c: In function 'BioseqCopyEx': edutil.c:2152:25: warning: 'head' may be used uninitialized in this function [-Wmaybe-uninitialized] newbsp->seq_ext = (Pointer)head; ^ edutil.c: In function 'BioseqInsert': cc1: warning: assuming signed overflow does not occur when assuming that (X - c) > X is always false [-Wstrict-overflow] edutil.c: In function 'SeqEdInsert': cc1: warning: assuming signed overflow does not occur when assuming that (X - c) > X is always false [-Wstrict-overflow] gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF asn2ff1.c asn2ff1.c: In function 'asn2ff_print': asn2ff1.c:289:17: warning: unused variable 'dsp' [-Wunused-variable] DescrStructPtr dsp = NULL; ^ asn2ff1.c: In function 'Asn2ffJobCreate': asn2ff1.c:351:18: warning: unused variable 'itemID' [-Wunused-variable] Uint4 itemID = 0; ^ asn2ff1.c: In function 'SeqEntryToEntrez': asn2ff1.c:498:15: warning: unused variable 'slp' [-Wunused-variable] SeqLocPtr slp = NULL; ^ asn2ff1.c: In function 'SeqLocToFlat': asn2ff1.c:1518:19: warning: unused variable 'itemID' [-Wunused-variable] Uint4 itemID=0; ^ asn2ff1.c: In function 'asn2ff_setup': asn2ff1.c:1579:12: warning: variable 'bsp' set but not used [-Wunused-but-set-variable] BioseqPtr bsp; ^ asn2ff1.c: In function 'PrintStatusLine': asn2ff1.c:2197:15: warning: unused variable 'ptr' [-Wunused-variable] CharPtr u, ptr=NULL; ^ asn2ff1.c: In function 'asn2gb_setup': asn2ff1.c:2403:24: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if (ajp->genome_view && gbp->map == FALSE || ajp->contig_view) { ^ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from asn2ff1.c:45: asn2ff1.c: At top level: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ asn2ff1.c:816:19: warning: 'SeqEntryToLinkStrEx' defined but not used [-Wunused-function] static LinkStrPtr SeqEntryToLinkStrEx(Asn2ffJobPtr ajp, SeqEntryPtr sep, LinkStrPtr lsp, Uint1 format) ^ asn2ff1.c:2171:16: warning: 'find_user_object' defined but not used [-Wunused-function] static Boolean find_user_object(BioseqPtr bsp) ^ asn2ff1.c:2189:13: warning: 'PrintStatusLine' defined but not used [-Wunused-function] static void PrintStatusLine(Asn2ffJobPtr ajp, GBEntryPtr gbp) ^ asn2ff1.c: In function 'asn2embl_setup': asn2ff1.c:2754:7: warning: 'max' may be used uninitialized in this function [-Wmaybe-uninitialized] if (max == index+1) { ^ asn2ff1.c: In function 'asn2gp_setup': asn2ff1.c:2942:4: warning: 'feat_num' may be used uninitialized in this function [-Wmaybe-uninitialized] for (index=0; index < feat_num; index++) { ^ asn2ff1.c: In function 'SeqEntryToGBFlatNoSeq': asn2ff1.c:1292:15: warning: 'rsult' may be used uninitialized in this function [-Wmaybe-uninitialized] Boolean rsult; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF asn2ff2.c asn2ff2.c: In function 'GetStrForBankit': asn2ff2.c:518:9: warning: unused variable 'i' [-Wunused-variable] Int2 i=0, ptrlen = 0; ^ asn2ff2.c: In function 'GetCommentByChoice': asn2ff2.c:769:34: warning: unused variable 'string' [-Wunused-variable] CharPtr buf = NULL, ptr = NULL, string=NULL, new_string=NULL, str=NULL; ^ asn2ff2.c: In function 'GP_GetSeqDescrComms': asn2ff2.c:1163:10: warning: unused variable 'got_comment' [-Wunused-variable] Boolean got_comment=FALSE; ^ asn2ff2.c: At top level: asn2ff2.c:1358:8: warning: return type defaults to 'int' [-Wimplicit-int] static ChoicePID(SeqIdPtr sid) ^ asn2ff2.c: In function 'GetGibbsqCommentLength': asn2ff2.c:1600:7: warning: unused variable 'gibbsq' [-Wunused-variable] Int4 gibbsq=0, total; ^ asn2ff2.c: In function 'GatherDescrByChoice': asn2ff2.c:1864:8: warning: variable 'bspID' set but not used [-Wunused-but-set-variable] Uint2 bspID; ^ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from asn2ff2.c:218: asn2ff2.c: At top level: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ asn2ff2.c:232:16: warning: 'has_comment' defined but not used [-Wunused-variable] static Boolean has_comment; ^ asn2ff2.c:680:16: warning: 'GetEvidence' defined but not used [-Wunused-function] static CharPtr GetEvidence(Asn2ffJobPtr ajp, GBEntryPtr gbp) ^ asn2ff2.c:1190:16: warning: 'GetSPBlock' defined but not used [-Wunused-function] static CharPtr GetSPBlock (Asn2ffJobPtr ajp, GBEntryPtr gbp) ^ asn2ff2.c: In function 'GetCommentByChoice': asn2ff2.c:829:8: warning: 'is_other' may be used uninitialized in this function [-Wmaybe-uninitialized] if (is_other == TRUE && mfp->completeness) { ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF asn2ff3.c asn2ff3.c: In function 'PutGeneFirst': asn2ff3.c:1662:26: warning: unused variable 'qual_temp' [-Wunused-variable] GBQualPtr gbqual, qual, qual_temp=NULL, qual_gene=NULL; ^ asn2ff3.c:1661:10: warning: unused variable 'still_looking' [-Wunused-variable] Boolean still_looking=TRUE; ^ asn2ff3.c: In function 'mRNAEvidenceComment': asn2ff3.c:1746:9: warning: unused variable 'Locus_id' [-Wunused-variable] Int4 Locus_id = 0; ^ asn2ff3.c: In function 'Add_gene_id': asn2ff3.c:3306:15: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'Nlm_VoidPtr {aka void *}' [-Wformat=] sprintf(val, "GeneID:%s", vnp->data.ptrvalue); ^ asn2ff3.c: In function 'Add_trid': asn2ff3.c:3712:7: warning: unused variable 'gi' [-Wunused-variable] Int4 gi = -1; ^ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from asn2ff3.c:628: asn2ff3.c: At top level: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ asn2ff3.c:3291:13: warning: 'Add_gene_id' defined but not used [-Wunused-function] static void Add_gene_id (GeneStructPtr gsp, SeqFeatPtr sfp_out) ^ In file included from ../include/ncbi.h:59:0, from ../include/asn.h:54, from ../include/asn2ffg.h:200, from ../include/asn2ffp.h:372, from asn2ff3.c:628: asn2ff3.c: In function 'Add_dbxref.isra.0': ../include/ncbimem.h:232:23: warning: 'val' may be used uninitialized in this function [-Wmaybe-uninitialized] #define MemFree Nlm_MemFree ^ asn2ff3.c:805:10: note: 'val' was declared here CharPtr val; ^ asn2ff3.c: In function 'GettRNAaa': asn2ff3.c:2185:8: warning: 'seq_code' may be used uninitialized in this function [-Wmaybe-uninitialized] Uint1 seq_code; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF asn2ff4.c asn2ff4.c: In function 'FlatLocPoint': asn2ff4.c:437:15: warning: variable 'order' set but not used [-Wunused-but-set-variable] static Uint1 order[NUM_SEQID]; ^ asn2ff4.c: In function 'do_FlatLoc': asn2ff4.c:1122:7: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if ( ! FlatVirtLoc( bsp, slp)) ^ asn2ff4.c: At top level: asn2ff4.c:1347:8: warning: return type defaults to 'int' [-Wimplicit-int] static CmpImpFeat (ImpFeatPtr f1, ImpFeatPtr f2) ^ asn2ff4.c: In function 'CreateImpFeatFromProt': asn2ff4.c:1659:14: warning: variable 'grp' set but not used [-Wunused-but-set-variable] GeneRefPtr grp; ^ asn2ff4.c: In function 'MatchNAGeneToFeat': asn2ff4.c:2196:17: warning: variable 'nsp' set but not used [-Wunused-but-set-variable] NoteStructPtr nsp; /* UNUSED */ ^ asn2ff4.c: In function 'MatchAAGeneToFeat': asn2ff4.c:2367:18: warning: variable 'nsp' set but not used [-Wunused-but-set-variable] NoteStructPtr nsp; /* UNUSED */ ^ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from asn2ff4.c:273: asn2ff4.c: At top level: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ asn2ff4.c: In function 'CheckNewSfpLoc.isra.0': asn2ff4.c:1767:7: warning: 'slp' may be used uninitialized in this function [-Wmaybe-uninitialized] if (SeqLocLen(slp) <= BioseqGetLen(bsp)) { ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF asn2ff5.c asn2ff5.c: In function 'format_cit_sub': asn2ff5.c:1023:36: warning: suggest parentheses around '&&' within '||' [-Wparentheses] format == EMBLPEPT_FMT && afp->choice == 1) ^ asn2ff5.c:926:41: warning: variable 'need_space' set but not used [-Wunused-but-set-variable] Boolean need_comma = FALSE, /*UNUSED*/need_space = TRUE; ^ asn2ff5.c: In function 'format_thesis': asn2ff5.c:1213:20: warning: variable 'embl_format' set but not used [-Wunused-but-set-variable] Boolean /*UNUSED*/embl_format = FALSE; ^ asn2ff5.c: In function 'format_book': asn2ff5.c:1296:10: warning: variable 'embl_format' set but not used [-Wunused-but-set-variable] Boolean embl_format = FALSE; ^ asn2ff5.c: In function 'format_jourarticle': asn2ff5.c:1680:7: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (ip->pages != NULL) ^ asn2ff5.c: In function 'StripParanthesis': asn2ff5.c:2124:12: warning: value computed is not used [-Wunused-value] temp++; *ptr_in++; ^ asn2ff5.c: In function 'PostARefErrMessage': asn2ff5.c:3005:20: warning: variable 'ignore_this' set but not used [-Wunused-but-set-variable] Boolean /*UNUSED*/ignore_this, submit=FALSE, error; ^ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from asn2ff5.c:177: asn2ff5.c: At top level: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ asn2ff5.c:188:26: warning: 'GetSubmitterName' declared 'static' but never defined [-Wunused-function] static CharPtr /*UNUSED*/GetSubmitterName PROTO ((Uint1 format, ValNodePtr pub)); ^ asn2ff5.c: In function 'FlatJournal': asn2ff5.c:1051:11: warning: 'afp' may be used uninitialized in this function [-Wmaybe-uninitialized] AffilPtr afp; ^ asn2ff5.c:2073:10: warning: 'temp' may be used uninitialized in this function [-Wmaybe-uninitialized] temp = StringMove (temp," "); ^ asn2ff5.c:1946:23: note: 'temp' was declared here CharPtr affil=NULL, temp, dup_pages=NULL, retval=NULL; ^ asn2ff5.c: In function 'CheckPubs': asn2ff5.c:2772:5: warning: 'status' may be used uninitialized in this function [-Wmaybe-uninitialized] PostARefErrMessage (ajp, bsp, psp, NULL, status, NULL); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF asn2ff6.c asn2ff6.c: In function 'AddGBQual': asn2ff6.c:1327:18: warning: variable 'note' set but not used [-Wunused-but-set-variable] GBQualPtr curq, note = NULL; ^ asn2ff6.c: In function 'BioseqGetGBDivCodeEx': asn2ff6.c:1700:23: warning: variable 'diff' set but not used [-Wunused-but-set-variable] Int2 tech, /*UNUSED*/diff, retval = 0; ^ asn2ff6.c: In function 'GR_PrintPubs': asn2ff6.c:2297:41: warning: unused variable 'stop' [-Wunused-variable] Int4 muid, pmid, pat_seqid=0, start=0, stop=0; ^ asn2ff6.c:2297:32: warning: unused variable 'start' [-Wunused-variable] Int4 muid, pmid, pat_seqid=0, start=0, stop=0; ^ asn2ff6.c:2297:13: warning: variable 'pmid' set but not used [-Wunused-but-set-variable] Int4 muid, pmid, pat_seqid=0, start=0, stop=0; ^ asn2ff6.c:2296:10: warning: unused variable 'descr' [-Wunused-variable] CharPtr descr = NULL; ^ asn2ff6.c: In function 'ValidateLocus': asn2ff6.c:2786:17: warning: variable 'base_locus_max' set but not used [-Wunused-but-set-variable] Int2 /*UNUSED*/base_locus_max, buf_index, exp, length, num_of_digits; ^ asn2ff6.c: In function 'ValidateOtherAccession': asn2ff6.c:2886:29: warning: unused variable 'FiveNum' [-Wunused-variable] Boolean FirstLetter=FALSE, FiveNum = FALSE; ^ asn2ff6.c:2886:10: warning: unused variable 'FirstLetter' [-Wunused-variable] Boolean FirstLetter=FALSE, FiveNum = FALSE; ^ asn2ff6.c: In function 'AddExtraAccessions': asn2ff6.c:3498:20: warning: variable 'ncbi' set but not used [-Wunused-but-set-variable] Boolean /*UNUSED*/ncbi = FALSE; ^ In file included from ../include/asn2ff6.h:142:0, from asn2ff6.c:347: asn2ff6.c: At top level: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ asn2ff6.c:2883:13: warning: 'ValidateOtherAccession' defined but not used [-Wunused-function] static Int2 ValidateOtherAccession(CharPtr new_buf, CharPtr orig_buf) ^ asn2ff6.c: In function 'ValidateLocus': asn2ff6.c:2786:44: warning: 'exp' may be used uninitialized in this function [-Wmaybe-uninitialized] Int2 /*UNUSED*/base_locus_max, buf_index, exp, length, num_of_digits; ^ asn2ff6.c: In function 'MakeBaseLocusAwp': asn2ff6.c:3070:49: warning: 'num_of_digits' may be used uninitialized in this function [-Wmaybe-uninitialized] Int2 index, length, base_locus_max, name_len, num_of_digits, num_seg; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF asn2gnb1.c asn2gnb1.c: In function 'IsWholeWordSubstr': asn2gnb1.c:2092:19: warning: variable 'right' set but not used [-Wunused-but-set-variable] Boolean left, right; ^ asn2gnb1.c: In function 'DoOneSection': asn2gnb1.c:2363:24: warning: variable 'iasp' set but not used [-Wunused-but-set-variable] IntAsn2gbSectPtr iasp; ^ asn2gnb1.c:2357:24: warning: variable 'bkmask' set but not used [-Wunused-but-set-variable] BlockMask bkmask; ^ asn2gnb1.c: In function 'Count2Seg': asn2gnb1.c:3215:18: warning: variable 'to' set but not used [-Wunused-but-set-variable] Int4 to; ^ asn2gnb1.c:3213:18: warning: variable 'parent' set but not used [-Wunused-but-set-variable] BioseqPtr parent; ^ asn2gnb1.c: At top level: asn2gnb1.c:3492:3: warning: missing braces around initializer [-Wmissing-braces] {TRUE, TRUE, TRUE, TRUE, TRUE, ^ asn2gnb1.c:3492:3: note: (near initialization for 'flagTable[0]') asn2gnb1.c:3500:3: warning: missing braces around initializer [-Wmissing-braces] {FALSE, TRUE, TRUE, TRUE, TRUE, ^ asn2gnb1.c:3500:3: note: (near initialization for 'flagTable[1]') asn2gnb1.c:3508:3: warning: missing braces around initializer [-Wmissing-braces] {FALSE, FALSE, FALSE, FALSE, FALSE, ^ asn2gnb1.c:3508:3: note: (near initialization for 'flagTable[2]') asn2gnb1.c:3516:3: warning: missing braces around initializer [-Wmissing-braces] {FALSE, FALSE, FALSE, FALSE, FALSE, ^ asn2gnb1.c:3516:3: note: (near initialization for 'flagTable[3]') asn2gnb1.c:3489:33: warning: missing braces around initializer [-Wmissing-braces] static ModeFlags flagTable [] = { ^ asn2gnb1.c:3489:33: note: (near initialization for 'flagTable') asn2gnb1.c: In function 'SeqIdWriteForTable': asn2gnb1.c:5571:13: warning: variable 'pdb' set but not used [-Wunused-but-set-variable] pdb = NULL, general = NULL, gi = NULL; ^ asn2gnb1.c:5570:40: warning: variable 'patent' set but not used [-Wunused-but-set-variable] SeqIdPtr accn = NULL, local = NULL, patent = NULL, ^ In file included from ../include/ncbi.h:58:0, from asn2gnb1.c:43: asn2gnb1.c: In function 'DoImmediateFormat': ../include/ncbistd.h:286:22: warning: comparison between 'enum ' and 'enum ' [-Wenum-compare] #define MAX(a,b) ((a)>=(b)?(a):(b)) ^ asn2gnb1.c:6704:19: note: in expansion of macro 'MAX' max = (size_t) (MAX (ASN2GNBK_TOTAL_SOURCE, ASN2GNBK_TOTAL_FEATUR)); ^ asn2gnb1.c:6683:20: warning: variable 'is_www' set but not used [-Wunused-but-set-variable] Boolean is_www; ^ In file included from ../include/ncbi.h:58:0, from asn2gnb1.c:43: asn2gnb1.c: In function 'asn2gnbk_format': ../include/ncbistd.h:286:22: warning: comparison between 'enum ' and 'enum ' [-Wenum-compare] #define MAX(a,b) ((a)>=(b)?(a):(b)) ^ asn2gnb1.c:6825:19: note: in expansion of macro 'MAX' max = (size_t) (MAX (ASN2GNBK_TOTAL_SOURCE, ASN2GNBK_TOTAL_FEATUR)); ^ asn2gnb1.c: In function 'asn2gnbk_cleanup': asn2gnb1.c:6871:21: warning: variable 'iasp' set but not used [-Wunused-but-set-variable] IntAsn2gbSectPtr iasp; ^ asn2gnb1.c: In function 'SeqEntryToGnbk': asn2gnb1.c:7057:22: warning: variable 'userdata' set but not used [-Wunused-but-set-variable] Pointer userdata = NULL; ^ asn2gnb1.c:7052:22: warning: variable 'gbseq' set but not used [-Wunused-but-set-variable] GBSeqPtr gbseq = NULL; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from asn2gnb1.c:58: asn2gnb1.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF asn2gnb2.c asn2gnb2.c: In function 's_LocusAddSuffix': asn2gnb2.c:206:11: warning: variable 'ch' set but not used [-Wunused-but-set-variable] Char ch; ^ asn2gnb2.c: In function 'AddLocusBlock': asn2gnb2.c:1323:66: warning: suggest parentheses around '&&' within '||' [-Wparentheses] } else if ((moltype >= 2 && moltype <= 8) || moltype >= 10 && moltype <= 11) { ^ asn2gnb2.c: In function 'AddDblinkBlock': asn2gnb2.c:2756:22: warning: variable 'parentID' set but not used [-Wunused-but-set-variable] Int4 parentID; ^ asn2gnb2.c: In function 'GetRefsOnBioseq': asn2gnb2.c:5448:22: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ asn2gnb2.c:5445:22: warning: variable 'split' set but not used [-Wunused-but-set-variable] Boolean split; ^ asn2gnb2.c:5439:22: warning: variable 'right' set but not used [-Wunused-but-set-variable] Int4 right; ^ asn2gnb2.c:5433:22: warning: variable 'left' set but not used [-Wunused-but-set-variable] Int4 left; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from asn2gnb2.c:57: asn2gnb2.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF asn2gnb3.c asn2gnb3.c: In function 'GetStatusForRefTrack': asn2gnb3.c:601:22: warning: variable 'urf' set but not used [-Wunused-but-set-variable] UserFieldPtr ufp, urf = NULL; ^ asn2gnb3.c: In function 'GetSourcesOnBioseq': asn2gnb3.c:4151:22: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ asn2gnb3.c:4149:22: warning: variable 'start' set but not used [-Wunused-but-set-variable] Int4 start; ^ asn2gnb3.c:4148:22: warning: variable 'split' set but not used [-Wunused-but-set-variable] Boolean split; ^ asn2gnb3.c: In function 'GetFeatsOnCdsProduct': asn2gnb3.c:5007:22: warning: variable 'isRefSeq' set but not used [-Wunused-but-set-variable] Boolean isRefSeq; ^ asn2gnb3.c: In function 'GetRemoteFeatsOnCdsProduct': asn2gnb3.c:5155:20: warning: variable 'lastsfp' set but not used [-Wunused-but-set-variable] SeqFeatPtr lastsfp; ^ asn2gnb3.c:5154:20: warning: variable 'lastsap' set but not used [-Wunused-but-set-variable] SeqAnnotPtr lastsap; ^ asn2gnb3.c:5153:20: warning: variable 'lastright' set but not used [-Wunused-but-set-variable] Int4 lastright; ^ asn2gnb3.c:5152:20: warning: variable 'lastleft' set but not used [-Wunused-but-set-variable] Int4 lastleft; ^ asn2gnb3.c:5151:20: warning: variable 'isRefSeq' set but not used [-Wunused-but-set-variable] Boolean isRefSeq; ^ asn2gnb3.c: In function 'GetFeatsOnBioseq': asn2gnb3.c:5376:22: warning: variable 'start' set but not used [-Wunused-but-set-variable] Int4 start; ^ asn2gnb3.c:5349:22: warning: variable 'icp' set but not used [-Wunused-but-set-variable] IntCdsBlockPtr icp; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from asn2gnb3.c:57: asn2gnb3.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF asn2gnb4.c asn2gnb4.c: In function 'FormatFeatureBlockQuals': asn2gnb4.c:3591:50: warning: "/*" within comment [-Wcomment] StringChr (str + 1, '(') == NULL /* && StringChr (str, ',') != NULL */) { ^ asn2gnb4.c:2969:24: warning: variable 'split' set but not used [-Wunused-but-set-variable] Boolean split; ^ asn2gnb4.c:2910:24: warning: variable 'at_end' set but not used [-Wunused-but-set-variable] Boolean at_end = FALSE; ^ asn2gnb4.c: In function 'FF_asn2gb_www_featkey': asn2gnb4.c:5180:16: warning: variable 'prefix' set but not used [-Wunused-but-set-variable] CharPtr prefix = "?"; ^ asn2gnb4.c: In function 'FormatFeatureBlockEx': asn2gnb4.c:6354:22: warning: variable 'split' set but not used [-Wunused-but-set-variable] Boolean split; ^ In file included from ../include/ncbi.h:58:0, from asn2gnb4.c:42: asn2gnb4.c: In function 'DoImmediateRemoteFeatureFormat': ../include/ncbistd.h:286:22: warning: comparison between 'enum ' and 'enum ' [-Wenum-compare] #define MAX(a,b) ((a)>=(b)?(a):(b)) ^ asn2gnb4.c:8448:19: note: in expansion of macro 'MAX' max = (size_t) (MAX (ASN2GNBK_TOTAL_SOURCE, ASN2GNBK_TOTAL_FEATUR)); ^ asn2gnb4.c: In function 'FormatFeatureQuals': ../include/ncbistd.h:286:22: warning: comparison between 'enum ' and 'enum ' [-Wenum-compare] #define MAX(a,b) ((a)>=(b)?(a):(b)) ^ asn2gnb4.c:8521:19: note: in expansion of macro 'MAX' max = (size_t) (MAX (ASN2GNBK_TOTAL_SOURCE, ASN2GNBK_TOTAL_FEATUR)); ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from asn2gnb4.c:57: asn2gnb4.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ asn2gnb4.c: In function 'FormatFeatureBlockEx': asn2gnb4.c:7398:24: warning: 'sep' may be used uninitialized in this function [-Wmaybe-uninitialized] oldscope = SeqEntrySetScope (sep); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF asn2gnb5.c asn2gnb5.c: In function 'FormatCitBookArt': asn2gnb5.c:1874:16: warning: variable 'vnp' set but not used [-Wunused-but-set-variable] ValNodePtr vnp; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from asn2gnb5.c:57: asn2gnb5.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF asn2gnb6.c asn2gnb6.c: In function 'FlatLocElement': asn2gnb6.c:2386:27: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if (sintp->to > 0 && ^ asn2gnb6.c: In function 'FormatContigBlock': asn2gnb6.c:5401:20: warning: variable 'dspnext' set but not used [-Wunused-but-set-variable] DeltaSeqPtr dspnext; ^ asn2gnb6.c: In function 'FormatSequenceBlock': asn2gnb6.c:5855:21: warning: variable 'iasp' set but not used [-Wunused-but-set-variable] IntAsn2gbSectPtr iasp; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from asn2gnb6.c:57: asn2gnb6.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ftusrstr.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF gbfeat.c gbfeat.c: In function 'CkLabelType': gbfeat.c:1529:33: warning: suggest parentheses around '&&' within '||' [-Wparentheses] for (str = bptr; *str != '\0' && IS_ALPHA(*str) || IS_DIGIT(*str) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF gbftglob.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF gbparint.c gbparint.c: In function 'Nlm_gbparselex': gbparint.c:2128:24: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (*current_col != '\0') ^ gbparint.c: In function 'Nlm_gbparselex_ver': gbparint.c:2514:24: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (*current_col != '\0') ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF utilpars.c utilpars.c:112:39: warning: missing braces around initializer [-Wmissing-braces] ParFlat_AA_array[ParFlat_TOTAL_AA] = { ^ utilpars.c:112:39: note: (near initialization for 'ParFlat_AA_array') gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF utilpub.c utilpub.c: In function 'FindCit': utilpub.c:998:24: warning: variable 'ifp' set but not used [-Wunused-but-set-variable] ImpFeatPtr /*UNUSED*/ifp; ^ utilpub.c: In function 'ChangeCitQual': utilpub.c:1053:53: warning: variable 'pub' set but not used [-Wunused-but-set-variable] ValNodePtr vnp, pubset = NULL, pub_min, /*UNUSED*/pub; ^ utilpub.c:1052:34: warning: variable 'descr' set but not used [-Wunused-but-set-variable] ValNodePtr PNTR vnpp, /*UNUSED*/descr; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ffprint.c ffprint.c: In function 'FFBSPrint': ffprint.c:347:19: warning: unused variable 'byte_sp' [-Wunused-variable] ByteStorePtr byte_sp = NULL; ^ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from ffprint.c:127: ffprint.c: At top level: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ ffprint.c:420:16: warning: 'ff_print_insert' defined but not used [-Wunused-function] static CharPtr ff_print_insert(CharPtr str, CharPtr ins) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF wprint.c wprint.c: In function 'LocPrintGenome': wprint.c:1696:14: warning: unused variable 'sep' [-Wunused-variable] SeqEntryPtr sep = NULL; ^ wprint.c:1695:25: warning: unused variable 'b' [-Wunused-variable] BioseqPtr bsp = NULL, b = NULL; ^ wprint.c:1695:13: warning: unused variable 'bsp' [-Wunused-variable] BioseqPtr bsp = NULL, b = NULL; ^ wprint.c:1692:34: warning: unused variable 'temp' [-Wunused-variable] static Char buf[14], val[166], temp[166]; ^ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from wprint.c:51: wprint.c: At top level: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ wprint.c:77:13: warning: 'link_pir' defined but not used [-Wunused-variable] static Char link_pir[MAX_WWWBUF]; ^ wprint.c:79:13: warning: 'link_gdb_map' defined but not used [-Wunused-variable] static Char link_gdb_map[MAX_WWWBUF]; ^ In file included from ../include/ncbi.h:62:0, from wprint.c:46: wprint.c: In function 'www_xref': ../include/ncbistr.h:331:19: warning: 'prefix' may be used uninitialized in this function [-Wmaybe-uninitialized] #define StringLen Nlm_StringLen ^ wprint.c:1358:19: note: 'prefix' was declared here CharPtr s, link, prefix, ss; ^ In file included from ../include/ncbi.h:62:0, from wprint.c:46: ../include/ncbistr.h:331:19: warning: 'link' may be used uninitialized in this function [-Wmaybe-uninitialized] #define StringLen Nlm_StringLen ^ wprint.c:1358:13: note: 'link' was declared here CharPtr s, link, prefix, ss; ^ wprint.c: In function 'PrintSPBlock': wprint.c:1570:6: warning: 's' may be used uninitialized in this function [-Wmaybe-uninitialized] AddLink(s); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF satutil.c satutil.c: In function 'CopyFeatureFromAlign': satutil.c:1011:10: warning: variable 'check_gap' set but not used [-Wunused-but-set-variable] Boolean check_gap; ^ satutil.c: At top level: satutil.c:168:16: warning: 'bk_map_one_location' defined but not used [-Wunused-function] static Boolean bk_map_one_location(SeqLocPtr source_loc, SeqAlignPtr align, SeqIdPtr target_sip, Boolean check_gap, Int4Ptr r_start, Int4Ptr r_stop, SeqLocPtr PNTR head_slp) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF seqmgr.c seqmgr.c: In function 'SeqEntrySetScope': seqmgr.c:313:13: warning: variable 'found' set but not used [-Wunused-but-set-variable] Boolean found; ^ seqmgr.c: In function 'ClearBioseqFindCache': seqmgr.c:899:14: warning: variable 'smp' set but not used [-Wunused-but-set-variable] SeqMgrPtr smp; ^ seqmgr.c: In function 'SeqMgrGetExtraDataForOmdp': seqmgr.c:3736:14: warning: variable 'omp' set but not used [-Wunused-but-set-variable] ObjMgrPtr omp; ^ seqmgr.c: In function 'CheckForTransSplice': seqmgr.c:5644:14: warning: variable 'prev' set but not used [-Wunused-but-set-variable] SeqLocPtr prev, tmp; ^ seqmgr.c: In function 'SeqEntryAsnOut': seqmgr.c:11692:41: warning: variable 'aopp_desc' set but not used [-Wunused-but-set-variable] AsnOptionPtr aopp_feat = NULL, aopp_desc = NULL; ^ seqmgr.c:11692:23: warning: variable 'aopp_feat' set but not used [-Wunused-but-set-variable] AsnOptionPtr aopp_feat = NULL, aopp_desc = NULL; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from seqmgr.c:65: seqmgr.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ seqmgr.c: In function 'SeqMgrGetNextDescriptor': seqmgr.c:9580:71: warning: 'bssp' may be used uninitialized in this function [-Wmaybe-uninitialized] } else if (omdp->datatype == OBJ_BIOSEQSET && bssp != NULL && bssp->seqentry != NULL) { ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objmgr.c objmgr.c: In function 'ObjMgrSelectFunc2': objmgr.c:4031:22: warning: variable 'retval' set but not used [-Wunused-but-set-variable] Boolean retval = FALSE; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF gather.c gather.c: In function 'AttachDataProc': gather.c:4825:30: warning: variable 'into_seqentry' set but not used [-Wunused-but-set-variable] Boolean no_good = FALSE, into_seqentry = FALSE; ^ gather.c: In function 'GatherSeqFeat': gather.c:1583:46: warning: 'newid' may be used uninitialized in this function [-Wmaybe-uninitialized] tslp = SeqLocReMap(newid, slp, trp->anticodon, ^ gather.c:1530:86: warning: 'max_interval' may be used uninitialized in this function [-Wmaybe-uninitialized] lrdp = (GatherRangePtr)MemNew((size_t)((max_interval + 20) * sizeof(GatherRange))); ^ gather.c:1583:46: warning: 'offset' may be used uninitialized in this function [-Wmaybe-uninitialized] tslp = SeqLocReMap(newid, slp, trp->anticodon, ^ In file included from ../include/ncbi.h:59:0, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/gather.h:166, from gather.c:44: ../include/ncbimem.h:232:23: warning: 'lrdp' may be used uninitialized in this function [-Wmaybe-uninitialized] #define MemFree Nlm_MemFree ^ gather.c:1404:38: note: 'lrdp' was declared here GatherRangePtr rdp = NULL, trdp, lrdp; ^ gather.c: In function 'gather_align_data': gather.c:2468:58: warning: 'master_loc' may be used uninitialized in this function [-Wmaybe-uninitialized] stop = inverse ? SeqLocLen(master_loc) * mag_val : SeqLocLen(master_loc)/mag_val; ^ gather.c:2466:73: warning: 'mag_val' may be used uninitialized in this function [-Wmaybe-uninitialized] stop = inverse ? (len /mag_val) : (len * mag_val); ^ gather.c: In function 'GatherBioseqFunc': gather.c:3305:53: warning: 'tlen' may be used uninitialized in this function [-Wmaybe-uninitialized] rdp->right = offset + tlen - 1; ^ gather.c:3296:40: warning: 'trunc_r' may be used uninitialized in this function [-Wmaybe-uninitialized] if (trunc_r) ^ gather.c:3291:39: warning: 'trunc_l' may be used uninitialized in this function [-Wmaybe-uninitialized] if (trunc_l) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF accmmdbs.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF acccn3ds.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF lsqfetch.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF findrepl.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF codon.c codon.c: In function 'make_cds_paragraph': codon.c:262:7: warning: variable 'space_len' set but not used [-Wunused-but-set-variable] Int4 space_len, i; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF jzcoll.c jzcoll.c: In function 'load_default_matrix': jzcoll.c:99:6: warning: array subscript has type 'char' [-Wchar-subscripts] ss[pchars[i]][pchars[j]] = webb_blosum62[i][j]; ^ jzcoll.c:99:17: warning: array subscript has type 'char' [-Wchar-subscripts] ss[pchars[i]][pchars[j]] = webb_blosum62[i][j]; ^ jzcoll.c:101:5: warning: array subscript has type 'char' [-Wchar-subscripts] ss[pchars[i]]['*'] = ss['*'][pchars[i]] = -4; ^ jzcoll.c:101:31: warning: array subscript has type 'char' [-Wchar-subscripts] ss[pchars[i]]['*'] = ss['*'][pchars[i]] = -4; ^ jzcoll.c: In function 'GetUseThisGi': jzcoll.c:143:10: warning: unused variable 'retval' [-Wunused-variable] Boolean retval=FALSE; ^ jzcoll.c: In function 'buffer_for_feature': jzcoll.c:514:7: warning: unused variable 'i' [-Wunused-variable] Int2 i=0; ^ jzcoll.c: In function 'ProcessTextInsertion': jzcoll.c:878:7: warning: variable 'last_ins' set but not used [-Wunused-but-set-variable] Int4 last_ins; ^ jzcoll.c: In function 'satcollfunc': jzcoll.c:1723:12: warning: variable 'head' set but not used [-Wunused-but-set-variable] SeqLocPtr head; ^ jzcoll.c:1721:8: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ jzcoll.c:1720:7: warning: variable 'current_pos' set but not used [-Wunused-but-set-variable] Int4 current_pos; ^ jzcoll.c:1714:12: warning: unused variable 'slp' [-Wunused-variable] SeqLocPtr slp = NULL; ^ jzcoll.c: In function 'collect_anpnode_with_option': jzcoll.c:3053:13: warning: unused variable 'prev' [-Wunused-variable] ValNodePtr prev = NULL; ^ jzcoll.c: In function 'ck_seqfeat_extra': jzcoll.c:3414:10: warning: unused variable 'has_gb' [-Wunused-variable] Boolean has_gb = FALSE, has_med = FALSE; ^ jzcoll.c: In function 'load_open_close_sts_mark': jzcoll.c:4010:10: warning: variable 'collected' set but not used [-Wunused-but-set-variable] Boolean collected = FALSE; ^ jzcoll.c: In function 'FeatNodeCompProc': jzcoll.c:4225:20: warning: variable 'gr2' set but not used [-Wunused-but-set-variable] GatherRange gr1, gr2; ^ jzcoll.c:4225:15: warning: variable 'gr1' set but not used [-Wunused-but-set-variable] GatherRange gr1, gr2; ^ jzcoll.c: At top level: jzcoll.c:1654:16: warning: 'collect_sequence_label' defined but not used [-Wunused-function] static Boolean collect_sequence_label(Uint1 format) ^ jzcoll.c:2316:16: warning: 'stop_collecting_alignment' defined but not used [-Wunused-function] static Boolean stop_collecting_alignment(ValNodePtr anp_list, Int4 max_num) ^ jzcoll.c: In function 'load_text': jzcoll.c:421:39: warning: 'smtp' may be used uninitialized in this function [-Wmaybe-uninitialized] stdaa_res = SeqMapTableConvert(smtp, m_res); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF jzmisc.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF maputil.c maputil.c: In function 'load_gene_list': maputil.c:690:8: warning: variable 'val' set but not used [-Wunused-but-set-variable] Uint1 val; ^ maputil.c: In function 'gmarkfunc': maputil.c:985:13: warning: variable 'syn' set but not used [-Wunused-but-set-variable] ValNodePtr syn = NULL; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF mconsist.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF macroapi.c macroapi.c: In function 'AdvancedStringCompare': macroapi.c:4416:23: warning: variable 'init_target_match_len' set but not used [-Wunused-but-set-variable] Int4 len1, len2, init_target_match_len = 0, target_match_len = 0; ^ macroapi.c: In function 'RemoveGBQualMatch': macroapi.c:6919:27: warning: variable 'does_match' set but not used [-Wunused-but-set-variable] Boolean rval = FALSE, does_match, do_remove; ^ macroapi.c: In function 'SetNameInPrimerList': macroapi.c:10517:21: warning: variable 'prev_pp' set but not used [-Wunused-but-set-variable] PCRPrimerPtr pp, prev_pp = NULL; ^ macroapi.c: In function 'SetSeqInPrimerList': macroapi.c:10538:21: warning: variable 'prev_pp' set but not used [-Wunused-but-set-variable] PCRPrimerPtr pp, prev_pp = NULL; ^ macroapi.c: In function 'GetCitListsForSeqEntry': macroapi.c:15443:19: warning: variable 'entityID' set but not used [-Wunused-but-set-variable] Uint2 entityID; ^ macroapi.c:15441:19: warning: variable 'okay' set but not used [-Wunused-but-set-variable] Boolean okay; ^ macroapi.c: In function 'GetPubMLStatus': macroapi.c:17914:14: warning: variable 'csp' set but not used [-Wunused-but-set-variable] CitSubPtr csp; ^ macroapi.c: In function 'ApplyPartial5SetActionToSeqFeat': macroapi.c:24814:16: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ macroapi.c: In function 'ApplyPartial3SetActionToSeqFeat': macroapi.c:24937:16: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ macroapi.c: In function 'ApplyPartialBothSetActionToSeqFeat': macroapi.c:25004:16: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ macroapi.c: In function 'FindPosBeforeFeat': macroapi.c:25301:15: warning: variable 'regulator' set but not used [-Wunused-but-set-variable] SeqFeatPtr regulator = NULL, candidate; ^ macroapi.c: In function 'PerformAutofixInSeqEntry': macroapi.c:28058:8: warning: unused variable 'num_created' [-Wunused-variable] Int4 num_created = 0; ^ macroapi.c: In function 'AddFileDescriptors': macroapi.c:28453:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (sdp = SeqDescAsnRead (aip, NULL)) { ^ macroapi.c: In function 'PreprocessAddDescriptorListMacro': macroapi.c:30069:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (sdp = SeqDescAsnRead (aip, NULL)) { ^ macroapi.c: In function 'SummarizeRemoveOutsideAction': macroapi.c:30940:11: warning: unused variable 'case_insensitive' [-Wunused-variable] CharPtr case_insensitive = " (case insensitive)"; ^ macroapi.c: In function 'GetObjectTableForTabTable': macroapi.c:35366:63: warning: variable 'last' set but not used [-Wunused-but-set-variable] ValNodePtr obj_table = NULL, obj_row, last_obj = NULL, tmp, last = NULL; ^ macroapi.c: In function 'CheckObjTableForExistingText': macroapi.c:35930:14: warning: variable 'entityID' set but not used [-Wunused-but-set-variable] Uint2 entityID; ^ macroapi.c: In function 'FixSuspectProductNamesInEntrezGene': macroapi.c:38178:18: warning: variable 'prefix' set but not used [-Wunused-but-set-variable] CharPtr prefix = NULL; ^ macroapi.c: At top level: macroapi.c:1189:16: warning: 'IsObjectAppropriateForFieldPair' defined but not used [-Wunused-function] static Boolean IsObjectAppropriateForFieldPair (Uint1 choice, Pointer data, FieldPairTypePtr fieldpair) ^ macroapi.c:2760:13: warning: 'OriginFromOriginName' defined but not used [-Wunused-function] static Int4 OriginFromOriginName (CharPtr origin_name) ^ macroapi.c:4543:13: warning: 'TestAdvancedStringMatch' defined but not used [-Wunused-function] static void TestAdvancedStringMatch (void) ^ macroapi.c:5435:16: warning: 'DoesLocationMatchConstraint' defined but not used [-Wunused-function] static Boolean DoesLocationMatchConstraint (SeqLocPtr slp, LocationConstraintPtr lcp) ^ macroapi.c:10224:16: warning: 'HasMultiplePrimerSets' defined but not used [-Wunused-function] static Boolean HasMultiplePrimerSets (CharPtr value) ^ macroapi.c:15632:13: warning: 'InitBatchExtraForAECRActionAndObjectList' defined but not used [-Wunused-function] static void InitBatchExtraForAECRActionAndObjectList (BatchExtraPtr batch_extra, AECRActionPtr action, ValNodePtr object_list) ^ macroapi.c:35102:16: warning: 'IsFieldTypeProteinDesc' defined but not used [-Wunused-function] static Boolean IsFieldTypeProteinDesc (FieldTypePtr ft) ^ macroapi.c:20392:13: warning: 'GetFieldsFromAECR' defined but not used [-Wunused-function] static void GetFieldsFromAECR (AECRActionPtr act, FieldTypePtr PNTR pField, ValNodePtr PNTR pFieldPair) ^ macroapi.c:26150:13: warning: 'GetDescriptorTypeFromDescriptorChoice' defined but not used [-Wunused-function] static Int4 GetDescriptorTypeFromDescriptorChoice (Uint1 descriptor_choice) ^ macroapi.c: In function 'ReadNameListFromString': macroapi.c:13813:14: warning: 'ch_r1' may be used uninitialized in this function [-Wmaybe-uninitialized] *p_repl1 = ch_r1; ^ macroapi.c:13722:11: note: 'ch_r1' was declared here Char ch_r1, ch_r2, ch_r3; ^ macroapi.c: In function 'GetFeatureListForProteinBioseq': macroapi.c:34248:10: warning: 'sfp' may be used uninitialized in this function [-Wmaybe-uninitialized] if (sfp != NULL) ^ macroapi.c: In function 'ConvertToSite': macroapi.c:24223:7: warning: 'slp' may be used uninitialized in this function [-Wmaybe-uninitialized] bsp = GetBioseqGivenSeqLoc (slp, sfp->idx.entityID); ^ macroapi.c: In function 'ConvertToBond': macroapi.c:24176:7: warning: 'slp' may be used uninitialized in this function [-Wmaybe-uninitialized] bsp = GetBioseqGivenSeqLoc (slp, sfp->idx.entityID); ^ macroapi.c: In function 'SetAuthorListFromString': macroapi.c:14074:17: warning: 'vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] name_list = FreeNameList (1, vnp); ^ macroapi.c: In function 'GetSourceQualFromBioSource': macroapi.c:10861:25: warning: 'subfield' may be used uninitialized in this function [-Wmaybe-uninitialized] str = GetThreeFieldSubfield (ssp->name, subfield); ^ macroapi.c: In function 'GetMultipleSourceQualsFromBioSource': macroapi.c:11008:23: warning: 'subfield' may be used uninitialized in this function [-Wmaybe-uninitialized] str = GetThreeFieldSubfield (ssp->name, subfield); ^ macroapi.c: In function 'RemoveSourceQualFromBioSource': macroapi.c:11189:27: warning: 'subfield' may be used uninitialized in this function [-Wmaybe-uninitialized] rval |= RemoveThreeFieldSubfield (&(ssp->name), subfield); ^ macroapi.c: In function 'CaptureRefBlockSerialNumbers': macroapi.c:15424:26: warning: 'ppr' may be used uninitialized in this function [-Wmaybe-uninitialized] vnp->data.ptrvalue = ppr; ^ macroapi.c: In function 'SetFieldValueForObjectEx': macroapi.c:13405:29: warning: 'ipp' may be used uninitialized in this function [-Wmaybe-uninitialized] new_ipp[i] = ipp[i]; ^ macroapi.c:13352:21: note: 'ipp' was declared here Int4Ptr ipp, new_ipp; ^ macroapi.c:13379:20: warning: 'cpp' may be used uninitialized in this function [-Wmaybe-uninitialized] cpp[i] = NULL; ^ macroapi.c:13350:21: note: 'cpp' was declared here CharPtr PNTR cpp; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF salpedit.c salpedit.c: In function 'SeqAlignInsert': salpedit.c:162:12: warning: variable 'ssp' set but not used [-Wunused-but-set-variable] StdSegPtr ssp; ^ salpedit.c:161:22: warning: variable 'ddp' set but not used [-Wunused-but-set-variable] DenseDiagPtr ddp; ^ salpedit.c: At top level: salpedit.c:158:20: warning: 'SeqAlignInsert' defined but not used [-Wunused-function] static SeqAlignPtr SeqAlignInsert(SeqIdPtr from_id, Int4 from, Int4 to, Uint1 strand, SeqIdPtr to_id, Int4 pos, SeqAlignPtr head, Boolean merge, Boolean add_insertion) ^ salpedit.c:254:16: warning: 'is_gap_segment' defined but not used [-Wunused-function] static Boolean is_gap_segment(Int4Ptr c_starts, Int2 dim) ^ salpedit.c:1169:20: warning: 'JZSeqAlignMerge' defined but not used [-Wunused-function] static SeqAlignPtr JZSeqAlignMerge(SeqAlignPtr f_align, SeqIdPtr from_id, Int4 from, Int4 to, Uint1 strand, SeqIdPtr to_id, Int4 pos, SeqAlignPtr t_align) ^ salpedit.c:1281:13: warning: 'attach_new_align' defined but not used [-Wunused-function] static void attach_new_align(SeqAlignPtr new_salp, SeqAlignPtr PNTR old) { ^ salpedit.c:1387:14: warning: 'has_too_much_overlap' defined but not used [-Wunused-function] static Uint1 has_too_much_overlap (Int4 start_1, Int4 stop_1, Int4 start_2, Int4 stop_2) ^ salpedit.c:1422:16: warning: 'convert_ddp_to_array' defined but not used [-Wunused-function] static Int4Ptr convert_ddp_to_array (ValNodePtr ddp_list, Uint1 strand, Int2 s_order, Int4Ptr p_num) ^ salpedit.c:1479:16: warning: 'filter_this_seg' defined but not used [-Wunused-function] static Boolean filter_this_seg (DenseDiagPtr curr, DenseDiagPtr PNTR h_list, Int2 order) ^ salpedit.c:1560:13: warning: 'filter_wrong_orientation' defined but not used [-Wunused-function] static void filter_wrong_orientation (SeqAlignPtr align, Boolean same_orient) ^ salpedit.c:1605:16: warning: 'is_overlap' defined but not used [-Wunused-function] static Boolean is_overlap(BoolPtr status, Int4 from, Int4 len) ^ salpedit.c:1665:16: warning: 'free_diag_in_list' defined but not used [-Wunused-function] static Boolean free_diag_in_list(ValNodePtr ddp_list, DenseDiagPtr ddp) ^ salpedit.c:2653:16: warning: 'FigureAlignRange' defined but not used [-Wunused-function] static Boolean FigureAlignRange(SeqAlignPtr align, SeqLocPtr m_loc, SeqLocPtr s_loc) ^ salpedit.c:2835:13: warning: 'SeqAnnotWrite' defined but not used [-Wunused-function] static void SeqAnnotWrite(SeqAlignPtr align) ^ salpedit.c:2939:20: warning: 'open_annot' defined but not used [-Wunused-function] static SeqAnnotPtr open_annot(CharPtr f_name) ^ salpedit.c:3836:13: warning: 'get_align_list_len' defined but not used [-Wunused-function] static Int4 get_align_list_len(SeqAlignPtr align) ^ salpedit.c:3850:13: warning: 'save_output' defined but not used [-Wunused-function] static void save_output (SeqIdPtr sip, CharPtr f_name, SeqAlignPtr align) ^ salpedit.c:3937:13: warning: 'reverse_seqloc' defined but not used [-Wunused-function] static void reverse_seqloc (SeqLocPtr s_loc) ^ salpedit.c:3968:18: warning: 'create_fake_bioseq' defined but not used [-Wunused-function] static BioseqPtr create_fake_bioseq(SeqLocPtr seq_loc, CharPtr fake_name) ^ salpedit.c:4016:18: warning: 'dup_mul_locs' defined but not used [-Wunused-function] static SeqLocPtr dup_mul_locs(SeqLocPtr slp) ^ salpedit.c:4046:16: warning: 'second_seq_has_gap' defined but not used [-Wunused-function] static Boolean second_seq_has_gap(BioseqPtr s_bsp) ^ salpedit.c:4073:17: warning: 'get_best_id' defined but not used [-Wunused-function] static SeqIdPtr get_best_id(BioseqPtr bsp) ^ salpedit.c:4120:18: warning: 'build_slp_for_gcontig' defined but not used [-Wunused-function] static SeqLocPtr build_slp_for_gcontig (BioseqPtr gcontig_bsp, SeqIdPtr gcontig_sip) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF salpstat.c salpstat.c: In function 'DenseSegStats': salpstat.c:310:10: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if(dsp && (((mmatches || mmismatches) && bsp_1 && bsp_2)) || !(mmatches || mmismatches)) { ^ salpstat.c: In function 'SeqAlignScoreFix': salpstat.c:162:20: warning: 'sp_last' may be used uninitialized in this function [-Wmaybe-uninitialized] sp_last->next = (ScorePtr) MemNew(sizeof(Score)); ^ salpstat.c: In function 'DenseSegStats': salpstat.c:382:7: warning: 'spp_2' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqPortFree(spp_2); ^ salpstat.c:381:7: warning: 'spp_1' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqPortFree(spp_1); ^ salpstat.c: In function 'SeqAlignWindowScoreFN': salpstat.c:2038:45: warning: 'score' may be used uninitialized in this function [-Wmaybe-uninitialized] residue_score[pos]=score; ^ salpstat.c:2020:34: warning: 'pos' may be used uninitialized in this function [-Wmaybe-uninitialized] qgaps_score[last_pos]=-(g_open+len*g_ext); ^ salpstat.c: In function 'SeqAlignWindowScore': salpstat.c:2214:12: warning: 'scoreptr' may be used uninitialized in this function [-Wmaybe-uninitialized] return scoreptr; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF salpacc.c salpacc.c: In function 'SeqAlignStrand': salpacc.c:334:20: warning: unused variable 'this_strand' [-Wunused-variable] Uint1Ptr this_strand=Seq_strand_unknown; ^ salpacc.c: In function 'SeqAlignStop': salpacc.c:561:13: warning: 'this_stop' may be used uninitialized in this function [-Wmaybe-uninitialized] if(this_stop!=-1) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF salprop.c salprop.c: In function 'CopySeqLocFromSeqAlign': salprop.c:291:12: warning: variable 'check_gap' set but not used [-Wunused-but-set-variable] Boolean check_gap; ^ salprop.c: In function 'FeatListToProp': salprop.c:1336:20: warning: variable 'feat_itemID' set but not used [-Wunused-but-set-variable] Uint4 feat_itemID; ^ In file included from salprop.c:42:0: salprop.c: At top level: ../include/salprop.h:50:16: warning: 'GBFeat' defined but not used [-Wunused-variable] static CharPtr GBFeat[number_GBFeat] = { ^ In file included from ../include/sqnutils.h:51:0, from salprop.c:46: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ salprop.c: In function 'ApplyNewSeqFeat': salprop.c:620:11: warning: 'stop' may be used uninitialized in this function [-Wmaybe-uninitialized] j = stop - SeqLocStop(sfp_location); ^ salprop.c:514:17: note: 'stop' was declared here stop, ^ salprop.c:674:17: warning: 'sfp' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqFeatPtr sfp; ^ salprop.c:733:24: warning: 'ppp.p5' may be used uninitialized in this function [-Wmaybe-uninitialized] if (!sfp_p5 && ppp.p5) ^ salprop.c:679:17: note: 'ppp.p5' was declared here ParTials ppp; ^ salprop.c:679:17: warning: 'ppp.p3' may be used uninitialized in this function [-Wmaybe-uninitialized] salprop.c:861:40: warning: 'entityID' may be used uninitialized in this function [-Wmaybe-uninitialized] if ((val2=is_id_unique (entityID, SeqLocId(sfp->product)))) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF salsap.c salsap.c: In function 'DenseDiagToDenseSegFunc': salsap.c:2912:30: warning: variable 'slpstop2' set but not used [-Wunused-but-set-variable] slpstop1 = 0, slpstop2 = 0; ^ salsap.c:2912:16: warning: variable 'slpstop1' set but not used [-Wunused-but-set-variable] slpstop1 = 0, slpstop2 = 0; ^ salsap.c:2911:31: warning: variable 'slpstart2' set but not used [-Wunused-but-set-variable] Int4 slpstart1 = 0, slpstart2 = 0, ^ salsap.c:2911:16: warning: variable 'slpstart1' set but not used [-Wunused-but-set-variable] Int4 slpstart1 = 0, slpstart2 = 0, ^ salsap.c:2909:28: warning: variable 'start2' set but not used [-Wunused-but-set-variable] Int4 start1 = 0, start2 = 0, ^ salsap.c:2909:16: warning: variable 'start1' set but not used [-Wunused-but-set-variable] Int4 start1 = 0, start2 = 0, ^ In file included from ../include/sqnutils.h:51:0, from salsap.c:47: salsap.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ salsap.c:2157:16: warning: 'AreDenseSegSegmentsValid' defined but not used [-Wunused-function] static Boolean AreDenseSegSegmentsValid (DenseSegPtr dsp, Int4 start, Int4 num) ^ salsap.c:3631:13: warning: 'FindSeqAlignCallback' defined but not used [-Wunused-function] static void FindSeqAlignCallback (SeqEntryPtr sep, Pointer mydata, ^ salsap.c: In function 'SeqAlignEndExtend': salsap.c:986:18: warning: 'n_strands' may be used uninitialized in this function [-Wmaybe-uninitialized] Uint1Ptr n_strands; ^ salsap.c: In function 'CleanStrandsSeqAlign': salsap.c:1614:15: warning: 'dim' may be used uninitialized in this function [-Wmaybe-uninitialized] Int2 dim; ^ salsap.c:1669:39: warning: 'numseg' may be used uninitialized in this function [-Wmaybe-uninitialized] for (j=0, k=numseg-1; jfeattype) == OBJ_BIOSEQ && (is_seqvisible(entityID, itemID, adp->seq_info)) ) ^ salstruc.c:872:19: note: 'entityID' was declared here Uint2 entityID; ^ salstruc.c:1093:44: warning: 'entityID' may be used uninitialized in this function [-Wmaybe-uninitialized] seq_info->entityID=entityID; ^ salstruc.c:1005:17: note: 'entityID' was declared here Uint2 entityID; ^ salstruc.c: In function 'ShowAlignmentText': salstruc.c:2194:19: warning: 'bspsip' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqIdPtr bspsip; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF salutil.c salutil.c: In function 'ReadBufferFromSap': salutil.c:128:24: warning: variable 'buffstart' set but not used [-Wunused-but-set-variable] Int4 bufflen, buffstart; ^ salutil.c:127:15: warning: variable 'sumstart' set but not used [-Wunused-but-set-variable] Int4 sumstart; ^ salutil.c: In function 'IS_protSeqLoc': salutil.c:594:11: warning: variable 'seq' set but not used [-Wunused-but-set-variable] CharPtr seq; ^ salutil.c: In function 'ReplaceSeqIdWithSeqId': salutil.c:1236:20: warning: variable 'oldscope' set but not used [-Wunused-but-set-variable] SeqEntryPtr oldscope; ^ salutil.c: In function 'del_ssp_fromid': salutil.c:1722:24: warning: variable 'pressp' set but not used [-Wunused-but-set-variable] SelEdStructPtr ssp, pressp = NULL; ^ salutil.c: In function 'checkCDSselect_forprotein': salutil.c:2510:12: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (feat != NULL) ^ salutil.c: In function 'NoMoreSegGapForOneAlignment': salutil.c:3647:8: warning: implicit declaration of function 'AlnMgr2IndexSingleChildSeqAlign' [-Wimplicit-function-declaration] AlnMgr2IndexSingleChildSeqAlign(salp); /* make sure it's dense-seg */ ^ In file included from ../include/sqnutils.h:51:0, from salutil.c:53: salutil.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ salutil.c: In function 'sesp_to_slp': salutil.c:1976:9: warning: 'j' may be used uninitialized in this function [-Wmaybe-uninitialized] for (k=1; knext; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF udvseq.c udvseq.c: In function 'UDV_EncodeIdxFeat': udvseq.c:448:2: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] return *((Int4Ptr) index_g); ^ udvseq.c: In function 'UDV_BigEncodeIdxFeat': udvseq.c:473:2: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] return *((Uint8Ptr) index_g); ^ udvseq.c: In function 'UDV_ParaGFTableFeatures': udvseq.c:947:22: warning: 'nFeatLines' may be used uninitialized in this function [-Wmaybe-uninitialized] pgp->nFeatLines=nFeatLines/*-decal*/; ^ udvseq.c:988:8: warning: 'PosFeat' may be used uninitialized in this function [-Wmaybe-uninitialized] UDV_BigEncodeIdxFeat ( context->itemID, ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blocks.c blocks.c: In function 'IndexBlocks': blocks.c:928:19: warning: operation on 'segp_align->to' may be undefined [-Wsequence-point] segp_align->to = segp_align->to = -1; ^ blocks.c: In function 'IndexNewBlocks': blocks.c:1084:19: warning: operation on 'segp_align->to' may be undefined [-Wsequence-point] segp_align->to = segp_align->to = -1; ^ blocks.c: In function 'GetBlockOrientation': blocks.c:2383:11: warning: 'orient' may be used uninitialized in this function [-Wmaybe-uninitialized] return orient; ^ blocks.c: In function 'SAMergeBlocks': blocks.c:2165:21: warning: 'tmp2' may be used uninitialized in this function [-Wmaybe-uninitialized] tmp2 = tmp2->next; ^ blocks.c:1572:28: warning: 'tmp_head' may be used uninitialized in this function [-Wmaybe-uninitialized] merged->segp_head = tmp_head; ^ blocks.c:1470:27: warning: 'tmp_curr' may be used uninitialized in this function [-Wmaybe-uninitialized] tmp1->prev = tmp_curr; ^ blocks.c:1709:27: warning: 'prev' may be used uninitialized in this function [-Wmaybe-uninitialized] tmp1->prev = prev; ^ blocks.c:1670:34: warning: 'new_sabp1' may be used uninitialized in this function [-Wmaybe-uninitialized] new_sabp1->segp_head = tmp_head; ^ blocks.c: In function 'SASplitBlock': blocks.c:2796:25: warning: 'segp2_prev' may be used uninitialized in this function [-Wmaybe-uninitialized] segp2->prev = segp2_prev; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF pgppop.c pgppop.c:307:2: warning: missing braces around initializer [-Wmissing-braces] { ^ pgppop.c:307:2: note: (near initialization for 'DDV_PaletteRGB') pgppop.c: In function 'DDV_WWW_get_CDS_minus': pgppop.c:578:9: warning: variable 'bGiForProductOk' set but not used [-Wunused-but-set-variable] Boolean bGiForProductOk=FALSE; ^ pgppop.c:576:5: warning: variable 'numivals2' set but not used [-Wunused-but-set-variable] numivals2=0; ^ pgppop.c: In function 'DDV_WWW_get_CDS_plus': pgppop.c:700:9: warning: variable 'bGiForProductOk' set but not used [-Wunused-but-set-variable] Boolean bGiForProductOk=FALSE; ^ pgppop.c: In function 'GetClrFromClrGlobal': pgppop.c:1326:4: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] if (*((Uint4Ptr)rgb1 )== *((Uint4Ptr)rgb2)){ ^ pgppop.c:1326:4: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] pgppop.c: In function 'DDV_DisplayTopScale': pgppop.c:1549:7: warning: unused variable 'szBlank' [-Wunused-variable] Char szBlank[TABLE_LEFT_MARGIN+5]={""}; ^ pgppop.c: In function 'DDV_GetBLASTCompLine_1': pgppop.c:1985:31: warning: array subscript has type 'char' [-Wchar-subscripts] if (matrix[s][q]>0){ ^ pgppop.c:1985:34: warning: array subscript has type 'char' [-Wchar-subscripts] if (matrix[s][q]>0){ ^ pgppop.c: In function 'DDV_DisplayDefaultAlign': pgppop.c:3417:13: warning: unused variable 'sabp' [-Wunused-variable] SABlockPtr sabp=NULL;/*indexed SeqAlign*/ ^ pgppop.c: In function 'DDV_ShowSeqAlign': pgppop.c:3760:10: warning: unused variable 'szPopSetAuth' [-Wunused-variable] Char szPopSetAuth[INFO_SIZE+1]={""}; ^ pgppop.c:3758:10: warning: unused variable 'szPopSetName' [-Wunused-variable] Char szPopSetName[INFO_SIZE+1]={""};/*article title of the Pop-Set*/ ^ pgppop.c: In function 'DDV_PrintPopSetSummary': pgppop.c:3931:9: warning: variable 'bPairwise' set but not used [-Wunused-but-set-variable] Boolean bPairwise=TRUE,bPrintTax,bPrintCom; ^ In file included from ../include/sqnutils.h:51:0, from pgppop.c:298: pgppop.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/asn2ff6.h:142:0, from pgppop.c:300: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from ../include/ddvcreate.h:143, from pgppop.c:303: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ pgppop.c:563:13: warning: 'DDV_WWW_get_CDS_minus' defined but not used [-Wunused-function] static void DDV_WWW_get_CDS_minus(SeqMgrFeatContextPtr context,Int4 start, ^ pgppop.c:2090:13: warning: 'DDV_HideMaskedLetters' defined but not used [-Wunused-function] static void DDV_HideMaskedLetters(CharPtr szSeqMaster,ParaGPtr pgp,ValNodePtr mask) ^ pgppop.c:2865:13: warning: 'DDV_GetGappedSequence' defined but not used [-Wunused-function] static void DDV_GetGappedSequence(SegmentPtr segp,CharPtr szSequence, ^ pgppop.c:2912:13: warning: 'DDV_PrintFastaGappedSequence' defined but not used [-Wunused-function] static void DDV_PrintFastaGappedSequence(CharPtr szSequence,FILE *fp) ^ pgppop.c: In function 'DDV_PopDisplay2': pgppop.c:1246:23: warning: 'pgp2' may be used uninitialized in this function [-Wmaybe-uninitialized] if (pgp2 && ((pgp2->StopLetter-pgp2->StartLetter+1)>=AbsLengthAli)) { ^ pgppop.c:1253:14: warning: 'vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] vnp->next=NULL; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF samutil.c samutil.c: In function 'DDE_FreeStack': samutil.c:1794:11: warning: operation on 'Index' may be undefined [-Wsequence-point] Index = ++Index % DDE_STACK_SIZE; ^ samutil.c: In function 'DDE_Add': samutil.c:1849:22: warning: operation on 'pStack->StackMin' may be undefined [-Wsequence-point] pStack->StackMin = ++pStack->StackMin % DDE_STACK_SIZE; ^ samutil.c:1860:22: warning: operation on 'pStack->StackIndex' may be undefined [-Wsequence-point] pStack->StackIndex = ++pStack->StackIndex % DDE_STACK_SIZE; ^ samutil.c: In function 'DDE_Prev': samutil.c:1924:22: warning: operation on 'pStack->StackIndex' may be undefined [-Wsequence-point] pStack->StackIndex = ++pStack->StackIndex % DDE_STACK_SIZE; ^ samutil.c: In function 'DDE_Next': samutil.c:1955:22: warning: operation on 'pStack->StackIndex' may be undefined [-Wsequence-point] pStack->StackIndex = ++pStack->StackIndex % DDE_STACK_SIZE; ^ samutil.c: In function 'DDE_ShowRow': samutil.c:2222:26: warning: variable 'NumRows' set but not used [-Wunused-but-set-variable] Int4 i, NumRows, HiRow, LowRow, tmp1, tmp2; ^ samutil.c: In function 'DDE_AddGapToEndOfAllRows': samutil.c:3344:41: warning: variable 'vnp' set but not used [-Wunused-but-set-variable] ValNodePtr ptxtList, last_vnp, vnp; ^ samutil.c: In function 'DDE_RightAddNode': samutil.c:3945:33: warning: variable 'new_vnp' set but not used [-Wunused-but-set-variable] ValNodePtr vnp, next_vnp, new_vnp; ^ samutil.c: In function 'DDE_LeftMergeAndAddNodeList': samutil.c:3995:24: warning: variable 'RetVal2' set but not used [-Wunused-but-set-variable] Boolean RetVal1, RetVal2, IsLeftAlignedGap, NodeDeleted; ^ samutil.c: In function 'DDE_RightMergeAndAddNodeList': samutil.c:4051:38: warning: variable 'RetVal2' set but not used [-Wunused-but-set-variable] Boolean RetVal=FALSE, RetVal1, RetVal2, HeadChanged; ^ samutil.c: In function 'DDE_ShiftRightBoundaryLeft1': samutil.c:4830:41: warning: variable 'Index' set but not used [-Wunused-but-set-variable] Int4 NumBlocks, i, NumRows, Index, BlockCount=0; ^ samutil.c: In function 'DDE_CreateArraysForDenseSeg': samutil.c:5266:22: warning: variable 'NumSegs' set but not used [-Wunused-but-set-variable] Int4 NumRows, NumSegs, i, StartIndex, StopIndex, ArrayIndex=0; ^ samutil.c: In function 'DDE_GetLastVNP': samutil.c:3381:9: warning: 'last_vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] return(last_vnp); ^ samutil.c: In function 'DDE_GetNumResidues': samutil.c:3404:13: warning: 'to' may be used uninitialized in this function [-Wmaybe-uninitialized] return((to-from) + 1); ^ In file included from ../include/ncbi.h:59:0, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/objall.h:64, from ../include/samutil.h:231, from samutil.c:280: samutil.c: In function 'DDE_RemoveGapFromEndOfAllRows': ../include/ncbimem.h:232:23: warning: 'last_vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] #define MemFree Nlm_MemFree ^ samutil.c:3375:15: note: 'last_vnp' was declared here ValNodePtr last_vnp; ^ samutil.c:3272:15: warning: 'last_vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] last_msap = (MsaTxtDispPtr) last_vnp->data.ptrvalue; ^ samutil.c: In function 'DDE_AddAGap': samutil.c:2659:8: warning: 'last_vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] if (vnp == pMidtxtList) { ^ samutil.c:3375:15: note: 'last_vnp' was declared here ValNodePtr last_vnp; ^ samutil.c: In function 'DDE_AddGapToEndOfAllRows': samutil.c:3356:9: warning: 'last_vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] vnp = DDE_AddAGap(pEditInfo, i, last_vnp, FALSE, TRUE); ^ samutil.c: In function 'DDE_ShiftLeftList': samutil.c:4161:8: warning: 'last_vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] msap = (MsaTxtDispPtr) last_vnp->data.ptrvalue; ^ samutil.c: In function 'DDE_ShiftRowLeft1': samutil.c:2563:13: warning: 'last_vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] last_msap = (MsaTxtDispPtr) last_vnp->data.ptrvalue; ^ samutil.c: In function 'DDE_RemoveGap': samutil.c:3092:8: warning: 'last_vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] msap = (MsaTxtDispPtr) vnp->data.ptrvalue; ^ samutil.c: In function 'DDE_ShiftRowRight1': samutil.c:2594:8: warning: 'last_vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] msap = (MsaTxtDispPtr) DDE_GetLastVNP(ptxtList)->data.ptrvalue; ^ samutil.c: In function 'DDE_LastColumnIsAligned': samutil.c:4448:8: warning: 'last_vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] msap = (MsaTxtDispPtr) vnp->data.ptrvalue; ^ samutil.c: In function 'DDE_ShiftRightBoundaryLeft1': samutil.c:4448:8: warning: 'last_vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] samutil.c:3375:15: note: 'last_vnp' was declared here ValNodePtr last_vnp; ^ samutil.c: In function 'DDE_ShiftRightBoundaryRight1': samutil.c:4448:8: warning: 'last_vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] msap = (MsaTxtDispPtr) vnp->data.ptrvalue; ^ samutil.c:3375:15: note: 'last_vnp' was declared here ValNodePtr last_vnp; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ddvcolor.c ddvcolor.c: In function 'DDV_GetColor': ddvcolor.c:1422:10: warning: unused variable 'retval' [-Wunused-variable] Int4 retval = 0; ^ In file included from ../include/samutil.h:234:0, from ddvcolor.c:165: ddvcolor.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF viewmgr.c In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from viewmgr.c:167: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/sqnutils.h:51:0, from viewmgr.c:168: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ viewmgr.c:683:13: warning: 'ViewMgr_Swap' defined but not used [-Wunused-function] static void ViewMgr_Swap(SeqAlign *salp1, SeqAlign *salp2) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ddvcreate.c ddvcreate.c:290:2: warning: missing braces around initializer [-Wmissing-braces] { ^ ddvcreate.c:290:2: note: (near initialization for 'DDV_PaletteRGB') ddvcreate.c: In function 'DDV_CreateDisplayFromIndex_1': ddvcreate.c:493:10: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (more = AlnMgrGetNextAlnBit(mpplp->sap, amp)) ^ ddvcreate.c: In function 'DDV_CreateDisplayFromIndex_2': ddvcreate.c:529:21: warning: variable 'more' set but not used [-Wunused-but-set-variable] Boolean more; ^ ddvcreate.c: In function 'DDV_CreateDisplayFromIndex_EX2': ddvcreate.c:779:10: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (more = AlnMgrGetNextAlnBit(mpplp->sap, amp)) ^ ddvcreate.c:690:21: warning: variable 'last' set but not used [-Wunused-but-set-variable] Boolean last; ^ ddvcreate.c:686:21: warning: variable 'PopulateTo' set but not used [-Wunused-but-set-variable] Int4 PopulateTo; ^ ddvcreate.c: In function 'DDV_DisplayNewBLAST': ddvcreate.c:1942:16: warning: variable 'what' set but not used [-Wunused-but-set-variable] Uint1 what; ^ ddvcreate.c: In function 'UDV_BigEncodeIdxFeat4': ddvcreate.c:2878:2: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] return *((Uint8Ptr) index_g); ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from ../include/ddvcreate.h:143, from ddvcreate.c:245: ddvcreate.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/sqnutils.h:51:0, from ddvcreate.c:249: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ ddvcreate.c:525:16: warning: 'DDV_CreateDisplayFromIndex_2' defined but not used [-Wunused-function] static Boolean DDV_CreateDisplayFromIndex_2(SeqAlignPtr sap, MsaParaGPopListPtr mpplp, Int2 LineSize) ^ ddvcreate.c:2362:16: warning: 'DDV_DisplayBlastSAP' defined but not used [-Wunused-function] static Boolean DDV_DisplayBlastSAP(SeqAlignPtr sap, ValNodePtr mask, ^ ddvcreate.c: In function 'UAMgrIntUAMsg': ddvcreate.c:1141:11: warning: 'stop_middle' may be used uninitialized in this function [-Wmaybe-uninitialized] ubd->from=Start; ^ ddvcreate.c:1158:73: note: 'stop_middle' was declared here Int4 halfBspLengthSeqL,halfBspLengthSeqR,halfBspLengthDesc,start_middle,stop_middle; ^ ddvcreate.c:1195:4: warning: 'start_middle' may be used uninitialized in this function [-Wmaybe-uninitialized] UABitDescrInit(&uamp->ubd[0],0,start_middle-1,TRUE); ^ ddvcreate.c:1158:60: note: 'start_middle' was declared here Int4 halfBspLengthSeqL,halfBspLengthSeqR,halfBspLengthDesc,start_middle,stop_middle; ^ ddvcreate.c:1201:60: warning: 'halfBspLengthSeqR' may be used uninitialized in this function [-Wmaybe-uninitialized] UABitDescrInit(&uamp->ubd[1],halfBspLengthSeqL,MaxLength-halfBspLengthSeqR-1,TRUE); ^ ddvcreate.c:1158:24: note: 'halfBspLengthSeqR' was declared here Int4 halfBspLengthSeqL,halfBspLengthSeqR,halfBspLengthDesc,start_middle,stop_middle; ^ ddvcreate.c:1200:50: warning: 'halfBspLengthSeqL' may be used uninitialized in this function [-Wmaybe-uninitialized] UABitDescrInit(&uamp->ubd[0],BspStart,BspStart+halfBspLengthSeqL-1,FALSE); ^ ddvcreate.c:1158:6: note: 'halfBspLengthSeqL' was declared here Int4 halfBspLengthSeqL,halfBspLengthSeqR,halfBspLengthDesc,start_middle,stop_middle; ^ ddvcreate.c: In function 'DDV_PopulateDisplayForDisc': ddvcreate.c:1048:16: warning: 'vnp_para' may be used uninitialized in this function [-Wmaybe-uninitialized] vnp_list[n-1]=vnp_para; ^ ddvcreate.c: In function 'UABuildDescriptor2': ddvcreate.c:1541:13: warning: 'stopcopy' may be used uninitialized in this function [-Wmaybe-uninitialized] *TotLength+=(stopcopy-startcopy);/*to be used for the display coord. system*/ ^ ddvcreate.c: In function 'DDV_DumpSAPInAFile': ddvcreate.c:1798:2: warning: 'matrix' may be used uninitialized in this function [-Wmaybe-uninitialized] DDV_AffichageParaG(mpplp,0,0,mpplp->LengthAli-1,mpplp->LengthAli,0,option, ^ ddvcreate.c: In function 'DDV_ReadSeqBin': ddvcreate.c:2593:9: warning: 'btr' may be used uninitialized in this function [-Wmaybe-uninitialized] return btr; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF jsavlt.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF needleman.c needleman.c: In function 'NeedlemanWunschQuadraticByLoc': needleman.c:281:24: warning: variable 'bestDbPos' set but not used [-Wunused-but-set-variable] Int4 bestQueryPos, bestDbPos; /*position ending best score in ^ needleman.c:281:10: warning: variable 'bestQueryPos' set but not used [-Wunused-but-set-variable] Int4 bestQueryPos, bestDbPos; /*position ending best score in ^ needleman.c: In function 'FetchSequenceByLoc': needleman.c:243:12: warning: 'query' may be used uninitialized in this function [-Wmaybe-uninitialized] return query; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF txalign.c txalign.c: In function 'addLinkoutForDefline': txalign.c:706:13: warning: variable 'hasLinkout' set but not used [-Wunused-but-set-variable] Boolean hasLinkout=FALSE; ^ txalign.c: In function 'addLinkoutForBioseq': txalign.c:774:13: warning: variable 'hasLinkout' set but not used [-Wunused-but-set-variable] Boolean hasLinkout=FALSE; ^ txalign.c: In function 'load_align_sum_for_StdSeg': txalign.c:2748:13: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (bsp = BioseqLockById(SeqLocId(ssp->loc->next))) { ^ txalign.c: In function 'ShowAlignNodeText2Ex': txalign.c:3548:13: warning: variable 'is_end' set but not used [-Wunused-but-set-variable] Boolean is_end, strip_semicolon=TRUE; ^ txalign.c: In function 'Tx_PrintDefLine': txalign.c:4597:7: warning: unused variable 'seqid_length' [-Wunused-variable] Int4 seqid_length = 0, total_length = 0; ^ txalign.c: In function 'PrintDefLinesFromSeqAlignWithPath': txalign.c:5012:39: warning: suggest parentheses around '&&' within '||' [-Wparentheses] } else if (bestid != NULL && !(options & TXALIGN_NO_DUMPGNL) || (options & TXALIGN_NO_ENTREZ)) ^ txalign.c:5016:29: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (bsp = BioseqLockById(bestid)) { ^ txalign.c:4718:10: warning: unused variable 'ColumnDistance' [-Wunused-variable] Int2 ColumnDistance=2, extraSpace=0, extraSpace2=0, strLen=0, maxEvalWidth=5, maxNWidth=2; ^ txalign.c:4710:43: warning: unused variable 'sip_list' [-Wunused-variable] SeqIdPtr bestid, gi_list, subject_id, sip_list=NULL, last_id; ^ txalign.c:4706:17: warning: variable 'ptr_start' set but not used [-Wunused-but-set-variable] Char *ptr, *ptr_start, *eval_buff_ptr, *bit_score_buff_ptr; ^ txalign.c: In function 'FormatScoreFromSeqAlignEx': txalign.c:5335:25: warning: unused variable 't_adj' [-Wunused-variable] Int4 m_adj = 0, t_adj = 0; ^ txalign.c:5334:29: warning: unused variable 'last_t_to' [-Wunused-variable] Int4 last_m_to = 0, last_t_to = 0; ^ txalign.c: In function 'FSFPrintOneDefline': txalign.c:5443:14: warning: variable 'seqid_len' set but not used [-Wunused-but-set-variable] Int4 gi, seqid_len = 0; ^ txalign.c: In function 'FormatScoreFunc': txalign.c:5660:13: warning: variable 'allocated' set but not used [-Wunused-but-set-variable] Boolean allocated, first; ^ txalign.c: In function 'OOFShowSingleAlignment': txalign.c:6326:27: warning: array subscript has type 'char' [-Wchar-subscripts] else if(matrix[line1[line_index]][line2[line_index]] > 0) ^ txalign.c:6326:46: warning: array subscript has type 'char' [-Wchar-subscripts] else if(matrix[line1[line_index]][line2[line_index]] > 0) ^ txalign.c:6093:13: warning: variable 'lines' set but not used [-Wunused-but-set-variable] Int4 i, lines, k, shift_info = 0; ^ txalign.c: In function 'OOFDisplayTraceBack1': txalign.c:6581:33: warning: unused variable 'st' [-Wunused-variable] tmp[10] = " ", *st; ^ txalign.c:6581:9: warning: unused variable 'tmp' [-Wunused-variable] tmp[10] = " ", *st; ^ txalign.c: In function 'OOFDisplayTraceBack2': txalign.c:6655:33: warning: unused variable 'st' [-Wunused-variable] tmp[10] = " ", *st; ^ txalign.c: In function 'FDGetTaxNamesFromBioseq': txalign.c:6757:21: warning: variable 'bdsp' set but not used [-Wunused-but-set-variable] BlastDefLinePtr bdsp; ^ txalign.c: At top level: txalign.c:630:16: warning: 'getNameInitials' defined but not used [-Wunused-function] static CharPtr getNameInitials(CharPtr name){ ^ txalign.c:828:19: warning: 'ProcessTextInsertion' declared 'static' but never defined [-Wunused-function] static ValNodePtr ProcessTextInsertion PROTO((AlignNodePtr anp, Int4 m_left, Int4 m_right, BioseqPtr bsp, Int4 line_len, Int1 frame)); ^ txalign.c:2338:16: warning: 'has_hit_in_region' defined but not used [-Wunused-function] static Boolean has_hit_in_region(Uint1Ptr all_frame) ^ txalign.c:3433:1: warning: 'get_seq_id' defined but not used [-Wunused-function] get_seq_id(SeqAlignPtr sap, Int2 index) ^ In file included from ../include/ncbi.h:62:0, from ../include/maputil.h:113, from ../include/jzcoll.h:123, from ../include/txalign.h:228, from txalign.c:559: txalign.c: In function 'DrawTextToBuffer': ../include/ncbistr.h:331:19: warning: 'HTML_buffer' may be used uninitialized in this function [-Wmaybe-uninitialized] #define StringLen Nlm_StringLen ^ txalign.c:1612:10: note: 'HTML_buffer' was declared here CharPtr HTML_buffer; ^ txalign.c: In function 'OOFShowSingleAlignment.isra.9': txalign.c:6049:16: warning: 'dna_line_start' may be used uninitialized in this function [-Wmaybe-uninitialized] number = number/10; ^ txalign.c:6089:32: note: 'dna_line_start' was declared here Int4 dna_index, pro_index, dna_line_start, pro_line_start; ^ txalign.c:6049:16: warning: 'pro_line_start' may be used uninitialized in this function [-Wmaybe-uninitialized] number = number/10; ^ txalign.c:6089:48: note: 'pro_line_start' was declared here Int4 dna_index, pro_index, dna_line_start, pro_line_start; ^ txalign.c: In function 'find_score_in_align': txalign.c:2598:33: warning: 'smtp' may be used uninitialized in this function [-Wmaybe-uninitialized] stdaa_res = SeqMapTableConvert(smtp, t_res); ^ txalign.c:2498:20: note: 'smtp' was declared here SeqMapTablePtr smtp; ^ txalign.c:2463:13: warning: 't_spp' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqPortFree(t_spp); ^ txalign.c:2394:23: note: 't_spp' was declared here SeqPortPtr m_spp, t_spp; ^ txalign.c:2460:11: warning: 'm_spp' may be used uninitialized in this function [-Wmaybe-uninitialized] if(m_spp == NULL) ^ txalign.c:2394:16: note: 'm_spp' was declared here SeqPortPtr m_spp, t_spp; ^ txalign.c: In function 'ShowAlignNodeText2Ex': txalign.c:2284:25: warning: 'm_len' may be used uninitialized in this function [-Wmaybe-uninitialized] to = MIN(master_len-1, to + 3); ^ txalign.c:3543:10: note: 'm_len' was declared here Int4 m_len; /*length of the master sequence*/ ^ txalign.c: In function 'ShowTextAlignFromAnnot3': txalign.c:1467:12: warning: 'retval' may be used uninitialized in this function [-Wmaybe-uninitialized] return retval; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF fdlobj.c fdlobj.c: In function 'BlastDefLineSetAsnRead': fdlobj.c:69:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ fdlobj.c: In function 'BlastDefLineAsnRead': fdlobj.c:202:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF alignmgr2.c alignmgr2.c: In function 'AlnMgr2IndexSingleDenseSegSA': alignmgr2.c:875:13: warning: statement with no effect [-Wunused-value] for (j; jnumseg && next == -1; j++) ^ alignmgr2.c: In function 'AlnMgr2CopySeg': alignmgr2.c:2967:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (ldelta = ABS(s->beg - beg)) { ^ alignmgr2.c: In function 'AlnMgr2AddInNewPairwiseSA': alignmgr2.c:3204:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (a = AlnMgr2GetNextSeqPiece(a)) { ^ alignmgr2.c:3206:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (b = AlnMgr2GetNextLimitedSeqPiece(b, a)) { ^ alignmgr2.c:3216:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (A = AlnMgr2GetNextSeqPiece(A)) { ^ alignmgr2.c:3220:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (B = AlnMgr2GetNextLimitedSeqPiece(B, A)) {}; ^ alignmgr2.c: In function 'AlnMgr2SetUnaln': alignmgr2.c:5393:22: warning: variable 'dsp' set but not used [-Wunused-but-set-variable] DenseSegPtr dsp; ^ alignmgr2.c: In function 'AlnMgr2PrintSeqAlign': alignmgr2.c:5606:10: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (more = AlnMgr2GetNextAlnBit(sap, amp)) ^ alignmgr2.c: In function 'AlnMgr2GetNextAlnBit': alignmgr2.c:5702:21: warning: variable 'found' set but not used [-Wunused-but-set-variable] Boolean found; ^ alignmgr2.c: In function 'AlnMgr2GetUnalignedInfo': alignmgr2.c:6068:22: warning: variable 'saip' set but not used [-Wunused-but-set-variable] SAIndex2Ptr saip; ^ alignmgr2.c: In function 'AlnMgr2GetInterruptInfo': alignmgr2.c:6314:7: warning: statement with no effect [-Wunused-value] for (i; isegnum; i++) ^ alignmgr2.c: In function 'AlnMgr2ComputeScoreForSeqAlign': alignmgr2.c:8324:17: warning: variable 'numseqs' set but not used [-Wunused-but-set-variable] Int4 numseqs; ^ alignmgr2.c:8322:17: warning: variable 'mismatch' set but not used [-Wunused-but-set-variable] Int4 mismatch; ^ alignmgr2.c:8321:17: warning: variable 'len' set but not used [-Wunused-but-set-variable] Int4 len; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from alignmgr2.c:232: alignmgr2.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ alignmgr2.c:2123:13: warning: 'AlnMgr2SortVerticesByNumEdges' defined but not used [-Wunused-function] static void AlnMgr2SortVerticesByNumEdges(AMVertexPtr PNTR vertexarray, Int4 numvertices) ^ alignmgr2.c:2351:18: warning: 'AlnMgr2GetEdgeList' defined but not used [-Wunused-function] static AMEdgePtr AlnMgr2GetEdgeList(Int4 vertexnum, AMEdgePtr edge_head, AMEdgePtr already_used) ^ alignmgr2.c:3540:13: warning: 'AlnMgr2AddInNewSA' defined but not used [-Wunused-function] static void AlnMgr2AddInNewSA(SeqAlignPtr parent, SeqAlignPtr sap) ^ alignmgr2.c:1051:13: warning: 'AlnMgr2UnpackSeqAlignChain' defined but not used [-Wunused-function] static void AlnMgr2UnpackSeqAlignChain(SeqAlignPtr sap) ^ alignmgr2.c: In function 'AlnMgr2GetLongestSeqLoc': alignmgr2.c:10114:15: warning: 'slp_longest' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqLocPtr slp_longest; ^ alignmgr2.c: In function 'AlnMgr2IndexLite': alignmgr2.c:991:33: warning: 'sap_segs_prev' may be used uninitialized in this function [-Wmaybe-uninitialized] sap_segs_prev->next = (SeqAlignPtr)(sap_segs->segs); ^ alignmgr2.c:958:17: note: 'sap_segs_prev' was declared here SeqAlignPtr sap_segs_prev; ^ alignmgr2.c: In function 'AlnMgr2GetUnalignedInfo': alignmgr2.c:6105:54: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] *from = dsp->starts[dsp->dim*i+row-1]+dsp->lens[i]; ^ alignmgr2.c: In function 'AlnMgr2GetMaxUnalignedLength': alignmgr2.c:7031:22: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] SAIndex2Ptr saip; ^ alignmgr2.c:7060:19: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] for (i=0; idim; i++) ^ alignmgr2.c: In function 'AlnMgr2GetInterruptInfo': alignmgr2.c:6336:16: warning: 'iip' may be used uninitialized in this function [-Wmaybe-uninitialized] iip->strand = strand; ^ alignmgr2.c:6165:19: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] trans = saip->srdp[saip->anchor-1]->sect; ^ alignmgr2.c:6320:48: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] iip->starts[k] = dsp->starts[dsp->dim*i + interrupt->row-1]; ^ alignmgr2.c: In function 'AlnMgr2GetNthSeqRangeInSA': alignmgr2.c:6461:15: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] srdp = saip->srdp[n-1]; ^ alignmgr2.c:6472:57: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] beg = dsp->starts[srdp->sect[srdp->numsect-1]*(dsp->dim) + n-1]; ^ alignmgr2.c: In function 'AlnMgr2GetNthRowSpanInSA': alignmgr2.c:6533:20: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] *start = saip->aligncoords[i]; ^ alignmgr2.c:6541:41: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] *stop = saip->aligncoords[i] + dsp->lens[srdp->sect[srdp->numsect-1]] - 1; ^ alignmgr2.c: In function 'AlnMgr2GetAlnLength': alignmgr2.c:6772:17: warning: 'salp' may be used uninitialized in this function [-Wmaybe-uninitialized] len += AlnMgr2GetMaxUnalignedLength(salp, i); ^ alignmgr2.c:6764:22: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] return (saip->aligncoords[saip->numseg-1]+dsp->lens[lastseg]); ^ alignmgr2.c:6771:20: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] len += dsp->lens[i]; ^ alignmgr2.c: In function 'AlnMgr2GetNextAlnBit': alignmgr2.c:6008:12: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] if (saip->anchor <= 0) ^ alignmgr2.c:6004:59: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] amp->from_row = dsp->starts[trans[start_sect]*dsp->dim+amp->row_num-1] + offset; ^ alignmgr2.c: In function 'AlnMgr2IsSAPDiscAli': alignmgr2.c:6796:12: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] if (saip->numunaln > 0) ^ alignmgr2.c: In function 'AlnMgr2GetNumAlnBlocks': alignmgr2.c:6819:12: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] if (saip->numunaln >= 0) ^ alignmgr2.c: In function 'AlnMgr2GetNthBlockRange': alignmgr2.c:6853:20: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] *start = saip->aligncoords[saip->unaln[n-1]+1]; ^ alignmgr2.c: In function 'AlnMgr2GetNthUnalignedForNthRow': alignmgr2.c:6872:22: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] SAIndex2Ptr saip; ^ alignmgr2.c:6919:65: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] *start = dsp->starts[(saip->srdp[row-1]->unaligned[i])*dsp->dim+row-1] + dsp->lens[(saip->srdp[row-1]->unaligned[i])]; ^ alignmgr2.c: In function 'AlnMgr2GetNextLengthBit': alignmgr2.c:7002:26: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] maxseg = saip->unaln[*seg]; ^ alignmgr2.c:6937:22: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] DenseSegPtr dsp; ^ alignmgr2.c: In function 'AlnMgr2GetNumSegsInRange': alignmgr2.c:7168:62: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] start = binary_search_on_uint4_list(aligncoords, from, dsp->numseg); ^ alignmgr2.c:7133:21: warning: 'aligncoords' may be used uninitialized in this function [-Wmaybe-uninitialized] Uint4Ptr aligncoords; ^ alignmgr2.c: In function 'AlnMgr2MapBioseqToSeqAlign': alignmgr2.c:7635:12: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] if (saip->anchor > 0) ^ alignmgr2.c:7573:21: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] DenseSegPtr dsp; ^ alignmgr2.c: In function 'AlnMgr2MapSeqAlignToBioseq': alignmgr2.c:7671:21: warning: 'saip' may be used uninitialized in this function [-Wmaybe-uninitialized] SAIndex2Ptr saip; ^ alignmgr2.c:7713:36: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] return (dsp->starts[sect*(dsp->dim)+row-1] + dsp->lens[sect] - 1 - offset); ^ alignmgr2.c: In function 'AlnMgr2GetSubAlign': alignmgr2.c:7537:26: warning: 'sap_real' may be used uninitialized in this function [-Wmaybe-uninitialized] if (sap == NULL || sap->saip == NULL) ^ alignmgr2.c:7982:21: note: 'sap_real' was declared here SeqAlignPtr sap_real; ^ alignmgr2.c: In function 'AlnMgr2FillInUnaligned': alignmgr2.c:9852:12: warning: 'offset' may be used uninitialized in this function [-Wmaybe-uninitialized] curr = curr + 1 + offset; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF alnread.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF acerdapi.c acerdapi.c: In function 'DoesSeqStringMatchBsp': acerdapi.c:201:30: warning: variable 'seq_len' set but not used [-Wunused-but-set-variable] Int4 ctr, pos = 0, i, len, seq_len; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from acerdapi.c:40: acerdapi.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF aceread.c aceread.c:134:12: warning: 's_IsGapChar' defined but not used [-Wunused-function] static int s_IsGapChar (char ch, char *gap_chars) ^ aceread.c:247:13: warning: 'AdjustGapInfoFor5Trim' defined but not used [-Wunused-function] static void AdjustGapInfoFor5Trim (TGapInfoPtr gap_info, int trim) ^ aceread.c:276:13: warning: 'AdjustGapInfoFor3Trim' defined but not used [-Wunused-function] static void AdjustGapInfoFor3Trim (TGapInfoPtr gap_info, int new_len) ^ aceread.c:3308:12: warning: 's_GetUngappedPosition' defined but not used [-Wunused-function] static int s_GetUngappedPosition (int gapped_pos, char *seq) ^ aceread.c: In function 's_ReadContig': aceread.c:1477:33: warning: 'linestring' may be used uninitialized in this function [-Wmaybe-uninitialized] if (linestring != NULL) free (linestring); ^ rm -f libncbiobj.a ar cru libncbiobj.a objacces.o objalign.o objall.o objbibli.o objfeat.o objgen.o objloc.o objmedli.o objpub.o objres.o objscoremat.o objseq.o objblock.o objcode.o objsset.o objsub.o objprt.o objfdef.o objalignloc.o objtable.o objpubme.o objmdrs.o objproj.o objgbseq.o objtseq.o objinsdseq.o objmacro.o objent2.o ent2api.o pmfapi.o objtax3.o tax3api.o objegkludge.o objentgene.o objmla2.o mla2api.o qblastapi.o vecscnapi.o objmim.o objvalid.o mimapi.o cddapi.o seqport.o sequtil.o prtutil.o simple.o tofasta.o tofile.o tomedlin.o valid.o valapi.o alignmgr.o aliparse.o aliread.o alignval.o sqnutil1.o sqnutil2.o sqnutil3.o sqnutil4.o subutil.o edutil.o asn2ff1.o asn2ff2.o asn2ff3.o asn2ff4.o asn2ff5.o asn2ff6.o asn2gnb1.o asn2gnb2.o asn2gnb3.o asn2gnb4.o asn2gnb5.o asn2gnb6.o ftusrstr.o gbfeat.o gbftglob.o gbparint.o utilpars.o utilpub.o ffprint.o wprint.o satutil.o seqmgr.o objmgr.o gather.o accmmdbs.o acccn3ds.o lsqfetch.o findrepl.o codon.o jzcoll.o jzmisc.o maputil.o mconsist.o macroapi.o salpedit.o salpstat.o salpacc.o salprop.o salsap.o salstruc.o salutil.o udvseq.o blocks.o pgppop.o samutil.o ddvcolor.o viewmgr.o ddvcreate.o jsavlt.o needleman.o txalign.o fdlobj.o alignmgr2.o alnread.o acerdapi.o aceread.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libncbiobj.a ../lib ranlib ../lib/libncbiobj.a gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF cdentrez.c cdentrez.c:1616:26: warning: 'FreePostingList' defined but not used [-Wunused-function] static ByteStorePtr NEAR FreePostingList (ByteStorePtr lst) ^ cdentrez.c:2935:23: warning: 'MedSumAsnRead' defined but not used [-Wunused-function] static DocSumPtr NEAR MedSumAsnRead (AsnIoPtr aip, DocUid uid) ^ cdentrez.c:283:23: warning: 'CdEntMlSumGet' declared 'static' but never defined [-Wunused-function] static DocSumPtr NEAR CdEntMlSumGet PROTO((Int4 uid)); ^ cdentrez.c:307:20: warning: 'BIOSEQ_id_E' defined but not used [-Wunused-variable] static AsnTypePtr BIOSEQ_id_E = NULL; ^ cdentrez.c:310:23: warning: 'CdEntSeqSumGet' declared 'static' but never defined [-Wunused-function] static DocSumPtr NEAR CdEntSeqSumGet PROTO((Int4 uid, DocType type)); ^ cdentrez.c: In function 'CdEntrezMergeTerm': cdentrez.c:2675:17: warning: 'total' may be used uninitialized in this function [-Wmaybe-uninitialized] *totl = total; ^ cdentrez.c:2672:17: warning: 'special' may be used uninitialized in this function [-Wmaybe-uninitialized] *spcl = special; ^ cdentrez.c:2640:5: warning: 'termpage' may be used uninitialized in this function [-Wmaybe-uninitialized] cd3_CdTermScan (db, fld, termpage, (Int4)0, ScanAndFreeProc); ^ cdentrez.c: In function 'CdLinkUidList': cdentrez.c:938:9: warning: 'count' may be used uninitialized in this function [-Wmaybe-uninitialized] return count; ^ cdentrez.c: In function 'CdTermListByTerm': cdentrez.c:1036:10: warning: 'first' may be used uninitialized in this function [-Wmaybe-uninitialized] rsult = cd3_CdTermScan(type,field,first,0,TermListTermScanProc); ^ cdentrez.c: In function 'CdEntTLAddTerm': cdentrez.c:1895:24: warning: 'total' may be used uninitialized in this function [-Wmaybe-uninitialized] if (scanOk && total > 0) { ^ cdentrez.c:1787:13: note: 'total' was declared here Int4 total; ^ cdentrez.c: In function 'CdEntrezFindTerm': cdentrez.c:1123:3: warning: 'ctp' may be used uninitialized in this function [-Wmaybe-uninitialized] CdTermFree(ctp); ^ cdentrez.c: In function 'CdEntMedlineEntryListGet': cdentrez.c:2720:6: warning: 'aip' may be used uninitialized in this function [-Wmaybe-uninitialized] cd3_CdDocAsnClose(aip); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF cdromlib.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF cdnewlib.c cdnewlib.c:600:27: warning: missing braces around initializer [-Wmissing-braces] struct CdFInfo _finfo[] = { ^ cdnewlib.c:600:27: note: (near initialization for '_finfo') cdnewlib.c:614:27: warning: missing braces around initializer [-Wmissing-braces] struct CdDirInfo _dir[] = { ^ cdnewlib.c:614:27: note: (near initialization for '_dir') cdnewlib.c: In function 'cd3_CdDocAsnOpen': cdnewlib.c:1342:12: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] return (AsnIo*) CatastrophicFailure(1); ^ cdnewlib.c:1327:9: warning: unused variable 'fdir' [-Wunused-variable] char *fdir = NULL; ^ cdnewlib.c: In function 'UidIndex_ReadPage': cdnewlib.c:1937:10: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] return (long*)CatastrophicFailure(1); ^ cdnewlib.c:1945:10: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] return (long*)CatastrophicFailure(1); ^ cdnewlib.c: In function 'CdDevice_Init': cdnewlib.c:2739:6: warning: variable 'cd_num' set but not used [-Wunused-but-set-variable] int cd_num; ^ cdnewlib.c: At top level: cdnewlib.c:3506:12: warning: 'Cache_Delete' defined but not used [-Wunused-function] static int Cache_Delete (Cache *cache, long id) ^ cdnewlib.c:3569:12: warning: 'Cache_Touch' defined but not used [-Wunused-function] static int Cache_Touch (Cache *cache, long id) ^ cdnewlib.c:3592:14: warning: 'Cache_Peek' defined but not used [-Wunused-function] static void* Cache_Peek (Cache *cache, long id) ^ cdnewlib.c:3605:13: warning: 'Cache_Purge' defined but not used [-Wunused-function] static void Cache_Purge (Cache *cache) ^ cdnewlib.c:582:15: warning: '_empty_string' defined but not used [-Wunused-variable] static char * _empty_string = ""; ^ cdnewlib.c:638:18: warning: '_div' defined but not used [-Wunused-variable] static DivInfo * _div; ^ cdnewlib.c: In function 'UnixFileGets': cdnewlib.c:1509:6: warning: 'ch' may be used uninitialized in this function [-Wmaybe-uninitialized] if (ch == '\0') { ^ cdnewlib.c: In function 'trmncmp': cdnewlib.c:2379:9: warning: 'c2' may be used uninitialized in this function [-Wmaybe-uninitialized] return (c1 - c2); ^ cdnewlib.c:2379:9: warning: 'c1' may be used uninitialized in this function [-Wmaybe-uninitialized] In file included from /usr/include/string.h:639:0, from ../include/ncbilcl.h:156, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objacces.h:64, from ../include/cdromlib.h:71, from cdnewlib.c:208: In function 'strncat', inlined from 'CdDevice_FileBuildPath.part.17' at cdnewlib.c:2679:5: /usr/include/x86_64-linux-gnu/bits/string3.h:156:10: warning: call to __builtin___strncat_chk might overflow destination buffer return __builtin___strncat_chk (__dest, __src, __len, __bos (__dest)); ^ In function 'strncat', inlined from 'CdDevice_Init' at cdnewlib.c:2751:3: /usr/include/x86_64-linux-gnu/bits/string3.h:156:10: warning: call to __builtin___strncat_chk might overflow destination buffer return __builtin___strncat_chk (__dest, __src, __len, __bos (__dest)); ^ In function 'strncat', inlined from 'CdDevice_Init' at cdnewlib.c:2769:6: /usr/include/x86_64-linux-gnu/bits/string3.h:156:10: warning: call to __builtin___strncat_chk might overflow destination buffer return __builtin___strncat_chk (__dest, __src, __len, __bos (__dest)); ^ cdnewlib.c: In function 'TrmIndex_Lookup': cdnewlib.c:2136:24: warning: 'd' may be used uninitialized in this function [-Wmaybe-uninitialized] int lo, hi, mid, len, d; ^ cdnewlib.c:2168:27: warning: 'term' may be used uninitialized in this function [-Wmaybe-uninitialized] if (d==0 && len == (int)strlen(term)) ^ cdnewlib.c:2136:14: warning: 'mid' may be used uninitialized in this function [-Wmaybe-uninitialized] int lo, hi, mid, len, d; ^ cdnewlib.c: In function 'UidIndex_Lookup': cdnewlib.c:1986:20: warning: 'p' may be used uninitialized in this function [-Wmaybe-uninitialized] page_num = (uid < *p && mid >0) ? mid-1 : mid; ^ cdnewlib.c:1986:42: warning: 'mid' may be used uninitialized in this function [-Wmaybe-uninitialized] page_num = (uid < *p && mid >0) ? mid-1 : mid; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF casn.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF cdconfig.c In file included from ../include/ncbi.h:58:0, from cdconfig.c:75: cdconfig.c: In function 'ChangeMedia': ../include/ncbistd.h:278:15: warning: statement with no effect [-Wunused-value] #define FALSE ((Nlm_Boolean)0) ^ ../include/ncbifile.h:169:76: note: in expansion of macro 'FALSE' #define EjectCd(sVolume, deviceName, rawDeviceName, mountPoint, mountCmd) FALSE ^ cdconfig.c:941:29: note: in expansion of macro 'EjectCd' EjectCd(toBeEjected->entrez_info->volume_label, ^ ../include/ncbistd.h:278:15: warning: statement with no effect [-Wunused-value] #define FALSE ((Nlm_Boolean)0) ^ ../include/ncbifile.h:170:76: note: in expansion of macro 'FALSE' #define MountCd(sVolume, deviceName, mountPoint, mountCmd) FALSE ^ cdconfig.c:960:17: note: in expansion of macro 'MountCd' MountCd(newMedia->entrez_info->volume_label, cdm->device_name, ^ cdconfig.c: At top level: cdconfig.c:191:17: warning: 'UnMarkLRUineligible' declared 'static' but never defined [-Wunused-function] static void UnMarkLRUineligible PROTO((void)); ^ cdconfig.c: In function 'EntrezInfoMerge': cdconfig.c:1141:23: warning: 'besttype' may be used uninitialized in this function [-Wmaybe-uninitialized] EntrezTypeDataPtr besttype; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objentr.c objentr.c: In function 'DocSumAsnRead': objentr.c:970:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objentr.c:969:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objentr.c: At top level: objentr.c:771:16: warning: 'EntrezLinkInfo_AsnWrite' defined but not used [-Wunused-function] static Boolean EntrezLinkInfo_AsnWrite (const EntrezLinkInfo *link, AsnIo *stream, AsnType *type) ^ objentr.c:806:23: warning: 'EntrezDivInfo_Destruct' defined but not used [-Wunused-function] static EntrezDivInfo* EntrezDivInfo_Destruct (EntrezDivInfo *div) ^ objentr.c: In function 'EntrezInfoAsnRead': objentr.c:818:5: warning: 'div' may be used uninitialized in this function [-Wmaybe-uninitialized] if (div == NULL) ^ objentr.c:241:17: note: 'div' was declared here EntrezDivInfo *div; ^ objentr.c:763:17: warning: 'link' may be used uninitialized in this function [-Wmaybe-uninitialized] link->datasize = (int) val.intvalue; ^ objentr.c:240:18: note: 'link' was declared here EntrezLinkInfo *link; ^ objentr.c:704:19: warning: 'fld' may be used uninitialized in this function [-Wmaybe-uninitialized] fld->post_type = (PostType) val.intvalue; ^ objentr.c:239:19: note: 'fld' was declared here EntrezFieldInfo *fld; ^ objentr.c:649:18: warning: 'tinf' may be used uninitialized in this function [-Wmaybe-uninitialized] tinf->asntype = (char*) val.ptrvalue; ^ objentr.c:238:18: note: 'tinf' was declared here EntrezTypeInfo *tinf; ^ objentr.c:856:14: warning: 'i' may be used uninitialized in this function [-Wmaybe-uninitialized] div->docs[i++] = val.intvalue; ^ objentr.c:824:7: note: 'i' was declared here int i; ^ rm -f libncbicdr.a ar cru libncbicdr.a cdentrez.o cdromlib.o cdnewlib.o casn.o cdconfig.o objentr.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libncbicdr.a ../lib ranlib ../lib/libncbicdr.a gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF vibbutns.c vibbutns.c: In function 'Nlm_CheckCallback': vibbutns.c:328:20: warning: variable 'c' set but not used [-Wunused-but-set-variable] Nlm_ControlTool c; ^ vibbutns.c: In function 'Nlm_RadioCallback': vibbutns.c:347:20: warning: variable 'c' set but not used [-Wunused-but-set-variable] Nlm_ControlTool c; ^ vibbutns.c: In function 'Nlm_SetButtonStatus': vibbutns.c:668:20: warning: variable 'val' set but not used [-Wunused-but-set-variable] Nlm_Int2 val; ^ vibbutns.c: In function 'Nlm_NewButton.constprop': vibbutns.c:1133:3: warning: 'call' may be used uninitialized in this function [-Wmaybe-uninitialized] XtAddCallback (c, call, Nlm_ButtonCallback, (XtPointer) b); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF vibextra.c vibextra.c: In function 'Nlm_RGB2HSL.constprop': vibextra.c:1219:13: warning: 'min' may be used uninitialized in this function [-Wmaybe-uninitialized] i++; if ( i > 2 ) i=0; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF vibfiles.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF vibforms.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF vibgroup.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF viblists.c viblists.c: In function 'Nlm_SetListPosition': viblists.c:1118:15: warning: variable 'is_realized' set but not used [-Wunused-but-set-variable] Nlm_Boolean is_realized; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF vibmenus.c vibmenus.c: In function 'Nlm_IsMenuItemChecked': vibmenus.c:563:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_CheckMenuItem': vibmenus.c:591:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_EnableMenuItem': vibmenus.c:1986:17: warning: variable 'itm' set but not used [-Wunused-but-set-variable] Nlm_Int2 itm; ^ vibmenus.c:1985:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_EnableChoice': vibmenus.c:2052:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_EnableChoiceGroup': vibmenus.c:2102:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_EnableChoiceItem': vibmenus.c:2146:17: warning: variable 'itm' set but not used [-Wunused-but-set-variable] Nlm_Int2 itm; ^ vibmenus.c:2144:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_DisableMenuItem': vibmenus.c:2309:17: warning: variable 'itm' set but not used [-Wunused-but-set-variable] Nlm_Int2 itm; ^ vibmenus.c:2308:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_DisableChoice': vibmenus.c:2375:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_DisableChoiceItem': vibmenus.c:2469:17: warning: variable 'itm' set but not used [-Wunused-but-set-variable] Nlm_Int2 itm; ^ vibmenus.c:2467:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_RemoveSubMenu': vibmenus.c:2607:20: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_CountMenuItems': vibmenus.c:3036:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_GetMenuItem': vibmenus.c:3219:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_GetPopListTitle': vibmenus.c:3329:18: warning: variable 'm' set but not used [-Wunused-but-set-variable] Nlm_MenU m; ^ vibmenus.c: In function 'Nlm_AppendItems': vibmenus.c:3948:17: warning: unused variable 'accel' [-Wunused-variable] Nlm_Char accel; ^ vibmenus.c: In function 'Nlm_NewPopupList': vibmenus.c:4939:19: warning: unused variable 'lbl' [-Wunused-variable] Widget lbl; ^ vibmenus.c:4937:19: warning: unused variable 'color' [-Wunused-variable] Pixel color; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF vibprmpt.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF vibsbars.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF vibslate.c vibslate.c: In function 'Nlm_EnableSlate': vibslate.c:1199:18: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_SlateTool h; ^ vibslate.c: In function 'Nlm_DisableSlate': vibslate.c:1254:18: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_SlateTool h; ^ vibslate.c: In function 'Nlm_SelectSlate': vibslate.c:1515:5: warning: missing sentinel in function call [-Wformat=] XtVaGetValues (h, XmNbackground, &color, 0); ^ vibslate.c:1517:5: warning: missing sentinel in function call [-Wformat=] XtVaGetValues (h, XmNforeground, &color, 0); ^ vibslate.c: In function 'Nlm_SelectPanel': vibslate.c:1544:3: warning: missing sentinel in function call [-Wformat=] XtVaGetValues (h, XmNbackground, &color, 0); ^ vibslate.c:1546:3: warning: missing sentinel in function call [-Wformat=] XtVaGetValues (h, XmNforeground, &color, 0); ^ vibslate.c: In function 'Nlm_SlateClick': vibslate.c:2026:20: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_SlateTool h; ^ vibslate.c: In function 'Nlm_SlateClickCallback': vibslate.c:2157:3: warning: missing sentinel in function call [-Wformat=] XtVaGetValues (w, XmNbackground, &color, 0); ^ vibslate.c:2159:3: warning: missing sentinel in function call [-Wformat=] XtVaGetValues (w, XmNforeground, &color, 0); ^ vibslate.c: In function 'Nlm_SlateInputCallback': vibslate.c:2313:7: warning: missing sentinel in function call [-Wformat=] XtVaGetValues(w, XmNbackground, &color, 0); ^ vibslate.c:2315:7: warning: missing sentinel in function call [-Wformat=] XtVaGetValues(w, XmNforeground, &color, 0); ^ vibslate.c: In function 'Nlm_SlateDrawCallback': vibslate.c:2359:3: warning: missing sentinel in function call [-Wformat=] XtVaGetValues (w, XmNbackground, &color, 0); ^ vibslate.c:2361:3: warning: missing sentinel in function call [-Wformat=] XtVaGetValues (w, XmNforeground, &color, 0); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF vibtexts.c vibtexts.c: In function 'Nlm_TextCallback': vibtexts.c:2982:24: warning: unused variable 'cbs' [-Wunused-variable] XmAnyCallbackStruct *cbs = (XmAnyCallbackStruct *)call_data; ^ vibtexts.c: In function 'Nlm_LoseFocusCallback': vibtexts.c:2999:25: warning: variable 'cbs' set but not used [-Wunused-but-set-variable] XmAnyCallbackStruct *cbs; ^ vibtexts.c: In function 'Nlm_TabCallback': vibtexts.c:3109:15: warning: variable 'event' set but not used [-Wunused-but-set-variable] XKeyEvent *event; ^ vibtexts.c: In function 'Nlm_HiddenReturnCallback': vibtexts.c:3122:15: warning: variable 'event' set but not used [-Wunused-but-set-variable] XKeyEvent *event; ^ vibtexts.c: In function 'Nlm_HiddenActivateCallback': vibtexts.c:3135:25: warning: variable 'cbs' set but not used [-Wunused-but-set-variable] XmAnyCallbackStruct *cbs; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF vibutils.c vibutils.c: In function 'Nlm_VibMessageHook': vibutils.c:776:13: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] percent = (Nlm_Int4)Nlm_GetAppProperty( "VibrantMessageWidthMax" ); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF vibwndws.c vibwndws.c: In function 'Nlm_SetColorMap': vibwndws.c:1060:13: warning: variable 'defaultdepth' set but not used [-Wunused-but-set-variable] int defaultdepth; ^ vibwndws.c: In function 'Nlm_SetWindowTitle': vibwndws.c:1567:19: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ vibwndws.c: In function 'Nlm_GetWindowTitle': vibwndws.c:1610:19: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ vibwndws.c: In function 'Nlm_NewWindow': vibwndws.c:2155:19: warning: variable 'screen_num' set but not used [-Wunused-but-set-variable] int screen_num; ^ vibwndws.c: In function 'Nlm_HideWindow': vibwndws.c:2526:19: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ vibwndws.c: In function 'Nlm_ShowNormal': vibwndws.c:2969:19: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ vibwndws.c: In function 'Nlm_ShowModal': vibwndws.c:3014:19: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ vibwndws.c: In function 'Nlm_ShowDocument': vibwndws.c:3060:19: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ vibwndws.c: In function 'Nlm_VibMainPrelude': vibwndws.c:6771:13: warning: unused variable 'retval' [-Wunused-variable] Nlm_Int2 retval; ^ vibwndws.c: In function 'Nlm_RemoveDyingWindows': vibwndws.c:6893:20: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF vibmain.c vibmain.c:121:1: warning: return type defaults to 'int' [-Wimplicit-int] main (int argc, char *argv[]) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbidraw.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF drawing.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF mapping.c mapping.c: In function 'Nlm_MapRectToWorldBox': mapping.c:139:8: warning: variable 'curScale' set but not used [-Wunused-but-set-variable] Int4 curScale; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF picture.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF viewer.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF document.c document.c: In function 'Nlm_PrintDocument': document.c:4413:7: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ document.c:4417:7: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF table.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF palette.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF diagnost.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF image.c image.c: In function 'ShiftXMask': image.c:840:26: warning: suggest parentheses around '+' inside '>>' [-Wparentheses] if(!((mask >> hi + low) & (unsigned long)1)) break; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF pictur3d.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF prim3d1.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF prim3d2.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF prim3d3.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF prim3d4.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF prim3d5.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF viewer3d.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF vibmouse.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF netscape.c netscape.c: In function 'NS_Obtain_lock': netscape.c:236:10: warning: variable 'waited' set but not used [-Wunused-but-set-variable] Bool waited = False; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF imagelst.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF treeview.c treeview.c: In function 'getNodeLength': treeview.c:177:13: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] length= (Int4)tree_getNode(cursor, TREE_NODE_FMT_DISTANCE, &size); ^ treeview.c: In function 'getIconId': treeview.c:187:8: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] a= (Int4) tree_getNode(cursor, TREE_NODE_FMT_ICON, &size); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF shim3d.c shim3d.c: In function 'Nlm_AddHalfWorm3D': shim3d.c:3461:46: warning: unused variable 'tmp' [-Wunused-variable] *pNx, *pNy, *pNz, *pCx, *pCy, *pCz, *tmp, *fblock = NULL; ^ shim3d.c:3461:40: warning: unused variable 'pCz' [-Wunused-variable] *pNx, *pNy, *pNz, *pCx, *pCy, *pCz, *tmp, *fblock = NULL; ^ shim3d.c:3461:34: warning: unused variable 'pCy' [-Wunused-variable] *pNx, *pNy, *pNz, *pCx, *pCy, *pCz, *tmp, *fblock = NULL; ^ shim3d.c:3461:28: warning: unused variable 'pCx' [-Wunused-variable] *pNx, *pNy, *pNz, *pCx, *pCy, *pCz, *tmp, *fblock = NULL; ^ shim3d.c:3461:22: warning: unused variable 'pNz' [-Wunused-variable] *pNx, *pNy, *pNz, *pCx, *pCy, *pCz, *tmp, *fblock = NULL; ^ shim3d.c:3461:16: warning: unused variable 'pNy' [-Wunused-variable] *pNx, *pNy, *pNz, *pCx, *pCy, *pCz, *tmp, *fblock = NULL; ^ shim3d.c:3461:10: warning: unused variable 'pNx' [-Wunused-variable] *pNx, *pNy, *pNz, *pCx, *pCy, *pCz, *tmp, *fblock = NULL; ^ shim3d.c:3460:47: warning: unused variable 'Cz' [-Wunused-variable] GLdouble *Nx = NULL, *Ny, *Nz, *Cx, *Cy, *Cz, ^ shim3d.c:3460:42: warning: unused variable 'Cy' [-Wunused-variable] GLdouble *Nx = NULL, *Ny, *Nz, *Cx, *Cy, *Cz, ^ shim3d.c:3460:37: warning: unused variable 'Cx' [-Wunused-variable] GLdouble *Nx = NULL, *Ny, *Nz, *Cx, *Cy, *Cz, ^ shim3d.c:3460:32: warning: unused variable 'Nz' [-Wunused-variable] GLdouble *Nx = NULL, *Ny, *Nz, *Cx, *Cy, *Cz, ^ shim3d.c:3460:27: warning: unused variable 'Ny' [-Wunused-variable] GLdouble *Nx = NULL, *Ny, *Nz, *Cx, *Cy, *Cz, ^ shim3d.c:3460:15: warning: unused variable 'Nx' [-Wunused-variable] GLdouble *Nx = NULL, *Ny, *Nz, *Cx, *Cy, *Cz, ^ shim3d.c:3459:21: warning: unused variable 'pi' [-Wunused-variable] cosj, sinj, pi = 3.14159265358979323846; ^ shim3d.c:3459:15: warning: unused variable 'sinj' [-Wunused-variable] cosj, sinj, pi = 3.14159265358979323846; ^ shim3d.c:3459:9: warning: unused variable 'cosj' [-Wunused-variable] cosj, sinj, pi = 3.14159265358979323846; ^ shim3d.c:3458:33: warning: unused variable 'prevlen' [-Wunused-variable] Hx, Hy, Hz, Vx, Vy, Vz, prevlen, ^ shim3d.c:3458:29: warning: unused variable 'Vz' [-Wunused-variable] Hx, Hy, Hz, Vx, Vy, Vz, prevlen, ^ shim3d.c:3458:25: warning: unused variable 'Vy' [-Wunused-variable] Hx, Hy, Hz, Vx, Vy, Vz, prevlen, ^ shim3d.c:3458:21: warning: unused variable 'Vx' [-Wunused-variable] Hx, Hy, Hz, Vx, Vy, Vz, prevlen, ^ shim3d.c:3458:17: warning: unused variable 'Hz' [-Wunused-variable] Hx, Hy, Hz, Vx, Vy, Vz, prevlen, ^ shim3d.c:3458:13: warning: unused variable 'Hy' [-Wunused-variable] Hx, Hy, Hz, Vx, Vy, Vz, prevlen, ^ shim3d.c:3458:9: warning: unused variable 'Hx' [-Wunused-variable] Hx, Hy, Hz, Vx, Vy, Vz, prevlen, ^ shim3d.c:3457:21: warning: unused variable 'dQtz' [-Wunused-variable] dQtx, dQty, dQtz, /*ddQtx, ddQty, ddQtz,*/ ^ shim3d.c:3457:15: warning: unused variable 'dQty' [-Wunused-variable] dQtx, dQty, dQtz, /*ddQtx, ddQty, ddQtz,*/ ^ shim3d.c:3457:9: warning: unused variable 'dQtx' [-Wunused-variable] dQtx, dQty, dQtz, /*ddQtx, ddQty, ddQtz,*/ ^ shim3d.c:3455:14: warning: unused variable 'len' [-Wunused-variable] GLdouble len, R1x, R1y, R1z, R2x, R2y, R2z, MG[4][3], ^ shim3d.c:3454:26: warning: unused variable 'offset' [-Wunused-variable] Nlm_Int4 i, j, k, m, offset; ^ shim3d.c:3454:23: warning: unused variable 'm' [-Wunused-variable] Nlm_Int4 i, j, k, m, offset; ^ shim3d.c:3454:20: warning: unused variable 'k' [-Wunused-variable] Nlm_Int4 i, j, k, m, offset; ^ shim3d.c:3454:17: warning: unused variable 'j' [-Wunused-variable] Nlm_Int4 i, j, k, m, offset; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF odlbox.c odlbox.c: In function 'LB_onVScroll': odlbox.c:424:12: warning: variable 'IsGoUp' set but not used [-Wunused-but-set-variable] Boolean IsGoUp=FALSE; ^ rm -f libvibrant.a ar cru libvibrant.a vibbutns.o vibextra.o vibfiles.o vibforms.o vibgroup.o viblists.o vibmenus.o vibprmpt.o vibsbars.o vibslate.o vibtexts.o vibutils.o vibwndws.o vibmain.o ncbidraw.o drawing.o mapping.o picture.o viewer.o document.o table.o palette.o diagnost.o image.o pictur3d.o prim3d1.o prim3d2.o prim3d3.o prim3d4.o prim3d5.o viewer3d.o vibmouse.o netscape.o imagelst.o treeview.o shim3d.o odlbox.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libvibrant.a ../lib ranlib ../lib/libvibrant.a mv vibbutns.o vibbutns.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibbutns.c vibbutns.c: In function 'Nlm_CheckCallback': vibbutns.c:328:20: warning: variable 'c' set but not used [-Wunused-but-set-variable] Nlm_ControlTool c; ^ vibbutns.c: In function 'Nlm_RadioCallback': vibbutns.c:347:20: warning: variable 'c' set but not used [-Wunused-but-set-variable] Nlm_ControlTool c; ^ vibbutns.c: In function 'Nlm_SetButtonStatus': vibbutns.c:668:20: warning: variable 'val' set but not used [-Wunused-but-set-variable] Nlm_Int2 val; ^ vibbutns.c: In function 'Nlm_NewButton.constprop': vibbutns.c:1133:3: warning: 'call' may be used uninitialized in this function [-Wmaybe-uninitialized] XtAddCallback (c, call, Nlm_ButtonCallback, (XtPointer) b); ^ mv vibbutns.o vibbutns.glo mv vibbutns.tmp vibbutns.o mv vibextra.o vibextra.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibextra.c vibextra.c: In function 'Nlm_RGB2HSL.constprop': vibextra.c:1219:13: warning: 'min' may be used uninitialized in this function [-Wmaybe-uninitialized] i++; if ( i > 2 ) i=0; ^ mv vibextra.o vibextra.glo mv vibextra.tmp vibextra.o mv vibfiles.o vibfiles.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibfiles.c mv vibfiles.o vibfiles.glo mv vibfiles.tmp vibfiles.o mv vibforms.o vibforms.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibforms.c mv vibforms.o vibforms.glo mv vibforms.tmp vibforms.o mv vibgroup.o vibgroup.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibgroup.c mv vibgroup.o vibgroup.glo mv vibgroup.tmp vibgroup.o mv viblists.o viblists.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL viblists.c viblists.c: In function 'Nlm_SetListPosition': viblists.c:1118:15: warning: variable 'is_realized' set but not used [-Wunused-but-set-variable] Nlm_Boolean is_realized; ^ mv viblists.o viblists.glo mv viblists.tmp viblists.o mv vibmenus.o vibmenus.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibmenus.c vibmenus.c: In function 'Nlm_IsMenuItemChecked': vibmenus.c:563:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_CheckMenuItem': vibmenus.c:591:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_EnableMenuItem': vibmenus.c:1986:17: warning: variable 'itm' set but not used [-Wunused-but-set-variable] Nlm_Int2 itm; ^ vibmenus.c:1985:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_EnableChoice': vibmenus.c:2052:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_EnableChoiceGroup': vibmenus.c:2102:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_EnableChoiceItem': vibmenus.c:2146:17: warning: variable 'itm' set but not used [-Wunused-but-set-variable] Nlm_Int2 itm; ^ vibmenus.c:2144:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_DisableMenuItem': vibmenus.c:2309:17: warning: variable 'itm' set but not used [-Wunused-but-set-variable] Nlm_Int2 itm; ^ vibmenus.c:2308:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_DisableChoice': vibmenus.c:2375:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_DisableChoiceItem': vibmenus.c:2469:17: warning: variable 'itm' set but not used [-Wunused-but-set-variable] Nlm_Int2 itm; ^ vibmenus.c:2467:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_RemoveSubMenu': vibmenus.c:2607:20: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_CountMenuItems': vibmenus.c:3036:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_GetMenuItem': vibmenus.c:3219:17: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_MenuTool h; ^ vibmenus.c: In function 'Nlm_GetPopListTitle': vibmenus.c:3329:18: warning: variable 'm' set but not used [-Wunused-but-set-variable] Nlm_MenU m; ^ vibmenus.c: In function 'Nlm_AppendItems': vibmenus.c:3948:17: warning: unused variable 'accel' [-Wunused-variable] Nlm_Char accel; ^ vibmenus.c: In function 'Nlm_NewPopupList': vibmenus.c:4939:19: warning: unused variable 'lbl' [-Wunused-variable] Widget lbl; ^ vibmenus.c:4937:19: warning: unused variable 'color' [-Wunused-variable] Pixel color; ^ mv vibmenus.o vibmenus.glo mv vibmenus.tmp vibmenus.o mv vibprmpt.o vibprmpt.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibprmpt.c mv vibprmpt.o vibprmpt.glo mv vibprmpt.tmp vibprmpt.o mv vibsbars.o vibsbars.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibsbars.c mv vibsbars.o vibsbars.glo mv vibsbars.tmp vibsbars.o mv vibslate.o vibslate.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibslate.c vibslate.c: In function 'Nlm_EnableSlate': vibslate.c:1199:18: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_SlateTool h; ^ vibslate.c: In function 'Nlm_DisableSlate': vibslate.c:1254:18: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_SlateTool h; ^ vibslate.c: In function 'Nlm_SelectSlate': vibslate.c:1515:5: warning: missing sentinel in function call [-Wformat=] XtVaGetValues (h, XmNbackground, &color, 0); ^ vibslate.c:1517:5: warning: missing sentinel in function call [-Wformat=] XtVaGetValues (h, XmNforeground, &color, 0); ^ vibslate.c: In function 'Nlm_SelectPanel': vibslate.c:1544:3: warning: missing sentinel in function call [-Wformat=] XtVaGetValues (h, XmNbackground, &color, 0); ^ vibslate.c:1546:3: warning: missing sentinel in function call [-Wformat=] XtVaGetValues (h, XmNforeground, &color, 0); ^ vibslate.c: In function 'Nlm_SlateClick': vibslate.c:2026:20: warning: variable 'h' set but not used [-Wunused-but-set-variable] Nlm_SlateTool h; ^ vibslate.c: In function 'Nlm_SlateClickCallback': vibslate.c:2157:3: warning: missing sentinel in function call [-Wformat=] XtVaGetValues (w, XmNbackground, &color, 0); ^ vibslate.c:2159:3: warning: missing sentinel in function call [-Wformat=] XtVaGetValues (w, XmNforeground, &color, 0); ^ vibslate.c: In function 'Nlm_SlateInputCallback': vibslate.c:2313:7: warning: missing sentinel in function call [-Wformat=] XtVaGetValues(w, XmNbackground, &color, 0); ^ vibslate.c:2315:7: warning: missing sentinel in function call [-Wformat=] XtVaGetValues(w, XmNforeground, &color, 0); ^ vibslate.c: In function 'Nlm_SlateDrawCallback': vibslate.c:2359:3: warning: missing sentinel in function call [-Wformat=] XtVaGetValues (w, XmNbackground, &color, 0); ^ vibslate.c:2361:3: warning: missing sentinel in function call [-Wformat=] XtVaGetValues (w, XmNforeground, &color, 0); ^ vibslate.c: In function 'Nlm_Set3DColorMap': vibslate.c:2686:17: warning: unused variable 'testvisual' [-Wunused-variable] Boolean testvisual; ^ vibslate.c:2685:13: warning: variable 'defaultdepth' set but not used [-Wunused-but-set-variable] int defaultdepth; ^ mv vibslate.o vibslate.glo mv vibslate.tmp vibslate.o mv vibtexts.o vibtexts.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibtexts.c vibtexts.c: In function 'Nlm_TextCallback': vibtexts.c:2982:24: warning: unused variable 'cbs' [-Wunused-variable] XmAnyCallbackStruct *cbs = (XmAnyCallbackStruct *)call_data; ^ vibtexts.c: In function 'Nlm_LoseFocusCallback': vibtexts.c:2999:25: warning: variable 'cbs' set but not used [-Wunused-but-set-variable] XmAnyCallbackStruct *cbs; ^ vibtexts.c: In function 'Nlm_TabCallback': vibtexts.c:3109:15: warning: variable 'event' set but not used [-Wunused-but-set-variable] XKeyEvent *event; ^ vibtexts.c: In function 'Nlm_HiddenReturnCallback': vibtexts.c:3122:15: warning: variable 'event' set but not used [-Wunused-but-set-variable] XKeyEvent *event; ^ vibtexts.c: In function 'Nlm_HiddenActivateCallback': vibtexts.c:3135:25: warning: variable 'cbs' set but not used [-Wunused-but-set-variable] XmAnyCallbackStruct *cbs; ^ mv vibtexts.o vibtexts.glo mv vibtexts.tmp vibtexts.o mv vibutils.o vibutils.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibutils.c vibutils.c: In function 'Nlm_VibMessageHook': vibutils.c:776:13: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] percent = (Nlm_Int4)Nlm_GetAppProperty( "VibrantMessageWidthMax" ); ^ mv vibutils.o vibutils.glo mv vibutils.tmp vibutils.o mv vibwndws.o vibwndws.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibwndws.c vibwndws.c: In function 'Nlm_SetColorMap': vibwndws.c:1060:13: warning: variable 'defaultdepth' set but not used [-Wunused-but-set-variable] int defaultdepth; ^ vibwndws.c: In function 'Nlm_SetWindowTitle': vibwndws.c:1567:19: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ vibwndws.c: In function 'Nlm_GetWindowTitle': vibwndws.c:1610:19: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ vibwndws.c: In function 'Nlm_NewWindow': vibwndws.c:2155:19: warning: variable 'screen_num' set but not used [-Wunused-but-set-variable] int screen_num; ^ vibwndws.c: In function 'Nlm_HideWindow': vibwndws.c:2526:19: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ vibwndws.c: In function 'Nlm_ShowNormal': vibwndws.c:2969:19: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ vibwndws.c: In function 'Nlm_ShowModal': vibwndws.c:3014:19: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ vibwndws.c: In function 'Nlm_ShowDocument': vibwndws.c:3060:19: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ vibwndws.c: In function 'Nlm_VibMainPrelude': vibwndws.c:6771:13: warning: unused variable 'retval' [-Wunused-variable] Nlm_Int2 retval; ^ vibwndws.c: In function 'Nlm_RemoveDyingWindows': vibwndws.c:6893:20: warning: variable 'wptr' set but not used [-Wunused-but-set-variable] Nlm_WindowTool wptr; ^ vibwndws.c: At top level: vibwndws.c:1318:16: warning: 'Nlm_StandardColormap' defined but not used [-Wunused-function] static Boolean Nlm_StandardColormap(Colormap *cMap, ^ mv vibwndws.o vibwndws.glo mv vibwndws.tmp vibwndws.o mv vibmain.o vibmain.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibmain.c vibmain.c:121:1: warning: return type defaults to 'int' [-Wimplicit-int] main (int argc, char *argv[]) ^ mv vibmain.o vibmain.glo mv vibmain.tmp vibmain.o mv ncbidraw.o ncbidraw.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL ncbidraw.c mv ncbidraw.o ncbidraw.glo mv ncbidraw.tmp ncbidraw.o mv drawing.o drawing.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL drawing.c mv drawing.o drawing.glo mv drawing.tmp drawing.o mv mapping.o mapping.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL mapping.c mapping.c: In function 'Nlm_MapRectToWorldBox': mapping.c:139:8: warning: variable 'curScale' set but not used [-Wunused-but-set-variable] Int4 curScale; ^ mv mapping.o mapping.glo mv mapping.tmp mapping.o mv picture.o picture.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL picture.c mv picture.o picture.glo mv picture.tmp picture.o mv viewer.o viewer.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL viewer.c mv viewer.o viewer.glo mv viewer.tmp viewer.o mv document.o document.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL document.c document.c: In function 'Nlm_PrintDocument': document.c:4413:7: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ document.c:4417:7: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ mv document.o document.glo mv document.tmp document.o mv table.o table.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL table.c mv table.o table.glo mv table.tmp table.o mv palette.o palette.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL palette.c mv palette.o palette.glo mv palette.tmp palette.o mv diagnost.o diagnost.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL diagnost.c mv diagnost.o diagnost.glo mv diagnost.tmp diagnost.o mv image.o image.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL image.c image.c: In function 'ShiftXMask': image.c:840:26: warning: suggest parentheses around '+' inside '>>' [-Wparentheses] if(!((mask >> hi + low) & (unsigned long)1)) break; ^ mv image.o image.glo mv image.tmp image.o mv pictur3d.o pictur3d.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL pictur3d.c mv pictur3d.o pictur3d.glo mv pictur3d.tmp pictur3d.o mv prim3d1.o prim3d1.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL prim3d1.c mv prim3d1.o prim3d1.glo mv prim3d1.tmp prim3d1.o mv prim3d2.o prim3d2.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL prim3d2.c mv prim3d2.o prim3d2.glo mv prim3d2.tmp prim3d2.o mv prim3d3.o prim3d3.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL prim3d3.c mv prim3d3.o prim3d3.glo mv prim3d3.tmp prim3d3.o mv prim3d4.o prim3d4.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL prim3d4.c mv prim3d4.o prim3d4.glo mv prim3d4.tmp prim3d4.o mv prim3d5.o prim3d5.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL prim3d5.c mv prim3d5.o prim3d5.glo mv prim3d5.tmp prim3d5.o mv viewer3d.o viewer3d.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL viewer3d.c mv viewer3d.o viewer3d.glo mv viewer3d.tmp viewer3d.o mv vibmouse.o vibmouse.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibmouse.c mv vibmouse.o vibmouse.glo mv vibmouse.tmp vibmouse.o mv netscape.o netscape.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL netscape.c netscape.c: In function 'NS_Obtain_lock': netscape.c:236:10: warning: variable 'waited' set but not used [-Wunused-but-set-variable] Bool waited = False; ^ mv netscape.o netscape.glo mv netscape.tmp netscape.o mv imagelst.o imagelst.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL imagelst.c mv imagelst.o imagelst.glo mv imagelst.tmp imagelst.o mv treeview.o treeview.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL treeview.c treeview.c: In function 'getNodeLength': treeview.c:177:13: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] length= (Int4)tree_getNode(cursor, TREE_NODE_FMT_DISTANCE, &size); ^ treeview.c: In function 'getIconId': treeview.c:187:8: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] a= (Int4) tree_getNode(cursor, TREE_NODE_FMT_ICON, &size); ^ mv treeview.o treeview.glo mv treeview.tmp treeview.o mv shim3d.o shim3d.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL shim3d.c shim3d.c: In function 'OGL_AddCylinder3D': shim3d.c:906:14: warning: unused variable 'iCount' [-Wunused-variable] Nlm_Int4 iCount; ^ shim3d.c: In function 'OGL_AddText3D': shim3d.c:1198:22: warning: unused variable 'i' [-Wunused-variable] Nlm_Int4 Length, i; ^ shim3d.c: In function 'OGL_Zoom_DragMA': shim3d.c:1758:16: warning: unused variable 'OGL_Data' [-Wunused-variable] TOGL_Data *OGL_Data = MAToOGL(ma); ^ shim3d.c: In function 'write_row_callback': shim3d.c:2899:15: warning: 'start' may be used uninitialized in this function [-Wmaybe-uninitialized] float start, end; ^ shim3d.c:2899:22: warning: 'end' may be used uninitialized in this function [-Wmaybe-uninitialized] float start, end; ^ shim3d.c: In function 'SetOGLFont': shim3d.c:2369:64: warning: 'closest' may be used uninitialized in this function [-Wmaybe-uninitialized] fontInfo = XLoadQueryFont(Nlm_currentXDisplay, list[closest]); ^ shim3d.c:2364:37: warning: 'mindiff' may be used uninitialized in this function [-Wmaybe-uninitialized] if (ii == 0 || diff < mindiff) { ^ shim3d.c:2369:64: warning: 'list' may be used uninitialized in this function [-Wmaybe-uninitialized] fontInfo = XLoadQueryFont(Nlm_currentXDisplay, list[closest]); ^ shim3d.c: In function 'Nlm_AddHalfWorm3D': shim3d.c:3454:26: warning: 'offset' may be used uninitialized in this function [-Wmaybe-uninitialized] Nlm_Int4 i, j, k, m, offset; ^ mv shim3d.o shim3d.glo mv shim3d.tmp shim3d.o mv odlbox.o odlbox.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL odlbox.c odlbox.c: In function 'LB_onVScroll': odlbox.c:424:12: warning: variable 'IsGoUp' set but not used [-Wunused-but-set-variable] Boolean IsGoUp=FALSE; ^ mv odlbox.o odlbox.glo mv odlbox.tmp odlbox.o rm -f libvibrantOGL.a ar cru libvibrantOGL.a vibbutns.glo vibextra.glo vibfiles.glo vibforms.glo vibgroup.glo viblists.glo vibmenus.glo vibprmpt.glo vibsbars.glo vibslate.glo vibtexts.glo vibutils.glo vibwndws.glo vibmain.glo ncbidraw.glo drawing.glo mapping.glo picture.glo viewer.glo document.glo table.glo palette.glo diagnost.glo image.glo pictur3d.glo prim3d1.glo prim3d2.glo prim3d3.glo prim3d4.glo prim3d5.glo viewer3d.glo vibmouse.glo netscape.glo imagelst.glo treeview.glo shim3d.glo odlbox.glo ar: `u' modifier ignored since `D' is the default (see `U') cp -p libvibrantOGL.a ../lib ranlib ../lib/libvibrantOGL.a gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF accentr.c accentr.c: In function 'EntrezBiostrucGet': accentr.c:2113:17: warning: unused variable 'retval' [-Wunused-variable] BiostrucPtr retval = NULL; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF accutils.c rm -f libncbiacc.a ar cru libncbiacc.a accentr.o accutils.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libncbiacc.a ../lib ranlib ../lib/libncbiacc.a gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF drawseq.c drawseq.c: In function 'AddFlatNodeSymbol': drawseq.c:811:7: warning: unused variable 'symbol_height' [-Wunused-variable] Int4 symbol_height = 8; ^ drawseq.c: In function 'AddAlignBlocks': drawseq.c:970:7: warning: variable 'c_num' set but not used [-Wunused-but-set-variable] Int2 c_num; ^ drawseq.c: In function 'AddAlignFeature': drawseq.c:1369:8: warning: unused variable 'ptype' [-Wunused-variable] Uint1 ptype = 0; ^ drawseq.c: In function 'AddAlignmentMismatch': drawseq.c:1523:7: warning: variable 'i_right' set but not used [-Wunused-but-set-variable] Int4 i_right; ^ drawseq.c: In function 'DrawRestrictionMap': drawseq.c:1811:10: warning: unused variable 'retval' [-Wunused-variable] Boolean retval = FALSE; ^ drawseq.c:1802:15: warning: variable 'center' set but not used [-Wunused-but-set-variable] Int4 x1, x2, center; ^ drawseq.c: In function 'DrawFeatures': drawseq.c:2563:7: warning: variable 'entityID' set but not used [-Wunused-but-set-variable] Int2 entityID; ^ drawseq.c: In function 'DrawOneSeqLoc': drawseq.c:3020:10: warning: variable 'show_seq_label' set but not used [-Wunused-but-set-variable] Boolean show_seq_label = TRUE; /*show the label of a sequence*/ ^ drawseq.c:3009:10: warning: variable 'ends' set but not used [-Wunused-but-set-variable] Boolean ends; ^ drawseq.c: In function 'Label_GData': drawseq.c:3439:10: warning: variable 'success' set but not used [-Wunused-but-set-variable] Boolean success = FALSE; ^ drawseq.c: In function 'DrawEquivAlign': drawseq.c:3594:8: warning: unused variable 'my_gray_color' [-Wunused-variable] Uint1 my_gray_color[]={63, 63, 63}; ^ drawseq.c: In function 'load_align_label_rectangle': drawseq.c:4352:10: warning: variable 'found_it' set but not used [-Wunused-but-set-variable] Boolean found_it; ^ drawseq.c: In function 'PicForAlignNode': drawseq.c:4558:18: warning: variable 'min_scale' set but not used [-Wunused-but-set-variable] Int4 max_width, min_scale; ^ drawseq.c: At top level: drawseq.c:3511:18: warning: 'get_map_pos' defined but not used [-Wunused-function] static MapPosPtr get_map_pos(MapLayoutPtr mlp, SeqIdPtr sip) ^ drawseq.c:3525:22: warning: 'get_ith_arp' defined but not used [-Wunused-function] static AlignRangePtr get_ith_arp(AlignRangePtr arp, Int2 i) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF dotmatrx.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF fea2seg.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF fstyle.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF smdlg1.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF smdlg2.c smdlg2.c: In function 'Nlm_CreateDlgGroup': smdlg2.c:631:12: warning: variable 'toAlign' set but not used [-Wunused-but-set-variable] Handle toAlign[3]; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF smdlg3.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF smtools.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF styleman.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF stylemui.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF glbpic.c glbpic.c: In function 'label_linear_mark': glbpic.c:1295:7: warning: unused variable 'tick_len' [-Wunused-variable] Int4 tick_len = TICK_LEN; ^ glbpic.c: In function 'add_alignment_to_global': glbpic.c:1552:8: warning: variable 'p_val' set but not used [-Wunused-but-set-variable] Uint1 p_val; ^ glbpic.c: At top level: glbpic.c:584:19: warning: 'extract_align_range' defined but not used [-Wunused-function] static ValNodePtr extract_align_range(ValNodePtr PNTR arp_list, Uint1 displayOrder) ^ glbpic.c:1748:16: warning: 'get_print_score' defined but not used [-Wunused-function] static Boolean get_print_score(FloatHi min_score, FloatHi max_score, CharPtr label, Uint1 status) ^ glbpic.c: In function 'get_circle_label_align': glbpic.c:2349:9: warning: 'align' may be used uninitialized in this function [-Wmaybe-uninitialized] return align; ^ glbpic.c: In function 'label_circle_mark': glbpic.c:2479:6: warning: 'first_align' may be used uninitialized in this function [-Wmaybe-uninitialized] switch(label_align) ^ glbpic.c:2450:5: warning: 'p_align' may be used uninitialized in this function [-Wmaybe-uninitialized] switch(label_align) ^ glbpic.c:2474:26: warning: 'first_left' may be used uninitialized in this function [-Wmaybe-uninitialized] if(ABS(first_left - left) < (t_width +3)) ^ glbpic.c:2469:28: warning: 'first_width' may be used uninitialized in this function [-Wmaybe-uninitialized] t_width = (first_width + width)/2; ^ glbpic.c:2473:24: warning: 'first_top' may be used uninitialized in this function [-Wmaybe-uninitialized] if(ABS(first_top - top )< (font_height+3)) ^ In file included from ../include/glbpic.h:7:0, from glbpic.c:23: glbpic.c: In function 'add_alignment_to_global': ../include/picture.h:520:22: warning: 'g_top' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AddTextLabel Nlm_AddTextLabel ^ glbpic.c:1560:7: note: 'g_top' was declared here Int4 g_top, g_bottom; ^ glbpic.c: In function 'Draw_Global': glbpic.c:2177:12: warning: 'seglen' may be used uninitialized in this function [-Wmaybe-uninitialized] m_stop += seglen; ^ glbpic.c:1943:8: note: 'seglen' was declared here Int4 seglen; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF layout.c layout.c: In function 'LayoutNodeFlat': layout.c:326:24: warning: variable 'prev' set but not used [-Wunused-but-set-variable] ValNodePtr vnp, next, prev; ^ layout.c: In function 'layout_uncompressed_group': layout.c:1244:20: warning: variable 'group_stop' set but not used [-Wunused-but-set-variable] Int2 group_start, group_stop; ^ layout.c: In function 'LayoutFeatNode': layout.c:1365:17: warning: variable 'y_next' set but not used [-Wunused-but-set-variable] Int4 cur_line, y_next; ^ layout.c:1364:17: warning: variable 'labelstyle' set but not used [-Wunused-but-set-variable] Int4 segstyle, labelstyle; ^ layout.c:1363:10: warning: variable 'show_trunc' set but not used [-Wunused-but-set-variable] Boolean show_trunc = FALSE; ^ layout.c:1350:10: warning: variable 'k' set but not used [-Wunused-but-set-variable] Int2 i, k; ^ layout.c: In function 'LayoutAlignNode': layout.c:2208:7: warning: unused variable 'num' [-Wunused-variable] Int4 num = 0; ^ layout.c: At top level: layout.c:1779:16: warning: 'modify_master_line' defined but not used [-Wunused-function] static Boolean modify_master_line(ValNodePtr vnp, Int4Ptr m_left, Int4Ptr m_right, Int4 maxScale, Uint1 label_align) ^ layout.c: In function 'GroupFeatNode': layout.c:636:14: warning: 'prev' may be used uninitialized in this function [-Wmaybe-uninitialized] prev->next = new; ^ layout.c:594:35: note: 'prev' was declared here ValNodePtr my_node = NULL, curr, prev, next; ^ layout.c: In function 'OrderCdsmRNA': layout.c:963:9: warning: 'm_missed' may be used uninitialized in this function [-Wmaybe-uninitialized] if(missed < m_missed) ^ layout.c:940:15: note: 'm_missed' was declared here Int2 missed, m_missed; /*number of exons missed at both end*/ ^ layout.c: In function 'LayoutFeatNode': layout.c:1503:12: warning: 'p_right' may be used uninitialized in this function [-Wmaybe-uninitialized] p_right = MAX(right, p_right); ^ layout.c:1502:11: warning: 'p_left' may be used uninitialized in this function [-Wmaybe-uninitialized] p_left = MIN(left, p_left); ^ layout.c:1504:14: warning: 'height' may be used uninitialized in this function [-Wmaybe-uninitialized] maxHeight = MAX(height, maxHeight); ^ layout.c: In function 'LayoutAlignNode': layout.c:2215:17: warning: 'next_line' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 cur_line, next_line; ^ layout.c:2251:7: warning: 'head' may be used uninitialized in this function [-Wmaybe-uninitialized] i = find_align_line_number(anp, vnp->next, ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF saldist.c saldist.c: In function 'copy_string': saldist.c:1289:12: warning: value computed is not used [-Wunused-value] *from++; ^ saldist.c:1302:11: warning: value computed is not used [-Wunused-value] *from++; ^ saldist.c: In function 'nss_ref_complength': saldist.c:1479:17: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (s1[0] != '-' && s1[1] != '-' && s1[2] != '-' && s2[0] != '-' && s2[1] != '-' && s2[2] != '-') ^ saldist.c:1455:16: warning: variable 'c2' set but not used [-Wunused-but-set-variable] c1, c2; ^ saldist.c:1455:12: warning: variable 'c1' set but not used [-Wunused-but-set-variable] c1, c2; ^ saldist.c: In function 'nss_pw_complength': saldist.c:1572:18: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (s1[0] != '-' && s1[1] != '-' && s1[2] != '-' && s2[0] != '-' && s2[1] != '-' && s2[2] != '-') ^ saldist.c:1547:16: warning: variable 'c2' set but not used [-Wunused-but-set-variable] c1, c2; ^ saldist.c:1547:12: warning: variable 'c1' set but not used [-Wunused-but-set-variable] c1, c2; ^ saldist.c: In function 'nss_gp_complength': saldist.c:1675:21: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (s1[0] != '-' && s1[1] != '-' && s1[2] != '-' && s2[0] != '-' && s2[1] != '-' && s2[2] != '-') ^ saldist.c:1640:16: warning: variable 'c2' set but not used [-Wunused-but-set-variable] c1, c2; ^ saldist.c:1640:12: warning: variable 'c1' set but not used [-Wunused-but-set-variable] c1, c2; ^ saldist.c: In function 'SortbySimProc': saldist.c:2139:31: warning: variable 'newsalpd' set but not used [-Wunused-but-set-variable] SeqAlignPtr newsalp, newsalpd; ^ In file included from ../include/sqnutils.h:51:0, from ../include/dlogutil.h:50, from ../include/salpanel.h:53, from saldist.c:49: saldist.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ saldist.c:910:14: warning: 'matrixlst' defined but not used [-Wunused-variable] static Char *matrixlst [] = {"", "idmat", ^ saldist.c:928:16: warning: 'new_matrice' defined but not used [-Wunused-function] static Boolean new_matrice (Int2 simmatrix, CharPtr path) ^ saldist.c:999:13: warning: 'AAcode' defined but not used [-Wunused-function] static Int2 AAcode(Char car) ^ saldist.c:1080:24: warning: 'FloatLomatrix' defined but not used [-Wunused-function] static FloatLoPtr PNTR FloatLomatrix (Int2 nrows, Int2 ncol) ^ saldist.c:1853:22: warning: 'scangp_calcul' defined but not used [-Wunused-function] static Int4Ptr PNTR scangp_calcul (EditAlignDataPtr adp, Int2 seq1, Int2 seq2, Int4 from, Int4 to, Int2 group, Int2 choice, Int2 win_width) ^ saldist.c: In function 'writematrixhalf.constprop': saldist.c:1225:18: warning: 'vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] vnp=vnp->next; ^ saldist.c: In function 'PwDistanceLongItem': saldist.c:1151:18: warning: 'vnp' may be used uninitialized in this function [-Wmaybe-uninitialized] vnp=vnp->next; ^ saldist.c:1104:19: note: 'vnp' was declared here ValNodePtr vnp, ^ saldist.c: In function 'SortbyLenItem': saldist.c:2191:14: warning: 'mink' may be used uninitialized in this function [-Wmaybe-uninitialized] sortlst [mink] = j + 1; ^ saldist.c:2172:28: note: 'mink' was declared here Int2 j, k, mink; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF saled.c saled.c: In function 'ReadAlignmentForSeqEntry': saled.c:3325:21: warning: unused variable 'dirty' [-Wunused-variable] dirty = FALSE; ^ saled.c:3321:21: warning: unused variable 'salp' [-Wunused-variable] SeqAlignPtr salp=NULL, ^ In file included from ../include/sqnutils.h:51:0, from ../include/dlogutil.h:50, from ../include/salpanel.h:53, from saled.c:49: saled.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from saled.c:55: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF salfiles.c salfiles.c: In function 'NewFastaRead': salfiles.c:315:30: warning: variable 'lastsegsip' set but not used [-Wunused-but-set-variable] SeqIdPtr segsip=NULL, lastsegsip=NULL; ^ salfiles.c: In function 'ReadAlignmentToStrings': salfiles.c:664:16: warning: unused variable 'nseq' [-Wunused-variable] Int2 nseq = 0; ^ salfiles.c: In function 'MacawRead': salfiles.c:1257:15: warning: unused variable 'vnp' [-Wunused-variable] vnp = NULL; ^ salfiles.c: In function 'ReadLocalAlign': salfiles.c:1370:14: warning: variable 'tmp1' set but not used [-Wunused-but-set-variable] tmp1; ^ salfiles.c: In function 'ImportFromFile': salfiles.c:2072:20: warning: unused variable 'sep' [-Wunused-variable] SeqEntryPtr sep = NULL; ^ salfiles.c:2071:20: warning: unused variable 'sap' [-Wunused-variable] SeqAnnotPtr sap = NULL; ^ salfiles.c: In function 'sesp_to_pept': salfiles.c:2713:18: warning: unused variable 'bufferPtr' [-Wunused-variable] bufferPtr = NULL; ^ salfiles.c: In function 'SaveFeatProc': salfiles.c:3387:22: warning: variable 'handled' set but not used [-Wunused-but-set-variable] Int2 handled; ^ salfiles.c: In function 'CCReadAnythingLoop': salfiles.c:3685:16: warning: variable 'entityID' set but not used [-Wunused-but-set-variable] Uint2 entityID; ^ In file included from ../include/sqnutils.h:51:0, from ../include/dlogutil.h:50, from ../include/salpanel.h:53, from salfiles.c:48: salfiles.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ salfiles.c:501:19: warning: 'get_lens_fromseqalign' defined but not used [-Wunused-function] static ValNodePtr get_lens_fromseqalign (SeqAlignPtr salp) ^ salfiles.c: In function 'CCDownloadProc': salfiles.c:2218:7: warning: 'new_sep' may be used uninitialized in this function [-Wmaybe-uninitialized] vnp = SeqEntryToSeqLoc (sep, &n, adp->mol_type); ^ salfiles.c:2286:15: note: 'new_sep' was declared here SeqEntryPtr new_sep; ^ salfiles.c: In function 'NewFastaRead.constprop': salfiles.c:460:6: warning: 'sip' may be used uninitialized in this function [-Wmaybe-uninitialized] if (sip!=NULL) ^ salfiles.c: In function 'GapFastaRead': salfiles.c:747:25: warning: 'seqstr' may be used uninitialized in this function [-Wmaybe-uninitialized] seqstr [lgseq] = strp[j]; ^ salfiles.c:654:16: note: 'seqstr' was declared here seqstr; ^ salfiles.c:724:15: warning: 'startp' may be used uninitialized in this function [-Wmaybe-uninitialized] if (!startp) { ^ salfiles.c:660:16: note: 'startp' was declared here Boolean startp; ^ salfiles.c: In function 'ReadLocalAlignment': salfiles.c:1287:3: warning: 'seqvnp' may be used uninitialized in this function [-Wmaybe-uninitialized] ValNodeFree (seqvnp); ^ salfiles.c:1113:19: note: 'seqvnp' was declared here ValNodePtr vnp, seqvnp; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF salpanel.c salpanel.c: In function 'go_to_next_to_draw': salpanel.c:331:17: warning: statement with no effect [-Wunused-value] offsettmp; ^ salpanel.c: In function 'next_to_draw': salpanel.c:471:20: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if ( curstr != NULL ) ^ salpanel.c: In function 'AssociatePropagatedSubloc': salpanel.c:3131:16: warning: variable 'vnp' set but not used [-Wunused-but-set-variable] ValNodePtr vnp; ^ salpanel.c: In function 'FeaturePropagateForm': salpanel.c:4670:15: warning: variable 'ppt' set but not used [-Wunused-but-set-variable] PrompT ppt; ^ salpanel.c:4665:15: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ salpanel.c: In function 'OkToContinueWithFeatureApply': salpanel.c:6099:14: warning: unused variable 'num_missing' [-Wunused-variable] Int4 num_missing = 0, seq_num, start_num; ^ salpanel.c: In function 'DoApplyFeatureToAlignment': salpanel.c:6215:31: warning: unused variable 'found_null' [-Wunused-variable] Boolean found_null = FALSE; ^ salpanel.c: In function 'ApplyFeatureToAlignment': salpanel.c:6417:31: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ In file included from ../include/sqnutils.h:51:0, from ../include/dlogutil.h:50, from ../include/salpanel.h:53, from salpanel.c:45: salpanel.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from salpanel.c:52: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ salpanel.c:65:14: warning: 'diamondSym' defined but not used [-Wunused-variable] static Uint1 diamondSym [] = { ^ salpanel.c:68:14: warning: 'ovalSym' defined but not used [-Wunused-variable] static Uint1 ovalSym [] = { ^ salpanel.c:77:14: warning: 'upTriSym' defined but not used [-Wunused-variable] static Uint1 upTriSym [] = { ^ salpanel.c:80:14: warning: 'downTriSym' defined but not used [-Wunused-variable] static Uint1 downTriSym [] = { ^ salpanel.c:86:14: warning: 'diamondFillSym' defined but not used [-Wunused-variable] static Uint1 diamondFillSym [] = { ^ salpanel.c:89:14: warning: 'ovalFillSym' defined but not used [-Wunused-variable] static Uint1 ovalFillSym [] = { ^ salpanel.c:98:14: warning: 'upTriFillSym' defined but not used [-Wunused-variable] static Uint1 upTriFillSym [] = { ^ salpanel.c:101:14: warning: 'downTriFillSym' defined but not used [-Wunused-variable] static Uint1 downTriFillSym [] = { ^ salpanel.c:104:14: warning: 'rightOvalSym' defined but not used [-Wunused-variable] static Uint1 rightOvalSym [] = { ^ salpanel.c:107:14: warning: 'leftOvalSym' defined but not used [-Wunused-variable] static Uint1 leftOvalSym [] = { ^ salpanel.c:110:14: warning: 'rightOvalFillSym' defined but not used [-Wunused-variable] static Uint1 rightOvalFillSym [] = { ^ salpanel.c:113:14: warning: 'leftOvalFillSym' defined but not used [-Wunused-variable] static Uint1 leftOvalFillSym [] = { ^ salpanel.c:224:13: warning: 'get_client_rectxy' defined but not used [-Wunused-function] static void get_client_rectxy (PaneL p, RectPtr prc, Int2 x, Int2 y) ^ salpanel.c:5055:13: warning: 'BatchApplyFeatureDetailsMessage' defined but not used [-Wunused-function] static void BatchApplyFeatureDetailsMessage (DialoG d, Int2 mssg) ^ salpanel.c: In function 'draw_feat.part.11': salpanel.c:1939:17: warning: 'col1' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 col1; ^ salpanel.c: In function 'on_draw': salpanel.c:2527:23: warning: 'draw_diff' may be used uninitialized in this function [-Wmaybe-uninitialized] draw_seq (adp, curssp, from_inseq, drw_width, ptlh, curstr, draw_diff, masterstr, TRUE, itemsubtype, FALSE); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF salparam.c salparam.c: In function 'mergelst': salparam.c:1325:20: warning: variable 'val' set but not used [-Wunused-but-set-variable] Boolean val; ^ salparam.c: In function 'unmergelst': salparam.c:1340:20: warning: variable 'dbdp' set but not used [-Wunused-but-set-variable] DialogBoxDataPtr dbdp; ^ salparam.c: In function 'FormulaDialog': salparam.c:1398:36: warning: variable 'b5' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3, b4, b5; ^ salparam.c: In function 'JK_NTPattern2Ex': salparam.c:1596:19: warning: variable 'debug_str' set but not used [-Wunused-but-set-variable] CharPtr debug_str; ^ salparam.c: In function 'DotPlotBtn': salparam.c:1936:22: warning: variable 'status' set but not used [-Wunused-but-set-variable] Int2 status; ^ salparam.c: In function 'DotPlotDialog': salparam.c:1973:20: warning: variable 'bt1' set but not used [-Wunused-but-set-variable] ButtoN bt1, bt2; ^ salparam.c: In function 'DotPlotItem': salparam.c:2004:22: warning: variable 'status' set but not used [-Wunused-but-set-variable] Int2 status; ^ salparam.c: In function 'SelectSeqFunc': salparam.c:2308:20: warning: variable 'str' set but not used [-Wunused-but-set-variable] CharPtr str; ^ salparam.c: In function 'HighlightSelectionFunc': salparam.c:2344:22: warning: variable 'wdp' set but not used [-Wunused-but-set-variable] SeqEditViewFormPtr wdp; ^ salparam.c: In function 'PropagateFeatureProc': salparam.c:2623:25: warning: variable 'iID' set but not used [-Wunused-but-set-variable] Uint2 eID, iID, ^ salparam.c:2614:20: warning: variable 'salp' set but not used [-Wunused-but-set-variable] SeqAlignPtr salp; ^ In file included from ../include/sqnutils.h:51:0, from ../include/dlogutil.h:50, from ../include/salpanel.h:53, from salparam.c:49: salparam.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from salparam.c:58: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ salparam.c: In function 'FileInProc': salparam.c:782:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fp, "%d %ld", &n, &lens); ^ salparam.c: In function 'DotPlotBtn': salparam.c:1951:13: warning: 'sep' may be used uninitialized in this function [-Wmaybe-uninitialized] bsp = (BioseqPtr) sep->data.ptrvalue; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF salsa.c salsa.c: In function 'SelectSubsProc': salsa.c:2140:23: warning: variable 'svpp' set but not used [-Wunused-but-set-variable] SeqEditViewProcsPtr svpp=NULL; ^ salsa.c: In function 'SetSeqInfo': salsa.c:3195:17: warning: unused variable 'vnp' [-Wunused-variable] ValNodePtr vnp = NULL; ^ salsa.c: In function 'SetupAlignDataSap': salsa.c:3410:16: warning: variable 'entityID_sap' set but not used [-Wunused-but-set-variable] Uint2 entityID_sap; ^ salsa.c: In function 'get_bestpos_formerge': salsa.c:4304:17: warning: variable 'insert_after' set but not used [-Wunused-but-set-variable] insert_after=FALSE; ^ salsa.c:4303:17: warning: variable 'insert_before' set but not used [-Wunused-but-set-variable] Boolean insert_before=FALSE, ^ salsa.c: In function 'CreateSeqAlignViewForm': salsa.c:4689:22: warning: variable 'mergebtn' set but not used [-Wunused-but-set-variable] ButtoN mergebtn; ^ salsa.c: In function 'AlgEditFunc': salsa.c:4988:23: warning: unused variable 'wdp' [-Wunused-variable] SeqEditViewFormPtr wdp = NULL; ^ salsa.c:4986:23: warning: unused variable 'w' [-Wunused-variable] WindoW w = NULL; ^ salsa.c: In function 'OldAlignmentEditor': salsa.c:5118:16: warning: variable 'rval' set but not used [-Wunused-but-set-variable] Int2 rval; ^ salsa.c: In function 'LaunchAnnotAlignEditor': salsa.c:5305:20: warning: variable 'handled' set but not used [-Wunused-but-set-variable] Int2 handled; ^ salsa.c: In function 'LaunchAlignEditor': salsa.c:5322:20: warning: variable 'handled' set but not used [-Wunused-but-set-variable] Int2 handled; ^ salsa.c: In function 'LaunchAlignViewer': salsa.c:5339:20: warning: variable 'handled' set but not used [-Wunused-but-set-variable] Int2 handled; ^ salsa.c: In function 'LaunchAlignEditorFromDesktop': salsa.c:5354:20: warning: variable 'ompcp' set but not used [-Wunused-but-set-variable] OMProcControlPtr ompcp; ^ salsa.c: In function 'LaunchAlignEditorFromDesktop2': salsa.c:5371:20: warning: variable 'ompcp' set but not used [-Wunused-but-set-variable] OMProcControlPtr ompcp; ^ salsa.c: In function 'LaunchAlignEditorFromDesktop3': salsa.c:5390:20: warning: variable 'entityID' set but not used [-Wunused-but-set-variable] Uint2 entityID; ^ salsa.c: In function 'LaunchAlignEditorFromDesktop4': salsa.c:5417:20: warning: variable 'ompcp' set but not used [-Wunused-but-set-variable] OMProcControlPtr ompcp; ^ salsa.c: In function 'InsertSeqProc': salsa.c:5587:17: warning: variable 'cnclbt' set but not used [-Wunused-but-set-variable] ButtoN insbt, cnclbt; ^ salsa.c:5585:10: warning: variable 'insprt' set but not used [-Wunused-but-set-variable] PrompT insprt; ^ salsa.c: In function 'SeqAlignBestHit': salsa.c:5654:22: warning: variable 'last' set but not used [-Wunused-but-set-variable] Int4 last; ^ salsa.c: In function 'SeqAlignStartUpdate': salsa.c:5839:22: warning: variable 'k' set but not used [-Wunused-but-set-variable] Int2 index, k, j; ^ salsa.c:5838:15: warning: variable 'start' set but not used [-Wunused-but-set-variable] start; ^ salsa.c:5837:15: warning: variable 'len_sum' set but not used [-Wunused-but-set-variable] Int4 len_sum, ^ salsa.c:5834:15: warning: variable 'lenp' set but not used [-Wunused-but-set-variable] Int4Ptr lenp, ^ salsa.c:5833:15: warning: variable 'pre' set but not used [-Wunused-but-set-variable] SeqIdPtr pre, sip, next; ^ salsa.c: In function 'CCNormalizeSeqAlignId': salsa.c:6788:23: warning: unused variable 'gi' [-Wunused-variable] Int4 gi = 0; ^ salsa.c:6787:17: warning: unused variable 'missing_fmt' [-Wunused-variable] CharPtr missing_fmt = "The alignment contains %s that can not be found in GenBank.\nPlease check the accession number.\n"; ^ salsa.c:6786:17: warning: unused variable 'missing_cont_fmt' [-Wunused-variable] CharPtr missing_cont_fmt = "The alignment contains %s that can not be found in GenBank.\nPlease check the accession number.\nContinue anyway?\n"; ^ salsa.c: In function 'ValidateSeqAlignandACCEx': salsa.c:7145:16: warning: variable 'ans' set but not used [-Wunused-but-set-variable] MsgAnswer ans; ^ In file included from ../include/sqnutils.h:51:0, from ../include/dlogutil.h:50, from ../include/salpanel.h:53, from salsa.c:48: salsa.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from salsa.c:52:0: ../include/salprop.h:50:16: warning: 'GBFeat' defined but not used [-Wunused-variable] static CharPtr GBFeat[number_GBFeat] = { ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from salsa.c:68: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ salsa.c:87:13: warning: 'InsertSequenceDlg' declared 'static' but never defined [-Wunused-function] static void InsertSequenceDlg (ButtoN b); ^ salsa.c:1760:13: warning: 'AcceptCloseWindowButton' defined but not used [-Wunused-function] static void AcceptCloseWindowButton (ButtoN b) ^ salsa.c:2356:13: warning: 'MakeCdRgnProc' defined but not used [-Wunused-function] static void MakeCdRgnProc (IteM i) { ^ salsa.c:2360:13: warning: 'MakeCdRgnrProc' defined but not used [-Wunused-function] static void MakeCdRgnrProc (IteM i) { ^ salsa.c:4884:16: warning: 'DeltaLitOnly' defined but not used [-Wunused-function] static Boolean DeltaLitOnly (BioseqPtr bsp) ^ salsa.c:6021:13: warning: 'SWPrintFarpointerAln' defined but not used [-Wunused-function] static void SWPrintFarpointerAln(SeqAlignPtr sap, FILE *fp) ^ In file included from ../include/ncbi.h:65:0, from ../include/salsa.h:48, from salsa.c:43: salsa.c: In function 'ExportFASTAForUnselectedUpdates': ../include/ncbifile.h:138:19: warning: 'fp' may be used uninitialized in this function [-Wmaybe-uninitialized] #define FileClose Nlm_FileClose ^ salsa.c:6398:23: note: 'fp' was declared here FILE *fp; ^ In file included from ../include/ncbi.h:65:0, from ../include/salsa.h:48, from salsa.c:43: salsa.c: In function 'ExportBadAlignments': ../include/ncbifile.h:138:19: warning: 'fp' may be used uninitialized in this function [-Wmaybe-uninitialized] #define FileClose Nlm_FileClose ^ salsa.c:6366:23: note: 'fp' was declared here FILE *fp; ^ salsa.c: In function 'SeqAlignBestHit.isra.10': salsa.c:5795:23: warning: 'nctr' may be used uninitialized in this function [-Wmaybe-uninitialized] *nonly = nctr+beg+end; ^ salsa.c:5795:27: warning: 'end' may be used uninitialized in this function [-Wmaybe-uninitialized] *nonly = nctr+beg+end; ^ salsa.c:5795:23: warning: 'beg' may be used uninitialized in this function [-Wmaybe-uninitialized] *nonly = nctr+beg+end; ^ salsa.c: In function 'BioseqEditMsgFunc': salsa.c:912:51: warning: 'anp' may be used uninitialized in this function [-Wmaybe-uninitialized] ssp = SelStructNew (anp->seq_entityID, anp->bsp_itemID, OBJ_BIOSEQ, from, to, anp->sip, Seq_strand_plus, FALSE); ^ salsa.c:890:20: note: 'anp' was declared here AlignNodePtr anp; ^ salsa.c: In function 'DeleteProc': salsa.c:1955:165: warning: 'sap' may be used uninitialized in this function [-Wmaybe-uninitialized] if ((adp->sap1_original && (FindSeqIdinSeqAlign ((SeqAlignPtr)adp->sap1_original->data, SeqLocId(slp))) > 0) || (FindSeqIdinSeqAlign ((SeqAlignPtr)sap->data, SeqLocId(slp))) > 0) ^ salsa.c: In function 'SkipThisWindowProc': salsa.c:4591:6: warning: 'salp' may be used uninitialized in this function [-Wmaybe-uninitialized] LaunchAlignViewer(salp); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF seqfltr.c seqfltr.c: In function 'FilterSeq': seqfltr.c:259:21: warning: 'fptr' may be used uninitialized in this function [-Wmaybe-uninitialized] sgp->values = (Pointer) fptr; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF seqgraph.c seqgraph.c: In function 'EndPointDialogToEndPointValNode': seqgraph.c:140:10: warning: 'eplist' may be used uninitialized in this function [-Wmaybe-uninitialized] return (Pointer) eplist; ^ seqgraph.c: In function 'SeqLocGraphViewProc': seqgraph.c:1155:17: warning: 'eplist' may be used uninitialized in this function [-Wmaybe-uninitialized] if (eplist->next == NULL) ^ seqgraph.c: In function 'MarkPrims': seqgraph.c:911:11: warning: 'fval' may be used uninitialized in this function [-Wmaybe-uninitialized] val = fval/2; ^ seqgraph.c: In function 'CutOffProc': seqgraph.c:1050:20: warning: 'eplist' may be used uninitialized in this function [-Wmaybe-uninitialized] eplist->next = NULL; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF seqgrphx.c seqgrphx.c:28:25: warning: 'MatrixMsgFunc' defined but not used [-Wunused-function] static Int2 LIBCALLBACK MatrixMsgFunc (OMMsgStructPtr ommsp) ^ seqgrphx.c: In function 'FilterMsgFunc': seqgrphx.c:224:12: warning: 's' may be used uninitialized in this function [-Wmaybe-uninitialized] if (s == NULL) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF seqmtrx.c seqmtrx.c: In function 'MatrixSeq': seqmtrx.c:304:17: warning: 'matval' may be used uninitialized in this function [-Wmaybe-uninitialized] *fptr = (FloatHi) matval; ^ seqmtrx.c:284:14: note: 'matval' was declared here Int4 matval, cutoff = 0; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF seqpcc.c seqpcc.c: In function 'PCCProc': seqpcc.c:229:6: warning: 'pbsp' may be used uninitialized in this function [-Wmaybe-uninitialized] if ((spp = SeqPortNew (pbsp, start, end, 0, Seq_code_iupacaa)) != NULL) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF seqanal.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF aacomp.c aacomp.c:86:20: warning: 'AACGraph' defined but not used [-Wunused-function] static SeqGraphPtr AACGraph (SeqPortPtr spp, Int4 start, Int4 end, Int4 window, ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF seqscrl.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF valdlg.c valdlg.c: In function 'ClickRulesDoc': valdlg.c:373:22: warning: unused variable 'scroll_pos' [-Wunused-variable] Int2 scroll_pos = 0; ^ valdlg.c:372:22: warning: unused variable 'sb_vert' [-Wunused-variable] BaR sb_vert = NULL; ^ valdlg.c: In function 'UpdateRuleList': valdlg.c:479:26: warning: unused variable 'last_cr' [-Wunused-variable] CommentRulePtr new_cr, last_cr = NULL; ^ valdlg.c: In function 'SaveRuleChanges': valdlg.c:540:23: warning: variable 'dlg' set but not used [-Wunused-but-set-variable] CommentSetDlgPtr dlg; ^ valdlg.c: In function 'LaunchCommentRulesEditor': valdlg.c:553:23: warning: unused variable 'm' [-Wunused-variable] MenU m; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF vsm.c vsm.c: In function 'VSMAboutProc': vsm.c:1492:8: warning: variable 'p' set but not used [-Wunused-but-set-variable] PaneL p; ^ vsm.c: In function 'VSeqMgrCreateMainWindow': vsm.c:1601:12: warning: variable 'omp' set but not used [-Wunused-but-set-variable] ObjMgrPtr omp; ^ vsm.c: In function 'VSeqMgrPopulateMain': vsm.c:1742:13: warning: variable 'atp' set but not used [-Wunused-but-set-variable] AsnTypePtr atp; ^ vsm.c: In function 'VSMGatherPictProc': vsm.c:2225:15: warning: variable 'bssp' set but not used [-Wunused-but-set-variable] BioseqSetPtr bssp; ^ vsm.c:2220:30: warning: variable 'bottom' set but not used [-Wunused-but-set-variable] Int4 top, lineheight, left, bottom, width, maxwidth; ^ vsm.c: In function 'VSMAddPictureToEntity': vsm.c:2853:10: warning: variable 'ptr' set but not used [-Wunused-but-set-variable] Pointer ptr; ^ vsm.c:2852:13: warning: variable 'vnp' set but not used [-Wunused-but-set-variable] ValNodePtr vnp; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF vsmfile.c vsmfile.c: In function 'VSMGenericBinAsnOpen': vsmfile.c:259:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ vsmfile.c: In function 'VSMGenericFastaSave': vsmfile.c:395:11: warning: variable 'code' set but not used [-Wunused-but-set-variable] Uint1 code; ^ vsmfile.c: In function 'VSMFastaProtSaveWithProduct': vsmfile.c:527:11: warning: variable 'code' set but not used [-Wunused-but-set-variable] Uint1 code; ^ vsmfile.c: In function 'VSMSaveSetsAsFiles': vsmfile.c:1365:20: warning: variable 'ompcp' set but not used [-Wunused-but-set-variable] OMProcControlPtr ompcp; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF vsmutil.c vsmutil.c: In function 'GetDocPosForError': vsmutil.c:1657:18: warning: variable 'val' set but not used [-Wunused-but-set-variable] Int2 val; ^ vsmutil.c: At top level: vsmutil.c:387:20: warning: 'GetSeqDescGivenIDs' defined but not used [-Wunused-function] static SeqDescrPtr GetSeqDescGivenIDs (Uint2 entityID, Uint4 itemID, Uint2 itemtype) ^ vsmutil.c:1542:16: warning: 'MakeFieldReports' defined but not used [-Wunused-function] static Boolean MakeFieldReports (ValNodePtr report_list, ValNodePtr field_list, FILE *fp) ^ vsmutil.c: In function 'ContinueProc': vsmutil.c:2157:23: warning: iteration 6u invokes undefined behavior [-Waggressive-loop-optimizations] vep->counts [i] = 0; ^ vsmutil.c:2156:5: note: containing loop for (i = SEV_NONE; i <= SEV_MAX; i++) { ^ vsmutil.c: In function 'RevalidateProc': vsmutil.c:2124:23: warning: iteration 6u invokes undefined behavior [-Waggressive-loop-optimizations] vep->counts [i] = 0; ^ vsmutil.c:2123:5: note: containing loop for (i = SEV_NONE; i <= SEV_MAX; i++) { ^ vsmutil.c: In function 'SetVerbosityAndRepopulate': vsmutil.c:2198:23: warning: iteration 6u invokes undefined behavior [-Waggressive-loop-optimizations] vep->counts [i] = 0; ^ vsmutil.c:2197:5: note: containing loop for (i = SEV_NONE; i <= SEV_MAX; i++) { ^ vsmutil.c: In function 'ClearValidateWindow': vsmutil.c:613:27: warning: iteration 6u invokes undefined behavior [-Waggressive-loop-optimizations] vep->counts [sev] = 0; ^ vsmutil.c:612:7: note: containing loop for (sev = SEV_NONE; sev <= SEV_MAX; sev++) { ^ vsmutil.c: In function 'CreateValidateWindowExExEx': vsmutil.c:2521:27: warning: iteration 6u invokes undefined behavior [-Waggressive-loop-optimizations] vep->counts [i] = 0; ^ vsmutil.c:2520:9: note: containing loop for (i = SEV_NONE; i <= SEV_MAX; i++) { ^ vsmutil.c: In function 'MakeValidatorReport': vsmutil.c:879:17: warning: 'ch_2' may be used uninitialized in this function [-Wmaybe-uninitialized] *feat_end = ch_2; ^ vsmutil.c:838:17: note: 'ch_2' was declared here Char ch, ch_2; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF udvgraph.c udvgraph.c: In function 'UDV_click_item': udvgraph.c:877:9: warning: unused variable 'IsTransNeeded' [-Wunused-variable] Boolean IsTransNeeded=FALSE; ^ udvgraph.c: In function 'UDV_SendBSPSelectMsg': udvgraph.c:1230:13: warning: variable 'bDeselectAll' set but not used [-Wunused-but-set-variable] Boolean bDeselectAll=TRUE; ^ udvgraph.c:1226:30: warning: variable 'bsp_coord_old' set but not used [-Wunused-but-set-variable] Int4 first_bsp_coord, bsp_coord_old,old_pos; ^ udvgraph.c: In function 'UDV_draw_helixDNA': udvgraph.c:1827:15: warning: variable 'cyChar_2' set but not used [-Wunused-but-set-variable] Int2 cxChar_2,cyChar_2; ^ udvgraph.c: In function 'draw_logo': udvgraph.c:1940:38: warning: variable 'cyGlobal' set but not used [-Wunused-but-set-variable] Int2 pos,cxChar=7,cyChar=13,cxGlobal,cyGlobal; ^ udvgraph.c: In function 'UDV_draw_CDS_minus': udvgraph.c:2337:9: warning: variable 'bGiForProductOk' set but not used [-Wunused-but-set-variable] Boolean bGiForProductOk=FALSE; ^ udvgraph.c:2332:5: warning: variable 'numivals2' set but not used [-Wunused-but-set-variable] numivals2=0, ^ udvgraph.c: In function 'UDV_draw_CDS_plus': udvgraph.c:2461:9: warning: variable 'bGiForProductOk' set but not used [-Wunused-but-set-variable] Boolean bGiForProductOk=FALSE; ^ udvgraph.c: In function 'UDV_draw_panel': udvgraph.c:4041:21: warning: unused variable 'vnp_seqinfo' [-Wunused-variable] ValNodePtr vnp_seqinfo=NULL; ^ udvgraph.c:4035:45: warning: variable 'nLinesDraw' set but not used [-Wunused-but-set-variable] Int4 decal_haut,from_row,to_row,nTotRow,nLinesDraw; ^ udvgraph.c:4035:37: warning: variable 'nTotRow' set but not used [-Wunused-but-set-variable] Int4 decal_haut,from_row,to_row,nTotRow,nLinesDraw; ^ In file included from ../include/asn2ff6.h:142:0, from udvgraph.c:180: udvgraph.c: At top level: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ udvgraph.c:948:13: warning: 'UDV_draw_vert_cursor' defined but not used [-Wunused-function] static void UDV_draw_vert_cursor(RecT rcClip,PoinT pos) ^ udvgraph.c:971:14: warning: 'UDV_draw_horz_cursor' defined but not used [-Wunused-function] static void UDV_draw_horz_cursor(UnDViewerGraphDataPtr GrData, ^ udvgraph.c:1298:13: warning: 'UDV_AutoSelectAllSeq' defined but not used [-Wunused-function] static void UDV_AutoSelectAllSeq(ViewerDialogDataPtr vdp,Boolean bSelect) ^ udvgraph.c:3433:14: warning: 'UDV_Draw_features_label' defined but not used [-Wunused-function] static void UDV_Draw_features_label(UnDViewerGraphDataPtr GrData, ^ udvgraph.c:3921:14: warning: 'UDV_calc_decalRC' defined but not used [-Wunused-function] static Int4 UDV_calc_decalRC(ValNodePtr ParaG,Int4 ScrollPos, ^ udvgraph.c: In function 'UDV_GetCurrentDispRange': udvgraph.c:638:15: warning: 'pgp' may be used uninitialized in this function [-Wmaybe-uninitialized] *from_bsp=pgp->StartLetter; ^ udvgraph.c: In function 'UDV_Draw_features': udvgraph.c:3203:45: warning: 'idx6' may be used uninitialized in this function [-Wmaybe-uninitialized] UDV_draw_thin_line((Int2)(start_x+idx5),(Int2)(stop_x+idx6),y, ^ udvgraph.c:3203:24: warning: 'idx5' may be used uninitialized in this function [-Wmaybe-uninitialized] UDV_draw_thin_line((Int2)(start_x+idx5),(Int2)(stop_x+idx6),y, ^ udvgraph.c:3196:47: warning: 'idx4' may be used uninitialized in this function [-Wmaybe-uninitialized] stop2=_min_(pgp->StopLetter,context->ivals[idx4]); ^ udvgraph.c:3189:45: warning: 'idx3' may be used uninitialized in this function [-Wmaybe-uninitialized] UDV_draw_thin_line((Int2)(start_x+idx2),(Int2)(stop_x+idx3),y, ^ udvgraph.c:3189:24: warning: 'idx2' may be used uninitialized in this function [-Wmaybe-uninitialized] UDV_draw_thin_line((Int2)(start_x+idx2),(Int2)(stop_x+idx3),y, ^ udvgraph.c:3182:49: warning: 'idx1' may be used uninitialized in this function [-Wmaybe-uninitialized] start2=_max_(pgp->StartLetter,context->ivals[idx1]); ^ In file included from ../include/udviewer.h:225:0, from udvgraph.c:177: ../include/udvdef.h:187:40: warning: 'stop_x2' may be used uninitialized in this function [-Wmaybe-uninitialized] #define _max_(a,b) ((a)>=(b)?(a):(b)) ^ udvgraph.c:2803:21: note: 'stop_x2' was declared here Int2 start_x,stop_x,stop_x2, /*id. but in pixels*/ ^ udvgraph.c: In function 'UDV_ClickProc': udvgraph.c:1461:8: warning: 'vmp' may be used uninitialized in this function [-Wmaybe-uninitialized] UDV_SelectFeatInFeatDlg(vmp,entityID,itemID); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF udvopen.c udvopen.c: In function 'UDV_FileOpen': udvopen.c:875:16: warning: variable 'b2' set but not used [-Wunused-but-set-variable] ButtoN b,b1,b2; ^ udvopen.c:875:11: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b,b1,b2; ^ udvopen.c: In function 'UDV_CreateListBioseqDlg': udvopen.c:1180:9: warning: the address of 'szName' will always evaluate as 'true' [-Waddress] if (szName){ ^ udvopen.c: In function 'UDV_FOpenCancelProc': udvopen.c:792:23: warning: 'vmp' may be used uninitialized in this function [-Wmaybe-uninitialized] UDV_set_PullMenus(&vmp->MainMenu,TRUE); ^ udvopen.c: In function 'UDV_analyze_SEP_for_open': udvopen.c:325:15: warning: 'entityID' may be used uninitialized in this function [-Wmaybe-uninitialized] vmp->entityID=entityID; ^ udvopen.c:327:14: warning: 'dataptr' may be used uninitialized in this function [-Wmaybe-uninitialized] vmp->dataptr=dataptr; ^ udvopen.c: In function 'UDV_FOpenAcceptProc': udvopen.c:855:23: warning: 'vmp' may be used uninitialized in this function [-Wmaybe-uninitialized] UDV_set_PullMenus(&vmp->MainMenu,TRUE); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF udvpanel.c udvpanel.c: In function 'UDV_GotoBtnProc': udvpanel.c:2080:22: warning: variable 'old_ivalue' set but not used [-Wunused-but-set-variable] Int4 iValue,old_ivalue,line_num,from_bsp,to_bsp, ^ udvpanel.c:2079:15: warning: variable 'vnp' set but not used [-Wunused-but-set-variable] ValNodePtr vnp; ^ udvpanel.c: In function 'CreateMainControls': udvpanel.c:2165:8: warning: variable 'cxChar' set but not used [-Wunused-but-set-variable] Int2 cxChar,cyChar,Margins; ^ udvpanel.c: In function 'UDV_SearchFeatForKey': udvpanel.c:3478:14: warning: variable 'b2' set but not used [-Wunused-but-set-variable] ButtoN b1,b2; ^ udvpanel.c: At top level: udvpanel.c:2773:28: warning: 'FeaturesListBoxScan' defined but not used [-Wunused-function] static Boolean LIBCALLBACK FeaturesListBoxScan (SeqFeatPtr sfp, ^ In file included from ../include/vibrant.h:130:0, from ../include/udviewer.h:220, from udvpanel.c:197: udvpanel.c: In function 'InitFeaturesListDlg': ../include/vibdefns.h:315:19: warning: 'pop' may be used uninitialized in this function [-Wmaybe-uninitialized] #define PopupItem Nlm_PopupItem ^ udvpanel.c:3194:7: note: 'pop' was declared here PopuP pop; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF dotvibrant.c dotvibrant.c: In function 'DOT_DisplayHits': dotvibrant.c:564:18: warning: variable 'ycomp' set but not used [-Wunused-but-set-variable] Int4 ycomp, xcomp; ^ dotvibrant.c: In function 'DOT_VscrlProc': dotvibrant.c:918:16: warning: variable 'visLines' set but not used [-Wunused-but-set-variable] Int2 visLines, vmargin, hmargin; ^ dotvibrant.c: In function 'DOT_HscrlProc': dotvibrant.c:972:20: warning: variable 'visLines' set but not used [-Wunused-but-set-variable] Int2 dx, visLines, offset, hmargin, vmargin; ^ dotvibrant.c: In function 'DOT_VCrossHairs': dotvibrant.c:1402:10: warning: unused variable 'cursor_size' [-Wunused-variable] Int4 cursor_size =15; ^ dotvibrant.c: In function 'DOT_HCrossHairs': dotvibrant.c:1427:9: warning: unused variable 'cursor_size' [-Wunused-variable] Int4 cursor_size = 15; ^ dotvibrant.c: In function 'DOT_MoveCrossHairs': dotvibrant.c:1453:18: warning: variable 'data' set but not used [-Wunused-but-set-variable] DOTSelDataPtr data; ^ dotvibrant.c:1452:10: warning: unused variable 'cursor_size' [-Wunused-variable] Int4 cursor_size = 15; ^ dotvibrant.c: In function 'DOT_DrawXAxis': dotvibrant.c:1532:38: warning: unused variable 'title' [-Wunused-variable] Char scale_buf[15] = {""}, title[50]={""}; /*scale value*/ ^ dotvibrant.c: In function 'DOT_DrawYAxis': dotvibrant.c:1642:38: warning: unused variable 'title' [-Wunused-variable] Char scale_buf[15] = {""}, title[50]={""}; /*scale value*/ ^ dotvibrant.c:1641:55: warning: variable 'Fh_4' set but not used [-Wunused-but-set-variable] Int4 pos, ylen, x, y, scale_pos, i, j, Fh_2,Fh_4; ^ dotvibrant.c: In function 'DOT_SVDisplayDiags': dotvibrant.c:1770:28: warning: variable 'aln_diag' set but not used [-Wunused-but-set-variable] Int4 diag, aln_diag; ^ dotvibrant.c:1770:22: warning: variable 'diag' set but not used [-Wunused-but-set-variable] Int4 diag, aln_diag; ^ dotvibrant.c:1766:22: warning: variable 'width' set but not used [-Wunused-but-set-variable] Int4 width, height; ^ dotvibrant.c:1765:31: warning: variable 'p_HFrom' set but not used [-Wunused-but-set-variable] Int4 p_VFrom, p_HFrom; ^ dotvibrant.c:1765:22: warning: variable 'p_VFrom' set but not used [-Wunused-but-set-variable] Int4 p_VFrom, p_HFrom; ^ dotvibrant.c:1762:28: warning: unused variable 'cutoff' [-Wunused-variable] Int4 stop, cutoff=0, q_start, s_start, length; ^ dotvibrant.c:1760:34: warning: variable 'seg3' set but not used [-Wunused-but-set-variable] SegmenT seg1, seg2, seg3, seg4; ^ dotvibrant.c: In function 'DOT_FillNewSeqBufs': dotvibrant.c:2197:19: warning: unused variable 'alp' [-Wunused-variable] DOTAlignInfoPtr alp=NULL; ^ dotvibrant.c: In function 'DOT_InitCInfo': dotvibrant.c:2258:14: warning: unused variable 'colBuf' [-Wunused-variable] Char colBuf[12]={""}; ^ dotvibrant.c: In function 'DOT_SVDisplaySequence': dotvibrant.c:2379:16: warning: variable 'matrix' set but not used [-Wunused-but-set-variable] Int4Ptr PNTR matrix; ^ dotvibrant.c:2367:14: warning: variable 'vis_2' set but not used [-Wunused-but-set-variable] Int4 vis_2, buf_len; ^ dotvibrant.c:2364:14: warning: unused variable 'prot_threshold' [-Wunused-variable] Int4 prot_threshold=0, bloc_cntr; ^ dotvibrant.c:2350:24: warning: variable 'mip2' set but not used [-Wunused-but-set-variable] DOTMainDataPtr mip1, mip2; ^ dotvibrant.c: In function 'DOT_SVClickProc': dotvibrant.c:2807:17: warning: unused variable 'handled' [-Wunused-variable] Int2 handled=0; ^ dotvibrant.c: In function 'DOT_ResizeFeatWindow': dotvibrant.c:3016:63: warning: variable 'SubjectHeight' set but not used [-Wunused-but-set-variable] Int2 height,width,vsbWidth,in,gap,hsbHeight,QueryHeight,SubjectHeight, halfw; ^ dotvibrant.c:3016:51: warning: variable 'QueryHeight' set but not used [-Wunused-but-set-variable] Int2 height,width,vsbWidth,in,gap,hsbHeight,QueryHeight,SubjectHeight, halfw; ^ dotvibrant.c:3016:37: warning: variable 'gap' set but not used [-Wunused-but-set-variable] Int2 height,width,vsbWidth,in,gap,hsbHeight,QueryHeight,SubjectHeight, halfw; ^ dotvibrant.c: In function 'DOT_ResizeSequenceWindow': dotvibrant.c:3098:25: warning: variable 'is_visible2' set but not used [-Wunused-but-set-variable] Boolean is_visible1, is_visible2; ^ dotvibrant.c:3098:12: warning: variable 'is_visible1' set but not used [-Wunused-but-set-variable] Boolean is_visible1, is_visible2; ^ dotvibrant.c:3095:51: warning: variable 'V1Height' set but not used [-Wunused-but-set-variable] Int2 height,width,gap,vsbWidth,in,hsbHeight,V1Height,V2Height, goHeight; ^ dotvibrant.c: In function 'DOT_HideFeatDlg': dotvibrant.c:3745:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ dotvibrant.c: In function 'DOT_SVBuildDiagViewer': dotvibrant.c:4031:18: warning: variable 'mip' set but not used [-Wunused-but-set-variable] DOTMainDataPtr mip; ^ dotvibrant.c:4029:28: warning: unused variable 'str2' [-Wunused-variable] Char str1[41]={""}, str2[41]={""}; ^ dotvibrant.c:4029:13: warning: unused variable 'str1' [-Wunused-variable] Char str1[41]={""}, str2[41]={""}; ^ dotvibrant.c:4022:18: warning: variable 'pr2' set but not used [-Wunused-but-set-variable] PrompT pr1, pr2; ^ dotvibrant.c:4022:13: warning: variable 'pr1' set but not used [-Wunused-but-set-variable] PrompT pr1, pr2; ^ dotvibrant.c: In function 'DOT_UpdateDataRects': dotvibrant.c:4166:19: warning: variable 'dy' set but not used [-Wunused-but-set-variable] Int4 comp, dx, dy, xstart, ystart; ^ dotvibrant.c:4166:15: warning: variable 'dx' set but not used [-Wunused-but-set-variable] Int4 comp, dx, dy, xstart, ystart; ^ dotvibrant.c: In function 'DOT_MsgFunc': dotvibrant.c:4215:17: warning: variable 'vdp2' set but not used [-Wunused-but-set-variable] DOTVibDataPtr vdp2 = NULL; ^ dotvibrant.c: In function 'DOT_ReleaseProc': dotvibrant.c:4373:32: warning: unused variable 'yaxis_incr' [-Wunused-variable] Boolean xaxis_incr=TRUE, yaxis_incr=TRUE; ^ dotvibrant.c:4373:15: warning: unused variable 'xaxis_incr' [-Wunused-variable] Boolean xaxis_incr=TRUE, yaxis_incr=TRUE; ^ dotvibrant.c:4371:19: warning: variable 'alp' set but not used [-Wunused-but-set-variable] DOTAlignInfoPtr alp=NULL; ^ dotvibrant.c:4370:18: warning: variable 'mip1' set but not used [-Wunused-but-set-variable] DOTMainDataPtr mip1=NULL; ^ dotvibrant.c: In function 'DOT_StartDOTPLOT': dotvibrant.c:4891:23: warning: variable 'vdp' set but not used [-Wunused-but-set-variable] DOTVibDataPtr vdp; ^ dotvibrant.c: In function 'DOT_DoZoom': dotvibrant.c:5106:18: warning: variable 'data' set but not used [-Wunused-but-set-variable] DOTSelDataPtr data; ^ dotvibrant.c: In function 'DOT_ZoomProc': dotvibrant.c:5204:23: warning: variable 'temport' set but not used [-Wunused-but-set-variable] WindoW temport, w; ^ dotvibrant.c: In function 'AlnMgr2GetNextLine': dotvibrant.c:5315:3: warning: value computed is not used [-Wunused-value] *n++; ^ dotvibrant.c: In function 'DOT_GetAlign': dotvibrant.c:5332:44: warning: variable 'n' set but not used [-Wunused-but-set-variable] Int4 x1, y1, x2, y2, numlines=0, n=0, i=0; ^ dotvibrant.c: In function 'DOT_FillAlignInfoPointer': dotvibrant.c:5565:16: warning: unused variable 'i' [-Wunused-variable] Int4 i=0, n=0; ^ dotvibrant.c: In function 'DOT_Prob_FillAlignInfoPointer': dotvibrant.c:5681:16: warning: unused variable 'i' [-Wunused-variable] Int4 i=0, n=0; ^ dotvibrant.c:5680:16: warning: unused variable 'numsaps' [-Wunused-variable] Int4 numsaps = 0, numlines = 0; ^ dotvibrant.c:5678:37: warning: unused variable 'sap_tmp' [-Wunused-variable] SeqAlignPtr sap=NULL, salp=NULL, sap_tmp=NULL; ^ dotvibrant.c: In function 'DOT_DoBlast': dotvibrant.c:5918:23: warning: unused variable 'eval' [-Wunused-variable] Char eval[11]={""}; ^ dotvibrant.c:5917:23: warning: variable 'is_local' set but not used [-Wunused-but-set-variable] Boolean is_local; ^ dotvibrant.c:5915:23: warning: unused variable 'entityID' [-Wunused-variable] Uint2 entityID=0; ^ dotvibrant.c: In function 'DOT_CreateWindowDetails': dotvibrant.c:6214:27: warning: variable 'pr2' set but not used [-Wunused-but-set-variable] PrompT pr1, pr2; ^ dotvibrant.c:6214:22: warning: variable 'pr1' set but not used [-Wunused-but-set-variable] PrompT pr1, pr2; ^ dotvibrant.c:6207:21: warning: variable 'g1' set but not used [-Wunused-but-set-variable] GrouP g, g1, g2; ^ dotvibrant.c: In function 'DOT_ResizeMainWindow': dotvibrant.c:6273:35: warning: variable 'gap' set but not used [-Wunused-but-set-variable] Int2 height, width, in , gap; ^ dotvibrant.c: In function 'DOT_FindAlignment': dotvibrant.c:6662:29: warning: unused variable 'rb_fixed' [-Wunused-variable] Boolean lt_fixed=FALSE, rb_fixed=FALSE; ^ dotvibrant.c:6662:13: warning: unused variable 'lt_fixed' [-Wunused-variable] Boolean lt_fixed=FALSE, rb_fixed=FALSE; ^ dotvibrant.c:6661:17: warning: variable 'data' set but not used [-Wunused-but-set-variable] DOTSelDataPtr data; ^ dotvibrant.c: In function 'SCP_CompareOrderOrganizeBioseqs': dotvibrant.c:6792:25: warning: variable 'itemID' set but not used [-Wunused-but-set-variable] Uint4 itemID=0; ^ dotvibrant.c: In function 'SCP_OrganizeAlnsInSet': dotvibrant.c:6873:21: warning: variable 'indextype' set but not used [-Wunused-but-set-variable] Int4 indextype; ^ In file included from ../include/sqnutils.h:51:0, from ../include/alignmgr2.h:111, from ../include/actutils.h:105, from ../include/dotviewer.h:32, from dotvibrant.c:84: dotvibrant.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from ../include/actutils.h:105, from ../include/dotviewer.h:32, from dotvibrant.c:84: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ dotvibrant.c:2760:16: warning: 'DOT_SVGetDiag' defined but not used [-Wunused-function] static Boolean DOT_SVGetDiag (Uint2 segID, Uint2 primID, VoidPtr userdata) ^ dotvibrant.c:2954:13: warning: 'DOT_SVChangeLabels' defined but not used [-Wunused-function] static void DOT_SVChangeLabels (GrouP g) ^ dotvibrant.c:3318:13: warning: 'DOT_AddFeatureToSegment' defined but not used [-Wunused-function] static void DOT_AddFeatureToSegment(SeqMgrFeatContextPtr context, ^ dotvibrant.c:3688:13: warning: 'DOT_HideAcceptProc' defined but not used [-Wunused-function] static void DOT_HideAcceptProc(ButtoN b) ^ dotvibrant.c:4213:25: warning: 'DOT_MsgFunc' defined but not used [-Wunused-function] static Int2 LIBCALLBACK DOT_MsgFunc (OMMsgStructPtr ommsp) ^ dotvibrant.c:4749:13: warning: 'DOT_GetInfoProc' defined but not used [-Wunused-function] static void DOT_GetInfoProc (IteM i) ^ dotvibrant.c:4767:13: warning: 'DOT_FeatAnalysisProc' defined but not used [-Wunused-function] static void DOT_FeatAnalysisProc(ButtoN b) ^ dotvibrant.c:5281:16: warning: 'AlnMgr2GetNextLine' defined but not used [-Wunused-function] static Boolean AlnMgr2GetNextLine(SeqAlignPtr sap, AlnMsg2Ptr amp1, AlnMsg2Ptr amp2, Int4Ptr x1, Int4Ptr y1, Int4Ptr x2, Int4Ptr y2, Int4Ptr n) ^ dotvibrant.c:5325:16: warning: 'DOT_GetAlign' defined but not used [-Wunused-function] static Boolean DOT_GetAlign (DOTAlignInfoPtr alp) ^ dotvibrant.c:5894:16: warning: 'DOT_get_eval' defined but not used [-Wunused-function] static FloatHi DOT_get_eval(Int4 exp) ^ dotvibrant.c:6346:13: warning: 'DOT_NewAnalysis' defined but not used [-Wunused-function] static void DOT_NewAnalysis (ButtoN b) ^ dotvibrant.c:6642:16: warning: 'DOT_DeselectPrim' defined but not used [-Wunused-function] static Boolean DOT_DeselectPrim (SegmenT seg, PrimitivE prim, Uint2 segID,Uint2 primID, Uint2 primCt, VoidPtr userdata) ^ dotvibrant.c: In function 'DOT_GetNthSeqFromAlign': dotvibrant.c:5087:3: warning: 'spp' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqPortFree(spp); ^ dotvibrant.c: In function 'DOT_SVPopulateSequenceViewer': dotvibrant.c:2611:19: warning: 'strand2' may be used uninitialized in this function [-Wmaybe-uninitialized] DOT_DrawScale(sbSeg, strand1, strand2, rc, margin, res_cnt, bloc_cntr, Fh, q_pos, s_pos, chw_2, chw_4); ^ dotvibrant.c:2380:23: note: 'strand2' was declared here Uint1 strand1, strand2; ^ dotvibrant.c:2611:19: warning: 'strand1' may be used uninitialized in this function [-Wmaybe-uninitialized] DOT_DrawScale(sbSeg, strand1, strand2, rc, margin, res_cnt, bloc_cntr, Fh, q_pos, s_pos, chw_2, chw_4); ^ dotvibrant.c:2380:14: note: 'strand1' was declared here Uint1 strand1, strand2; ^ dotvibrant.c:2560:45: warning: 'residue_names' may be used uninitialized in this function [-Wmaybe-uninitialized] qBuf[c]=*residue_names[(int)*q]; ^ dotvibrant.c:2378:16: note: 'residue_names' was declared here CharPtr PNTR residue_names; ^ dotvibrant.c:2611:19: warning: 's_pos' may be used uninitialized in this function [-Wmaybe-uninitialized] DOT_DrawScale(sbSeg, strand1, strand2, rc, margin, res_cnt, bloc_cntr, Fh, q_pos, s_pos, chw_2, chw_4); ^ dotvibrant.c:2370:42: note: 's_pos' was declared here Int4 hit_start, hit_stop, q_pos, s_pos; ^ dotvibrant.c:2611:19: warning: 'q_pos' may be used uninitialized in this function [-Wmaybe-uninitialized] DOT_DrawScale(sbSeg, strand1, strand2, rc, margin, res_cnt, bloc_cntr, Fh, q_pos, s_pos, chw_2, chw_4); ^ dotvibrant.c:2370:35: note: 'q_pos' was declared here Int4 hit_start, hit_stop, q_pos, s_pos; ^ dotvibrant.c:2504:11: warning: 'hit_stop' may be used uninitialized in this function [-Wmaybe-uninitialized] hit_stop+=hit_stop/10; ^ dotvibrant.c:2370:25: note: 'hit_stop' was declared here Int4 hit_start, hit_stop, q_pos, s_pos; ^ dotvibrant.c:2570:26: warning: 'hit_start' may be used uninitialized in this function [-Wmaybe-uninitialized] if (hit_start<=i && i<=(hit_stop+bloc_size)) ^ dotvibrant.c:2370:14: note: 'hit_start' was declared here Int4 hit_start, hit_stop, q_pos, s_pos; ^ dotvibrant.c:2503:16: warning: 'buf_len' may be used uninitialized in this function [-Wmaybe-uninitialized] end=s+buf_len-1; ^ dotvibrant.c:2367:21: note: 'buf_len' was declared here Int4 vis_2, buf_len; ^ dotvibrant.c:2545:18: warning: 'is_na' may be used uninitialized in this function [-Wmaybe-uninitialized] if (is_na) ^ dotvibrant.c:2361:27: note: 'is_na' was declared here Boolean ambig=FALSE, is_na; ^ dotvibrant.c:2503:6: warning: 's' may be used uninitialized in this function [-Wmaybe-uninitialized] end=s+buf_len-1; ^ dotvibrant.c:2357:14: note: 's' was declared here Uint1Ptr s; ^ dotvibrant.c:2626:16: warning: 'q' may be used uninitialized in this function [-Wmaybe-uninitialized] q++; ^ dotvibrant.c:2356:14: note: 'q' was declared here Uint1Ptr q; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF dlgutil1.c dlgutil1.c: In function 'IsAuthList': dlgutil1.c:3008:8: warning: variable 'len' set but not used [-Wunused-but-set-variable] Int4 len; ^ dlgutil1.c: In function 'TestAuthorDialog': dlgutil1.c:3357:20: warning: unused variable 'cp' [-Wunused-variable] CharPtr cp; ^ dlgutil1.c: In function 'TestIntervalEditor': dlgutil1.c:5318:20: warning: variable 'fuzz_to' set but not used [-Wunused-but-set-variable] Int2 fuzz_to; ^ dlgutil1.c:5317:20: warning: variable 'fuzz_from' set but not used [-Wunused-but-set-variable] Int2 fuzz_from; ^ dlgutil1.c:5316:41: warning: variable 'fuzz_before' set but not used [-Wunused-but-set-variable] Boolean isInterval, isPoint, fuzz_before, fuzz_after; ^ dlgutil1.c: In function 'CreateStandardEditMenu': dlgutil1.c:9189:8: warning: variable 'i' set but not used [-Wunused-but-set-variable] IteM i; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from dlgutil1.c:55: dlgutil1.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ dlgutil1.c:8061:16: warning: 'ParseSpecimenVoucherOk' defined but not used [-Wunused-function] static Boolean ParseSpecimenVoucherOk (CharPtr str) ^ dlgutil1.c:8378:25: warning: 'GetNthNameValuePair' defined but not used [-Wunused-function] static NameValuePairPtr GetNthNameValuePair (Int4 n, ValNodePtr list) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF dlgutil2.c dlgutil2.c: In function 'CreateImportFields': dlgutil2.c:1401:19: warning: variable 'is_gap' set but not used [-Wunused-but-set-variable] Boolean is_gap = FALSE; ^ dlgutil2.c: In function 'UpdateTableDisplayDialogScrollBars': dlgutil2.c:3532:11: warning: variable 'y' set but not used [-Wunused-but-set-variable] Int4 x, y; ^ dlgutil2.c:3532:8: warning: variable 'x' set but not used [-Wunused-but-set-variable] Int4 x, y; ^ dlgutil2.c: In function 'GetTableDisplayCell': dlgutil2.c:3931:8: warning: variable 'start_row' set but not used [-Wunused-but-set-variable] Int4 start_row, start_col; ^ dlgutil2.c: In function 'NewCreateInferenceDialog': dlgutil2.c:7600:19: warning: variable 'fnt' set but not used [-Wunused-but-set-variable] FonT fnt; ^ dlgutil2.c: In function 'ClickableListOnKey': dlgutil2.c:10202:20: warning: variable 'clp' set but not used [-Wunused-but-set-variable] ClickableListPtr clp; ^ dlgutil2.c: In function 'GetSelectedClickableListText': dlgutil2.c:10874:36: warning: variable 'char_offset' set but not used [-Wunused-but-set-variable] Int2 item, row, col, char_offset; ^ dlgutil2.c: In function 'AutomatchFeatures': dlgutil2.c:13840:36: warning: variable 's3' set but not used [-Wunused-but-set-variable] SeqIntPtr s1, s2, s3; ^ dlgutil2.c: At top level: dlgutil2.c:1672:16: warning: 'GetNameForFeature' defined but not used [-Wunused-function] static CharPtr GetNameForFeature (SeqFeatPtr sfp) ^ dlgutil2.c:8577:13: warning: 'GetCategoryNumFromName' defined but not used [-Wunused-function] static Int4 GetCategoryNumFromName (CharPtr category) ^ dlgutil2.c:10039:13: warning: 'DrawClickableListItem' defined but not used [-Wunused-function] static void DrawClickableListItem (DoC d, RectPtr r, Int2 item, Int2 firstLine) ^ dlgutil2.c:10059:13: warning: 'ClickClickableListItem' defined but not used [-Wunused-function] static void ClickClickableListItem (DoC d, PoinT pt) ^ dlgutil2.c:11993:16: warning: 'ParseMultiListQualOk' defined but not used [-Wunused-function] static Boolean ParseMultiListQualOk (CharPtr val) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF e2trmlst.c e2trmlst.c: In function 'ReadAFew': e2trmlst.c:2230:61: warning: left-hand operand of comma expression has no effect [-Wunused-value] for (row = 1, termPtr = e2TermListPtr->list; row <= *count, termPtr != NULL; row++, termPtr = termPtr->next) { ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF e2docsum.c e2docsum.c: In function 'FormatCdsSeq': e2docsum.c:1523:22: warning: variable 'gene' set but not used [-Wunused-but-set-variable] SeqFeatPtr gene = NULL; ^ e2docsum.c: In function 'FetchSequence': e2docsum.c:1591:16: warning: variable 'currDbName' set but not used [-Wunused-but-set-variable] CharPtr currDbName; ^ e2docsum.c:1580:16: warning: variable 'group_segs' set but not used [-Wunused-but-set-variable] Uint1 group_segs = 0; ^ e2docsum.c: In function 'SaveDocsumProject': e2docsum.c:3606:16: warning: variable 'sfp' set but not used [-Wunused-but-set-variable] SummFormPtr sfp; ^ e2docsum.c: In function 'RetrieveGeneration': e2docsum.c:4135:19: warning: variable 'e2ip' set but not used [-Wunused-but-set-variable] Entrez2InfoPtr e2ip; ^ e2docsum.c: In function 'SetupMenus': e2docsum.c:4849:16: warning: variable 'c' set but not used [-Wunused-but-set-variable] ChoicE c; ^ In file included from ../include/sqnutils.h:51:0, from ../include/dlogutil.h:50, from ../include/bspview.h:48, from e2docsum.c:53: e2docsum.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strucapi.h:52:0, from e2docsum.c:62: ../include/objmime.h:145:29: warning: 'Data_dataFree' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataFree PROTO ((Data_dataPtr )); ^ ../include/objmime.h:146:29: warning: 'Data_dataAsnRead' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:147:24: warning: 'Data_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Data_dataAsnWrite PROTO (( Data_dataPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:285:47: warning: 'SeqAlignData_seq_align_dataFree' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataFree PROTO ((SeqAlignData_seq_align_dataPtr )); ^ ../include/objmime.h:286:47: warning: 'SeqAlignData_seq_align_dataAsnRead' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:287:24: warning: 'SeqAlignData_seq_align_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL SeqAlignData_seq_align_dataAsnWrite PROTO (( SeqAlignData_seq_align_dataPtr , AsnIoPtr, AsnTypePtr)); ^ e2docsum.c:2154:20: warning: 'cddDocProcs' defined but not used [-Wunused-variable] static DocPrntProc cddDocProcs [] = { Query_FetchDocSum, Query_FetchFields, FetchUid, NULL }; ^ e2docsum.c:2850:13: warning: 'GetBiostrucComplexity' defined but not used [-Wunused-function] static Int4 GetBiostrucComplexity (void) ^ e2docsum.c:2883:13: warning: 'GetBiostrucMaxModels' defined but not used [-Wunused-function] static Int4 GetBiostrucMaxModels (void) ^ e2docsum.c: In function 'LaunchStructureViewer': e2docsum.c:2981:3: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ e2docsum.c: In function 'LaunchSequin': e2docsum.c:2838:3: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF asn2graphic.c asn2graphic.c: In function 'ParseFilterItem': asn2graphic.c:1191:21: warning: variable 'j' set but not used [-Wunused-but-set-variable] Int2 i, j; ^ asn2graphic.c: In function 'GeneProductsLayoutInternal': asn2graphic.c:3730:36: warning: variable 'featureStart' set but not used [-Wunused-but-set-variable] Int4 newLeft, featureStart, rowMaxRight; ^ asn2graphic.c: In function 'ScaleSntDrawProc': asn2graphic.c:4401:28: warning: variable 'r' set but not used [-Wunused-but-set-variable] RecT r; ^ asn2graphic.c: In function 'GphSentProc': asn2graphic.c:4996:16: warning: variable 'scaleY' set but not used [-Wunused-but-set-variable] Int4 scaleY; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from asn2graphic.c:46: asn2graphic.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ asn2graphic.c: In function 'ProcessRows': asn2graphic.c:4361:13: warning: 'SegmentTreeBot' may be used uninitialized in this function [-Wmaybe-uninitialized] if (! EnsureFeatureHasSegment (FPSP, featdeftype, SegmentTreeBot)) return 0; ^ asn2graphic.c:4353:24: warning: 'SegmentTreeMid' may be used uninitialized in this function [-Wmaybe-uninitialized] SegmentTreeBot = CreateSegment (SegmentTreeMid, 0, 0); ^ asn2graphic.c:4349:24: warning: 'SegmentTreeTop' may be used uninitialized in this function [-Wmaybe-uninitialized] SegmentTreeMid = CreateSegment (SegmentTreeTop , 0, 0); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF medview.c medview.c: In function 'PrintMedlineViewForm': medview.c:588:7: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF bspview.c In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from bspview.c:61: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from bspview.c:61: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from bspview.c:61: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from bspview.c:61: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF gbfview.c gbfview.c: In function 'RelModeFailText': gbfview.c:1004:22: warning: variable 'hasPubs' set but not used [-Wunused-but-set-variable] Boolean hasPubs; ^ gbfview.c: In function 'PopulateFlatFile': gbfview.c:1289:22: warning: variable 'doColors' set but not used [-Wunused-but-set-variable] Boolean doColors; ^ gbfview.c: In function 'PopulateFasta': gbfview.c:1714:33: warning: left-hand operand of comma expression has no effect [-Wunused-value] if (ISA_na (bsp->mol)) {TRUE, ^ gbfview.c:1646:20: warning: variable 'group_segs' set but not used [-Wunused-but-set-variable] Uint1 group_segs; ^ gbfview.c: In function 'PopulateAsnOrXML': gbfview.c:1969:16: warning: variable 'lookupFar' set but not used [-Wunused-but-set-variable] Boolean lookupFar = FALSE; ^ gbfview.c:1968:16: warning: variable 'lockFar' set but not used [-Wunused-but-set-variable] Boolean lockFar = FALSE; ^ gbfview.c: At top level: gbfview.c:289:16: warning: 'ColorIcon' defined but not used [-Wunused-function] static Boolean ColorIcon ( ^ gbfview.c:944:13: warning: 'LookForPubs' defined but not used [-Wunused-function] static void LookForPubs (BioseqPtr bsp, Pointer userdata) ^ gbfview.c:1212:13: warning: 'LookForFarBsp' defined but not used [-Wunused-function] static void LookForFarBsp ( ^ gbfview.c:1231:13: warning: 'LookForFarProds' defined but not used [-Wunused-function] static void LookForFarProds ( ^ gbfview.c: In function 'PrintFlatFileFastaOrAsn': gbfview.c:2491:5: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ gbfview.c: In function 'ReleaseIcon': gbfview.c:667:21: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF gphview.c gphview.c: In function 'ReleaseAlignment': gphview.c:1306:18: warning: variable 'slp' set but not used [-Wunused-but-set-variable] SeqLocPtr slp; ^ gphview.c: In function 'DrawAlignOnAllSequences': gphview.c:1391:10: warning: variable 'vn' set but not used [-Wunused-but-set-variable] ValNode vn; ^ gphview.c: In function 'ReleaseDesktop': gphview.c:1836:18: warning: variable 'seg' set but not used [-Wunused-but-set-variable] SegmenT seg; ^ gphview.c: In function 'AutoScrollGeneName': gphview.c:2100:21: warning: variable 'num' set but not used [-Wunused-but-set-variable] Int2 num; ^ gphview.c: In function 'DisplayGeneChoiceWindow': gphview.c:2426:22: warning: variable 'p' set but not used [-Wunused-but-set-variable] PrompT p; ^ gphview.c: In function 'PrintGraphical': gphview.c:3268:14: warning: unused variable 'ans' [-Wunused-variable] MsgAnswer ans; ^ gphview.c: In function 'PopulateAsn2GphGraphic': gphview.c:3868:16: warning: variable 'min' set but not used [-Wunused-but-set-variable] Int4 min; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF gphdraw.c gphdraw.c: In function 'GraphSentProc': gphdraw.c:195:18: warning: variable 'scaleY' set but not used [-Wunused-but-set-variable] Int4 scaleY; ^ gphdraw.c: In function 'DrawGraphToPanel': gphdraw.c:453:27: warning: variable 'xp' set but not used [-Wunused-but-set-variable] Int4Ptr xpoints, xp; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF gxydraw.c gxydraw.c: In function 'DotXYPlot': gxydraw.c:259:19: warning: 'xaxiscount' may be used uninitialized in this function [-Wmaybe-uninitialized] gsp->xaxiscount = xaxiscount; ^ gxydraw.c:182:19: note: 'xaxiscount' was declared here Int4 xaxiscount, yaxiscount; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF gtrdraw.c In file included from ../include/vibrant.h:130:0, from gtrdraw.c:53: gtrdraw.c: In function 'TreeSentProc': ../include/vibdefns.h:655:20: warning: 'f' may be used uninitialized in this function [-Wmaybe-uninitialized] #define DeleteFont Nlm_DeleteFont ^ gtrdraw.c:82:11: note: 'f' was declared here FonT f, fx; ^ In file included from ../include/vibrant.h:130:0, from gtrdraw.c:53: ../include/vibdefns.h:643:20: warning: 'fx' may be used uninitialized in this function [-Wmaybe-uninitialized] #define SelectFont Nlm_SelectFont ^ gtrdraw.c:82:14: note: 'fx' was declared here FonT f, fx; ^ In file included from ../include/vibrant.h:130:0, from gtrdraw.c:53: ../include/vibdefns.h:623:21: warning: 'curR' may be used uninitialized in this function [-Wmaybe-uninitialized] #define SelectColor Nlm_SelectColor ^ gtrdraw.c:83:11: note: 'curR' was declared here Uint1 curR, curG, curB; ^ In file included from ../include/vibrant.h:130:0, from gtrdraw.c:53: ../include/vibdefns.h:623:21: warning: 'curG' may be used uninitialized in this function [-Wmaybe-uninitialized] #define SelectColor Nlm_SelectColor ^ gtrdraw.c:83:17: note: 'curG' was declared here Uint1 curR, curG, curB; ^ In file included from ../include/vibrant.h:130:0, from gtrdraw.c:53: ../include/vibdefns.h:623:21: warning: 'curB' may be used uninitialized in this function [-Wmaybe-uninitialized] #define SelectColor Nlm_SelectColor ^ gtrdraw.c:83:23: note: 'curB' was declared here Uint1 curR, curG, curB; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF seqpanel.c seqpanel.c: In function 'FillFeatureInfo': seqpanel.c:427:18: warning: variable 'stop' set but not used [-Wunused-but-set-variable] Int4 j, start, stop; ^ seqpanel.c:427:11: warning: variable 'start' set but not used [-Wunused-but-set-variable] Int4 j, start, stop; ^ seqpanel.c: In function 'DrawFeatureCodonLines': seqpanel.c:1897:21: warning: variable 'tmp' set but not used [-Wunused-but-set-variable] Char tmp[2]; ^ seqpanel.c: In function 'DrawFeature': seqpanel.c:2127:21: warning: variable 'prot_len' set but not used [-Wunused-but-set-variable] Int4 prot_len; ^ seqpanel.c: In function 'GetSeqChapterFeatureInfo': seqpanel.c:3136:18: warning: variable 'stop' set but not used [-Wunused-but-set-variable] Int4 j, start, stop; ^ seqpanel.c:3136:11: warning: variable 'start' set but not used [-Wunused-but-set-variable] Int4 j, start, stop; ^ seqpanel.c: In function 'onSeqEdVScrollBarSeqPanel': seqpanel.c:3406:17: warning: variable 'totallines' set but not used [-Wunused-but-set-variable] Int4 totallines; ^ seqpanel.c: In function 'PrintFeature': seqpanel.c:3812:28: warning: variable 'fRight' set but not used [-Wunused-but-set-variable] Int4 fLeft, fRight, swap; ^ seqpanel.c:3812:21: warning: variable 'fLeft' set but not used [-Wunused-but-set-variable] Int4 fLeft, fRight, swap; ^ seqpanel.c: In function 'PrintTranslatedFrame': seqpanel.c:3966:17: warning: variable 'tmp' set but not used [-Wunused-but-set-variable] Char tmp[2]; ^ seqpanel.c: In function 'ExportSequenceText': seqpanel.c:4372:34: warning: pointer targets in passing argument 1 of 'complement_string' differ in signedness [-Wpointer-sign] complement_string (file_line + SEQ_ED_PRINT_SEQ_OFFSET); ^ In file included from ../include/alignmgr2.h:112:0, from seqpanel.c:39: ../include/salutil.h:78:20: note: expected 'Nlm_CharPtr {aka char *}' but argument is of type 'Nlm_Uint1Ptr {aka unsigned char *}' NLM_EXTERN CharPtr complement_string (CharPtr str); ^ seqpanel.c:4236:17: warning: variable 'curr_para_strings' set but not used [-Wunused-but-set-variable] ValNodePtr curr_para_strings = NULL; ^ seqpanel.c:4229:17: warning: variable 'buf' set but not used [-Wunused-but-set-variable] Uint1Ptr buf; ^ seqpanel.c: In function 'SeqEdOnClick': seqpanel.c:4946:21: warning: variable 'direction' set but not used [-Wunused-but-set-variable] Int4 direction; ^ seqpanel.c: In function 'SeqAlnOnDrag': seqpanel.c:5685:34: warning: variable 'is_ctrl' set but not used [-Wunused-but-set-variable] Boolean is_double_click, is_ctrl; ^ seqpanel.c:5685:17: warning: variable 'is_double_click' set but not used [-Wunused-but-set-variable] Boolean is_double_click, is_ctrl; ^ seqpanel.c: In function 'ResizeSeqEdView': seqpanel.c:5760:8: warning: variable 'sequence_pos' set but not used [-Wunused-but-set-variable] Int4 sequence_pos = 0; ^ seqpanel.c:5755:8: warning: variable 'height' set but not used [-Wunused-but-set-variable] Int4 height, width; ^ seqpanel.c: In function 'WriteAlignmentInterleaveToFileEx': seqpanel.c:8664:22: warning: passing argument 1 of 'fputs' from incompatible pointer type [-Wincompatible-pointer-types] fputs (fp, printed_line); ^ In file included from ../include/ncbilcl.h:154:0, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from ../include/bspview.h:48, from seqpanel.c:33: /usr/include/stdio.h:689:12: note: expected 'const char * restrict' but argument is of type 'FILE * {aka struct _IO_FILE *}' extern int fputs (const char *__restrict __s, FILE *__restrict __stream); ^ seqpanel.c:8664:26: warning: passing argument 2 of 'fputs' from incompatible pointer type [-Wincompatible-pointer-types] fputs (fp, printed_line); ^ In file included from ../include/ncbilcl.h:154:0, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from ../include/bspview.h:48, from seqpanel.c:33: /usr/include/stdio.h:689:12: note: expected 'FILE * restrict {aka struct _IO_FILE * restrict}' but argument is of type 'Nlm_CharPtr {aka char *}' extern int fputs (const char *__restrict __s, FILE *__restrict __stream); ^ seqpanel.c: In function 'WriteAlignmentContiguousToFile': seqpanel.c:8760:20: warning: passing argument 1 of 'fputs' from incompatible pointer type [-Wincompatible-pointer-types] fputs (fp, printed_line); ^ In file included from ../include/ncbilcl.h:154:0, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from ../include/bspview.h:48, from seqpanel.c:33: /usr/include/stdio.h:689:12: note: expected 'const char * restrict' but argument is of type 'FILE * {aka struct _IO_FILE *}' extern int fputs (const char *__restrict __s, FILE *__restrict __stream); ^ seqpanel.c:8760:24: warning: passing argument 2 of 'fputs' from incompatible pointer type [-Wincompatible-pointer-types] fputs (fp, printed_line); ^ In file included from ../include/ncbilcl.h:154:0, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from ../include/bspview.h:48, from seqpanel.c:33: /usr/include/stdio.h:689:12: note: expected 'FILE * restrict {aka struct _IO_FILE * restrict}' but argument is of type 'Nlm_CharPtr {aka char *}' extern int fputs (const char *__restrict __s, FILE *__restrict __stream); ^ seqpanel.c: In function 'ReverseSequenceStrandsInAlignment': seqpanel.c:9007:17: warning: variable 'sep' set but not used [-Wunused-but-set-variable] SeqEntryPtr sep; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from seqpanel.c:39: seqpanel.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ seqpanel.c:1171:16: warning: 'GetAlignmentColumnPercentIDsForAlignmentSection' defined but not used [-Wunused-function] static double *GetAlignmentColumnPercentIDsForAlignmentSection (BioseqViewPtr bvp, Int4 line, Int4 aln_idx) ^ In file included from ../include/vibrant.h:130:0, from ../include/dlogutil.h:48, from ../include/bspview.h:48, from seqpanel.c:33: seqpanel.c: In function 'SeqEdFindPatternDialog': ../include/vibdefns.h:505:22: warning: 'g1' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AlignObjects Nlm_AlignObjects ^ seqpanel.c:7632:25: note: 'g1' was declared here GrouP h, g1, g2; ^ In file included from ../include/ncbi.h:62:0, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from ../include/bspview.h:48, from seqpanel.c:33: seqpanel.c: In function 'PrintFeature': ../include/ncbistr.h:331:19: warning: 'str_prot' may be used uninitialized in this function [-Wmaybe-uninitialized] #define StringLen Nlm_StringLen ^ seqpanel.c:3810:21: note: 'str_prot' was declared here CharPtr str_prot; ^ seqpanel.c: In function 'SeqEdOnClick': seqpanel.c:5026:10: warning: 'is_left_end' may be used uninitialized in this function [-Wmaybe-uninitialized] if (is_left_end) ^ seqpanel.c:5030:15: warning: 'is_right_end' may be used uninitialized in this function [-Wmaybe-uninitialized] else if (is_right_end) ^ seqpanel.c: In function 'SeqEdExportProc': seqpanel.c:4353:13: warning: 'seq_pos' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqEdPrintTextLineToFile ((CharPtr)file_line, from, to, seq_pos, fp); ^ seqpanel.c:4233:17: note: 'seq_pos' was declared here Int4 seq_pos; ^ seqpanel.c: In function 'onDrawSeqPanel': seqpanel.c:1301:24: warning: 'alnbuf' may be used uninitialized in this function [-Wmaybe-uninitialized] MemCpy(buf, alnbuf + from, len); ^ seqpanel.c:2466:33: note: 'alnbuf' was declared here Uint1Ptr buf, seqbuf, alnbuf; ^ seqpanel.c:1252:3: warning: 'seqbuf' may be used uninitialized in this function [-Wmaybe-uninitialized] AlignmentIntervalToString (tmp_salp, row, start, stop, bvp->TargetRow, ^ seqpanel.c:2466:25: note: 'seqbuf' was declared here Uint1Ptr buf, seqbuf, alnbuf; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ingengraph.c ingengraph.c: In function 'Ing_BigEncodeIdxFeat': ingengraph.c:262:2: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] return *((Uint8Ptr) index_g); ^ ingengraph.c: In function 'Ing_AddOneAlignToOverviewPage': ingengraph.c:347:13: warning: unused variable 'bsp' [-Wunused-variable] BioseqPtr bsp=NULL; ^ ingengraph.c: In function 'Ing_AddAlignsToOverviewPage': ingengraph.c:372:18: warning: unused variable 'buf' [-Wunused-variable] Char buf[41]={""}; ^ ingengraph.c:367:18: warning: variable 'NewLine' set but not used [-Wunused-but-set-variable] Boolean NewLine=FALSE; ^ ingengraph.c: In function 'Ing_DrawOverviewPage': ingengraph.c:492:14: warning: variable 'offset' set but not used [-Wunused-but-set-variable] Int4 offset; ^ In file included from ../include/vibrant.h:130:0, from ../include/ingengraph.h:54, from ingengraph.c:45: ../include/vibdefns.h:438:17: warning: unused variable 'Nlm_Visible' [-Wunused-variable] #define Visible Nlm_Visible ^ ingengraph.c:488:14: note: in expansion of macro 'Visible' Boolean Visible=FALSE; ^ ingengraph.c: In function 'Ing_PopOverviewPage': ingengraph.c:715:16: warning: variable 'margin' set but not used [-Wunused-but-set-variable] Int4 margin, len; ^ ingengraph.c:714:16: warning: unused variable 'buf' [-Wunused-variable] Char buf[50]={""}; ^ ingengraph.c:708:16: warning: unused variable 'sanp' [-Wunused-variable] SeqAnnotPtr sanp=NULL; ^ ingengraph.c: In function 'Ing_PopDetailedPage': ingengraph.c:1437:16: warning: variable 'CurrentSeg' set but not used [-Wunused-but-set-variable] SegmenT CurrentSeg=NULL; ^ ingengraph.c: In function 'Ing_ExploreSegments': ingengraph.c:1829:22: warning: unused variable 'isDraft' [-Wunused-variable] Boolean isDraft = FALSE; ^ ingengraph.c:1827:22: warning: unused variable 'vnp' [-Wunused-variable] ValNodePtr vnp = NULL; ^ ingengraph.c:1826:22: warning: unused variable 'gbp' [-Wunused-variable] GBBlockPtr gbp = NULL; ^ ingengraph.c:1824:33: warning: variable 'black' set but not used [-Wunused-but-set-variable] Uint1 orange[3], black[3]; ^ ingengraph.c:1823:33: warning: variable 'lime' set but not used [-Wunused-but-set-variable] Uint1 indigo[3], lime[3]; ^ ingengraph.c:1823:22: warning: variable 'indigo' set but not used [-Wunused-but-set-variable] Uint1 indigo[3], lime[3]; ^ ingengraph.c: In function 'Ing_AddGCRect': ingengraph.c:1933:17: warning: variable 'comp2' set but not used [-Wunused-but-set-variable] FloatHi comp2, comp_prev; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from ../include/ingengraph.h:63, from ingengraph.c:45: ingengraph.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ ingengraph.c:71:13: warning: 'Ing_GetNamesZoomedVal' declared 'static' but never defined [-Wunused-function] static void Ing_GetNamesZoomedVal(VieweR vNames,Int4Ptr from, Int4Ptr to, ^ ingengraph.c:583:24: warning: 'Ing_SortByChoice' defined but not used [-Wunused-function] static int LIBCALLBACK Ing_SortByChoice (VoidPtr ptr1, VoidPtr ptr2) ^ ingengraph.c:602:28: warning: 'Ing_CollectFeatures1' defined but not used [-Wunused-function] static Boolean LIBCALLBACK Ing_CollectFeatures1(SeqFeatPtr sfp, SeqMgrFeatContextPtr sfc) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ingenext.c ingenext.c: In function 'Ing_KeepTheBestAlignments': ingenext.c:167:20: warning: variable 'amaip' set but not used [-Wunused-but-set-variable] AMAlignIndex2Ptr amaip = NULL; ^ ingenext.c: In function 'Ing_HandleQBlastResults': ingenext.c:272:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (dataptr = ReadAsnFastaOrFlatFile(fp, &datatype, NULL, FALSE, TRUE, TRUE, TRUE)){ ^ ingenext.c: In function 'Ing_HandleResults': ingenext.c:535:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (dataptr = ReadAsnFastaOrFlatFile(fp, &datatype, NULL, FALSE, TRUE, TRUE, TRUE)){ ^ ingenext.c: In function 'Ing_AccepttRNAargsProc': ingenext.c:739:18: warning: unused variable 'paramlist' [-Wunused-variable] ValNodePtr paramlist = NULL; ^ ingenext.c: In function 'Ing_tRNAscanProc': ingenext.c:915:22: warning: unused variable 'moveMe' [-Wunused-variable] ValNodePtr moveMe = NULL; ^ ingenext.c:906:22: warning: unused variable 'first' [-Wunused-variable] TexT first = NULL; ^ ingenext.c:902:22: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ ingenext.c:896:17: warning: unused variable 'args' [-Wunused-variable] CharPtr args = NULL; ^ ingenext.c: In function 'Ing_ReadtRNAConfigFile': ingenext.c:1125:15: warning: variable 'demomode' set but not used [-Wunused-but-set-variable] Boolean demomode = FALSE; ^ ingenext.c: In function 'Ing_DoBlast2Seqs': ingenext.c:1312:23: warning: variable 'is_local' set but not used [-Wunused-but-set-variable] Boolean is_local, first_bsp=TRUE; ^ ingenext.c: In function 'Ing_CreateDotMatrixForm': ingenext.c:1834:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (dataptr = ReadAsnFastaOrFlatFile(fp, &datatype, NULL, FALSE, FALSE, TRUE, FALSE)) ^ ingenext.c: In function 'Ing_RunSpidey': ingenext.c:1994:20: warning: unused variable 'sanp' [-Wunused-variable] SeqAnnotPtr sanp = NULL; ^ ingenext.c:1993:20: warning: unused variable 'spidp_next' [-Wunused-variable] SPI_mRNAPtr spidp_next = NULL; ^ ingenext.c:1992:20: warning: unused variable 'spidp_head' [-Wunused-variable] SPI_mRNAPtr spidp_head = NULL; ^ ingenext.c: In function 'Ing_ReadmRNAs_ext': ingenext.c:2025:4: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (dataptr = ReadAsnFastaOrFlatFile(fp, &datatype, NULL, FALSE, FALSE, TRUE, FALSE)) ^ ingenext.c: In function 'Ing_DeleteInsertInGenomic': ingenext.c:2522:16: warning: unused variable 'newsegs' [-Wunused-variable] Int2 newsegs = 0, offset = 0; ^ ingenext.c: In function 'Ing_ReplaceAllMismatchedInLocation': ingenext.c:2615:21: warning: unused variable 'str' [-Wunused-variable] Char str[200] = {""}; ^ ingenext.c:2612:22: warning: unused variable 'amaip' [-Wunused-variable] AMAlignIndex2Ptr amaip = NULL; ^ ingenext.c: In function 'Ing_MismatchProc': ingenext.c:3025:15: warning: unused variable 'sip' [-Wunused-variable] SeqIdPtr sip = NULL; ^ ingenext.c: In function 'Ing_PrintSpideyReport': ingenext.c:3471:27: warning: variable 'gmis' set but not used [-Wunused-but-set-variable] Int4 mmis, gmis, miscount = 0; ^ ingenext.c: In function 'Ing_PrintBlastReport': ingenext.c:3853:18: warning: unused variable 'more' [-Wunused-variable] Boolean more = FALSE; ^ In file included from ../include/vibrant.h:130:0, from ../include/dlogutil.h:48, from ../include/import.h:48, from ../include/ingenwin.h:64, from ../include/ingenext.h:53, from ingenext.c:46: ../include/vibdefns.h:622:16: warning: variable 'Nlm_DkGray' set but not used [-Wunused-but-set-variable] #define DkGray Nlm_DkGray ^ ingenext.c:3850:18: note: in expansion of macro 'DkGray' Uint1 DkGray[3]; ^ ingenext.c: In function 'Ing_PopulateReport': ingenext.c:4328:20: warning: unused variable 'sip' [-Wunused-variable] SeqIdPtr sip=NULL; ^ ingenext.c:4324:20: warning: unused variable 'temp' [-Wunused-variable] CharPtr temp = NULL; ^ ingenext.c: In function 'Ing_ResizeReportWindow': ingenext.c:4484:12: warning: variable 'hsb' set but not used [-Wunused-but-set-variable] BaR hsb; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from ../include/actutils.h:105, from ../include/ingenwin.h:60, from ../include/ingenext.h:53, from ingenext.c:46: ingenext.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ingenwin.h:61, from ../include/ingenext.h:53, from ingenext.c:46: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ingenwin.h:61, from ../include/ingenext.h:53, from ingenext.c:46: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ingenwin.h:61, from ../include/ingenext.h:53, from ingenext.c:46: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ingenwin.h:61, from ../include/ingenext.h:53, from ingenext.c:46: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/netblap3.h:134:0, from ../include/ingenwin.h:62, from ../include/ingenext.h:53, from ingenext.c:46: ../include/blstspc.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "blstspc.h23"; ^ ../include/blstspc.h:227:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^ ../include/blstspc.h:228:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/blstspc.h:229:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ In file included from ../include/netblap3.h:135:0, from ../include/ingenwin.h:62, from ../include/ingenext.h:53, from ingenext.c:46: ../include/objblst3.h:180:35: warning: 'Cutoff2_cutoff2Free' declared 'static' but never defined [-Wunused-function] static Cutoff2_cutoff2Ptr LIBCALL Cutoff2_cutoff2Free PROTO ((Cutoff2_cutoff2Ptr )); ^ ../include/objblst3.h:181:35: warning: 'Cutoff2_cutoff2AsnRead' declared 'static' but never defined [-Wunused-function] static Cutoff2_cutoff2Ptr LIBCALL Cutoff2_cutoff2AsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:182:24: warning: 'Cutoff2_cutoff2AsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Cutoff2_cutoff2AsnWrite PROTO (( Cutoff2_cutoff2Ptr , AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:199:33: warning: 'Cutoff_cutoffFree' declared 'static' but never defined [-Wunused-function] static Cutoff_cutoffPtr LIBCALL Cutoff_cutoffFree PROTO ((Cutoff_cutoffPtr )); ^ ../include/objblst3.h:200:33: warning: 'Cutoff_cutoffAsnRead' declared 'static' but never defined [-Wunused-function] static Cutoff_cutoffPtr LIBCALL Cutoff_cutoffAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:201:24: warning: 'Cutoff_cutoffAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Cutoff_cutoffAsnWrite PROTO (( Cutoff_cutoffPtr , AsnIoPtr, AsnTypePtr)); ^ ingenext.c:59:28: warning: 'Ing_BlastCallback' defined but not used [-Wunused-function] static Boolean LIBCALLBACK Ing_BlastCallback (BlastResponse *brp, ^ ingenext.c:129:13: warning: 'querytimerlimit' defined but not used [-Wunused-variable] static Int4 querytimerlimit = 100; ^ ingenext.c:130:13: warning: 'querytimercount' defined but not used [-Wunused-variable] static Int4 querytimercount = 0; ^ ingenext.c: In function 'Ing_DoBlast2Seqs': ingenext.c:1457:17: warning: 'e_head' may be used uninitialized in this function [-Wmaybe-uninitialized] e_tmp->next=e_head; ^ ingenext.c: In function 'Ing_MismatchProc': ingenext.c:3170:32: warning: 'gstart' may be used uninitialized in this function [-Wmaybe-uninitialized] gstart = start + (stop - gstart); ^ ingenext.c:3206:23: warning: 'mstart' may be used uninitialized in this function [-Wmaybe-uninitialized] else if (mstart == R1 || mstart == R2 || mstart == R3){ ^ ingenext.c: In function 'Ing_ReplaceAllMismatchedInLocation': ingenext.c:2617:33: warning: 'nmismatches' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 gmis, mmis, nmismatches, nkeep = 0; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ingenwin.c ingenwin.c: In function 'Ing_PopulateDetailedPage': ingenwin.c:134:22: warning: unused variable 'bSelected' [-Wunused-variable] Boolean bSelected = FALSE; ^ ingenwin.c: In function 'Ing_DoRange': ingenwin.c:394:22: warning: variable 'bsp' set but not used [-Wunused-but-set-variable] BioseqPtr bsp; ^ ingenwin.c: In function 'Ing_PopulateCpG': ingenwin.c:576:19: warning: variable 'nchars' set but not used [-Wunused-but-set-variable] Int2 cxChar, nchars; ^ ingenwin.c: In function 'Ing_ResizeCpGWindow': ingenwin.c:642:12: warning: variable 'hsb' set but not used [-Wunused-but-set-variable] BaR hsb; ^ ingenwin.c: In function 'Ing_PopulateMotif': ingenwin.c:718:26: warning: variable 'nchars' set but not used [-Wunused-but-set-variable] Int2 cxChar, nchars; ^ ingenwin.c:717:24: warning: variable 'swidth' set but not used [-Wunused-but-set-variable] Int4 slen, swidth; ^ ingenwin.c:717:18: warning: variable 'slen' set but not used [-Wunused-but-set-variable] Int4 slen, swidth; ^ ingenwin.c: In function 'Ing_ResizeMotifWindow': ingenwin.c:785:12: warning: unused variable 'name' [-Wunused-variable] CharPtr name = NULL; ^ ingenwin.c:783:12: warning: variable 'hsb' set but not used [-Wunused-but-set-variable] BaR hsb; ^ ingenwin.c: In function 'Ing_ShowComplexity': ingenwin.c:1270:10: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] while ((Boolean)(slp_feat=SeqLocFindNext(slp_dust,slp_feat))){ ^ ingenwin.c: In function 'Ing_CreateNewFeature': ingenwin.c:1301:22: warning: unused variable 'rnatype' [-Wunused-variable] Uint1 rnatype=0; ^ ingenwin.c: In function 'Ing_GetAlignmentIntervals': ingenwin.c:1418:20: warning: unused variable 'master' [-Wunused-variable] SeqIdPtr master = NULL; ^ ingenwin.c: In function 'Ing_OldGetAlignmentIntervals': ingenwin.c:1494:20: warning: unused variable 'master' [-Wunused-variable] SeqIdPtr master = NULL; ^ ingenwin.c: In function 'Ing_OldMakeLocListFromSAP': ingenwin.c:1613:26: warning: unused variable 'slp2' [-Wunused-variable] SeqLocPtr slp1 = NULL, slp2 = NULL; ^ ingenwin.c:1613:13: warning: unused variable 'slp1' [-Wunused-variable] SeqLocPtr slp1 = NULL, slp2 = NULL; ^ ingenwin.c: In function 'Ing_OM_MsgFunc': ingenwin.c:2380:15: warning: the address of 'sfc' will always evaluate as 'true' [-Waddress] if (&sfc) ^ ingenwin.c:2284:22: warning: unused variable 'segID' [-Wunused-variable] Uint2 segID=0; ^ ingenwin.c:2280:22: warning: unused variable 'sep' [-Wunused-variable] SeqEntryPtr sep=NULL; ^ ingenwin.c:2271:31: warning: unused variable 'number' [-Wunused-variable] Int4 score=0, number=0; ^ ingenwin.c:2271:22: warning: unused variable 'score' [-Wunused-variable] Int4 score=0, number=0; ^ ingenwin.c:2270:34: warning: unused variable 'n' [-Wunused-variable] Int4 s1=0, s2=0, n=1; ^ ingenwin.c:2270:28: warning: unused variable 's2' [-Wunused-variable] Int4 s1=0, s2=0, n=1; ^ ingenwin.c:2270:22: warning: unused variable 's1' [-Wunused-variable] Int4 s1=0, s2=0, n=1; ^ ingenwin.c: In function 'Ing_MoveCursor': ingenwin.c:2631:9: warning: variable 'grayClr2' set but not used [-Wunused-but-set-variable] Uint1 grayClr2[3]; ^ ingenwin.c: In function 'Ing_FeatViewerClickProc': ingenwin.c:2814:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (subSeg=FindSegPrim(v, pt, NULL, NULL, &prim)){ ^ ingenwin.c:2804:14: warning: unused variable 'slp' [-Wunused-variable] SeqLocPtr slp=NULL; ^ ingenwin.c: In function 'Ing_SequenceClickProc': ingenwin.c:2908:22: warning: variable 'ssp' set but not used [-Wunused-but-set-variable] SelStructPtr ssp=NULL; ^ ingenwin.c: In function 'Ing_ReadInBlastAsn': ingenwin.c:3077:19: warning: unused variable 'Report' [-Wunused-variable] IngReportPtr Report=NULL; ^ ingenwin.c:3075:19: warning: unused variable 'sip' [-Wunused-variable] SeqIdPtr sip=NULL; ^ ingenwin.c:3074:19: warning: unused variable 'salp' [-Wunused-variable] SeqAlignPtr salp=NULL; ^ ingenwin.c:3073:19: warning: unused variable 'n_sap' [-Wunused-variable] SeqAlignPtr n_sap=NULL; ^ ingenwin.c: In function 'Ing_ParseSeqIdFile': ingenwin.c:3142:20: warning: unused variable 'bsp' [-Wunused-variable] BioseqPtr bsp=NULL; ^ ingenwin.c: In function 'Ing_ReadInFeatureTable': ingenwin.c:3194:20: warning: variable 'sanp' set but not used [-Wunused-but-set-variable] SeqAnnotPtr sanp; ^ ingenwin.c: In function 'Ing_AssembleGenscanInfo': ingenwin.c:3258:17: warning: unused variable 'slp' [-Wunused-variable] SeqLocPtr slp=NULL; ^ ingenwin.c: In function 'Ing_ReadInGenscan': ingenwin.c:3300:33: warning: unused variable 'str' [-Wunused-variable] CharPtr letter=NULL, str=NULL; ^ ingenwin.c:3300:20: warning: unused variable 'letter' [-Wunused-variable] CharPtr letter=NULL, str=NULL; ^ ingenwin.c:3298:33: warning: unused variable 'first_pass' [-Wunused-variable] Boolean found=FALSE, first_pass=FALSE; ^ ingenwin.c: In function 'Ing_AssembleTabDelimited': ingenwin.c:3519:17: warning: variable 'score' set but not used [-Wunused-but-set-variable] Int4 score; ^ ingenwin.c:3516:17: warning: unused variable 'tmp' [-Wunused-variable] CharPtr tmp=NULL; ^ ingenwin.c: In function 'Ing_ReadInTabDelimited': ingenwin.c:3659:40: warning: variable 'label_str' set but not used [-Wunused-but-set-variable] CharPtr tmp=NULL, str=NULL, label_str=NULL; ^ ingenwin.c:3659:20: warning: unused variable 'tmp' [-Wunused-variable] CharPtr tmp=NULL, str=NULL, label_str=NULL; ^ ingenwin.c:3653:20: warning: unused variable 'lip_tmp' [-Wunused-variable] IngInfoPtr lip_tmp=NULL; ^ ingenwin.c:3650:20: warning: unused variable 'letter' [-Wunused-variable] CharPtr letter=NULL; ^ ingenwin.c: In function 'Ing_FileOpenSpecial': ingenwin.c:3984:16: warning: unused variable 'Report' [-Wunused-variable] IngReportPtr Report=NULL; ^ ingenwin.c: In function 'Ing_FileOpenMain': ingenwin.c:4078:21: warning: unused variable 'sep_orig' [-Wunused-variable] SeqEntryPtr sep_orig=NULL, sep=NULL; ^ ingenwin.c: In function 'Ing_ResizeMainWindow': ingenwin.c:4187:25: warning: variable 'InfoHeight' set but not used [-Wunused-but-set-variable] Int2 RulerHeight, InfoHeight; ^ ingenwin.c: In function 'Ing_OpenFromFileORNetwork': ingenwin.c:4491:25: warning: variable 'b2' set but not used [-Wunused-but-set-variable] ButtoN b,b2; ^ ingenwin.c: In function 'Ing_EditFeature': ingenwin.c:4640:22: warning: variable 'igvp' set but not used [-Wunused-but-set-variable] IngGenomeViewerPtr igvp=NULL; ^ ingenwin.c: In function 'Ing_MarkSeqAnnot': ingenwin.c:4713:16: warning: unused variable 'bNoParent' [-Wunused-variable] Boolean bNoParent = FALSE; ^ ingenwin.c: In function 'Ing_CreateMismatchedDialog': ingenwin.c:4924:31: warning: 'main' is usually a function [-Wmain] GrouP g, g1, g2, main; ^ ingenwin.c: In function 'Ing_PropagateClickProc': ingenwin.c:5064:22: warning: unused variable 'primID' [-Wunused-variable] Uint2 primID=0; ^ ingenwin.c:5063:22: warning: unused variable 'itemtype' [-Wunused-variable] Uint2 itemtype=0; ^ ingenwin.c:5062:22: warning: unused variable 'itemID' [-Wunused-variable] Uint4 itemID=0; ^ ingenwin.c:5061:22: warning: unused variable 'entityID' [-Wunused-variable] Uint2 entityID=0; ^ ingenwin.c:5060:22: warning: unused variable 'ssp' [-Wunused-variable] SelStructPtr ssp=NULL; ^ ingenwin.c:5059:22: warning: unused variable 'igvp' [-Wunused-variable] IngGenomeViewerPtr igvp=NULL; ^ ingenwin.c: In function 'Ing_PrintCompProteins': ingenwin.c:5146:32: warning: unused variable 'str2' [-Wunused-variable] Char str1[200] = {""}, str2[10] = {""}; ^ ingenwin.c: In function 'Ing_PropagateReport': ingenwin.c:5282:14: warning: variable 'ARROW' set but not used [-Wunused-but-set-variable] Uint1 ARROW=NO_ARROW; ^ ingenwin.c:5279:14: warning: unused variable 'stringwidth' [-Wunused-variable] Int4 stringwidth = 0; ^ ingenwin.c:5277:14: warning: unused variable 'left' [-Wunused-variable] Int4 left = 10; ^ ingenwin.c:5276:14: warning: variable 'prim' set but not used [-Wunused-but-set-variable] PrimitivE prim; ^ ingenwin.c: In function 'Ing_DoPropagate': ingenwin.c:5596:14: warning: unused variable 'strErr' [-Wunused-variable] Char strErr[50]={""}; ^ ingenwin.c: In function 'Ing_GetFromNetwork': ingenwin.c:7518:11: warning: unused variable 'szAppName' [-Wunused-variable] Char szAppName [10]={"Ingenue"}; ^ ingenwin.c: In function 'Ing_SetupMainWindow': ingenwin.c:7761:16: warning: unused variable 'szAppName' [-Wunused-variable] Char szAppName [10]={"Ingenue"}; ^ ingenwin.c:7760:48: warning: unused variable 'str2' [-Wunused-variable] Char title[100]={""}, str1[20]={""}, str2[20]={""}; ^ ingenwin.c:7760:33: warning: unused variable 'str1' [-Wunused-variable] Char title[100]={""}, str1[20]={""}, str2[20]={""}; ^ ingenwin.c:7760:16: warning: unused variable 'title' [-Wunused-variable] Char title[100]={""}, str1[20]={""}, str2[20]={""}; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from ../include/actutils.h:105, from ../include/ingenwin.h:60, from ingenwin.c:45: ingenwin.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ingenwin.h:61, from ingenwin.c:45: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ingenwin.h:61, from ingenwin.c:45: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ingenwin.h:61, from ingenwin.c:45: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ingenwin.h:61, from ingenwin.c:45: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/netblap3.h:134:0, from ../include/ingenwin.h:62, from ingenwin.c:45: ../include/blstspc.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "blstspc.h23"; ^ ../include/blstspc.h:227:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^ ../include/blstspc.h:228:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/blstspc.h:229:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ In file included from ../include/netblap3.h:135:0, from ../include/ingenwin.h:62, from ingenwin.c:45: ../include/objblst3.h:180:35: warning: 'Cutoff2_cutoff2Free' declared 'static' but never defined [-Wunused-function] static Cutoff2_cutoff2Ptr LIBCALL Cutoff2_cutoff2Free PROTO ((Cutoff2_cutoff2Ptr )); ^ ../include/objblst3.h:181:35: warning: 'Cutoff2_cutoff2AsnRead' declared 'static' but never defined [-Wunused-function] static Cutoff2_cutoff2Ptr LIBCALL Cutoff2_cutoff2AsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:182:24: warning: 'Cutoff2_cutoff2AsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Cutoff2_cutoff2AsnWrite PROTO (( Cutoff2_cutoff2Ptr , AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:199:33: warning: 'Cutoff_cutoffFree' declared 'static' but never defined [-Wunused-function] static Cutoff_cutoffPtr LIBCALL Cutoff_cutoffFree PROTO ((Cutoff_cutoffPtr )); ^ ../include/objblst3.h:200:33: warning: 'Cutoff_cutoffAsnRead' declared 'static' but never defined [-Wunused-function] static Cutoff_cutoffPtr LIBCALL Cutoff_cutoffAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:201:24: warning: 'Cutoff_cutoffAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Cutoff_cutoffAsnWrite PROTO (( Cutoff_cutoffPtr , AsnIoPtr, AsnTypePtr)); ^ ingenwin.c:1869:16: warning: 'Ing_DeSelectPrim' defined but not used [-Wunused-function] static Boolean Ing_DeSelectPrim (SegmenT seg, PrimitivE prim, Uint2 segID, Uint2 primID, Uint2 primCt, VoidPtr userdata) ^ ingenwin.c:1487:23: warning: 'Ing_OldGetAlignmentIntervals' defined but not used [-Wunused-function] static IngIvalInfoPtr Ing_OldGetAlignmentIntervals (SeqAlignPtr sap, Int4 from_row, Int4 to_row, Int4 from, Int4 to, Uint1 strand) ^ ingenwin.c:1610:18: warning: 'Ing_OldMakeLocListFromSAP' defined but not used [-Wunused-function] static SeqLocPtr Ing_OldMakeLocListFromSAP(SeqAlignPtr sap) ^ ingenwin.c:5535:16: warning: 'Ing_KeywordAlreadyInList' defined but not used [-Wunused-function] static Boolean Ing_KeywordAlreadyInList (ValNodePtr head, CharPtr kwd) ^ ingenwin.c:6717:13: warning: 'Ing_BspListProc' defined but not used [-Wunused-function] static void Ing_BspListProc(IteM i) ^ ingenwin.c:7552:13: warning: 'Ing_ItemtoNetwork' defined but not used [-Wunused-function] static void Ing_ItemtoNetwork(IteM i){ ^ ingenwin.c: In function 'Ing_ReplaceMismatchedProc': ingenwin.c:4902:3: warning: 'stop' may be used uninitialized in this function [-Wmaybe-uninitialized] Ing_ReplaceAllMismatchedInLocation(igvp, rmp->sap, start, stop, GetStatus(rmp->all), GetStatus(rmp->gaps), GetStatus(rmp->inserts)); ^ ingenwin.c:4902:3: warning: 'start' may be used uninitialized in this function [-Wmaybe-uninitialized] ingenwin.c: In function 'Ing_FileOpenSpecial': ingenwin.c:3290:13: warning: 'strand' may be used uninitialized in this function [-Wmaybe-uninitialized] slp_list=Ing_MakeSlpList(NULL, n/2, ivals, strand, igvp->bsp->id); ^ ingenwin.c:3255:17: note: 'strand' was declared here Uint1 strand; ^ ingenwin.c: In function 'Ing_KozakProc': ingenwin.c:1048:6: warning: 'ans' may be used uninitialized in this function [-Wmaybe-uninitialized] if (ans == ANS_NO) ^ In file included from ../include/vibrant.h:130:0, from ../include/dlogutil.h:48, from ../include/import.h:48, from ../include/ingenwin.h:64, from ingenwin.c:45: ../include/vibdefns.h:446:16: warning: 'ReportW' may be used uninitialized in this function [-Wmaybe-uninitialized] #define Select Nlm_Select ^ ingenwin.c:1006:22: note: 'ReportW' was declared here WindoW ReportW; ^ ingenwin.c: In function 'Ing_SignalPeptideProc': ingenwin.c:1099:6: warning: 'ans' may be used uninitialized in this function [-Wmaybe-uninitialized] if (ans == ANS_NO) ^ In file included from ../include/vibrant.h:130:0, from ../include/dlogutil.h:48, from ../include/import.h:48, from ../include/ingenwin.h:64, from ingenwin.c:45: ../include/vibdefns.h:446:16: warning: 'ReportW' may be used uninitialized in this function [-Wmaybe-uninitialized] #define Select Nlm_Select ^ ingenwin.c:1057:22: note: 'ReportW' was declared here WindoW ReportW; ^ ingenwin.c: In function 'Ing_RepeatsProc': ingenwin.c:997:6: warning: 'ans' may be used uninitialized in this function [-Wmaybe-uninitialized] if (ans == ANS_NO) ^ In file included from ../include/vibrant.h:130:0, from ../include/dlogutil.h:48, from ../include/import.h:48, from ../include/ingenwin.h:64, from ingenwin.c:45: ../include/vibdefns.h:446:16: warning: 'ReportW' may be used uninitialized in this function [-Wmaybe-uninitialized] #define Select Nlm_Select ^ ingenwin.c:955:22: note: 'ReportW' was declared here WindoW ReportW; ^ ingenwin.c: In function 'Ing_PolyAProc': ingenwin.c:946:6: warning: 'ans' may be used uninitialized in this function [-Wmaybe-uninitialized] if (ans == ANS_NO) ^ In file included from ../include/vibrant.h:130:0, from ../include/dlogutil.h:48, from ../include/import.h:48, from ../include/ingenwin.h:64, from ingenwin.c:45: ../include/vibdefns.h:446:16: warning: 'ReportW' may be used uninitialized in this function [-Wmaybe-uninitialized] #define Select Nlm_Select ^ ingenwin.c:904:22: note: 'ReportW' was declared here WindoW ReportW; ^ ingenwin.c: In function 'Ing_CpGProc': ingenwin.c:895:6: warning: 'ans' may be used uninitialized in this function [-Wmaybe-uninitialized] if (ans == ANS_NO) ^ In file included from ../include/vibrant.h:130:0, from ../include/dlogutil.h:48, from ../include/import.h:48, from ../include/ingenwin.h:64, from ingenwin.c:45: ../include/vibdefns.h:446:16: warning: 'ReportW' may be used uninitialized in this function [-Wmaybe-uninitialized] #define Select Nlm_Select ^ ingenwin.c:857:22: note: 'ReportW' was declared here WindoW ReportW; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF macrodlg.c macrodlg.c: In function 'CloseMacroEditorWindowProc': macrodlg.c:99:11: warning: unused variable 'do_remove' [-Wunused-variable] Boolean do_remove = FALSE; ^ macrodlg.c: In function 'ExistingTextDialog': macrodlg.c:1908:22: warning: variable 'ppt' set but not used [-Wunused-but-set-variable] PrompT ppt; ^ macrodlg.c: In function 'SourceQualChoiceDialog': macrodlg.c:3725:48: warning: variable 'b4' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3 = NULL, b4 = NULL; ^ macrodlg.c:3725:37: warning: variable 'b3' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3 = NULL, b4 = NULL; ^ macrodlg.c:3725:33: warning: variable 'b2' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3 = NULL, b4 = NULL; ^ macrodlg.c:3725:29: warning: variable 'b1' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3 = NULL, b4 = NULL; ^ macrodlg.c: In function 'SourceConstraintDialog': macrodlg.c:3963:37: warning: variable 'b3' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3; ^ macrodlg.c:3963:33: warning: variable 'b2' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3; ^ macrodlg.c:3963:29: warning: variable 'b1' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3; ^ macrodlg.c: In function 'CDSGeneProtQualConstraintDialog': macrodlg.c:4277:37: warning: variable 'b3' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3; ^ macrodlg.c:4277:33: warning: variable 'b2' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3; ^ macrodlg.c:4277:29: warning: variable 'b1' set but not used [-Wunused-but-set-variable] ButtoN b1, b2, b3; ^ macrodlg.c: In function 'FeatureFieldTypeFromComplexConstraintType': macrodlg.c:10273:3: warning: enumeration value 'eComplexConstraintType_seqid' not handled in switch [-Wswitch] switch (constraint_type) { ^ macrodlg.c:10273:3: warning: enumeration value 'eComplexConstraintType_string' not handled in switch [-Wswitch] macrodlg.c:10273:3: warning: enumeration value 'eComplexConstraintType_loc' not handled in switch [-Wswitch] macrodlg.c: In function 'TestApplyActionDialog': macrodlg.c:12680:8: warning: variable 'field_type' set but not used [-Wunused-but-set-variable] Int2 field_type = 0; ^ macrodlg.c: In function 'TestEditActionDialog': macrodlg.c:12854:8: warning: variable 'field_type' set but not used [-Wunused-but-set-variable] Int2 field_type = 0; ^ macrodlg.c: In function 'TestRemoveOutsideActionDialog': macrodlg.c:13012:8: warning: variable 'field_type' set but not used [-Wunused-but-set-variable] Int2 field_type = 0; ^ macrodlg.c: In function 'AddMacroActions': macrodlg.c:19633:25: warning: variable 'rval' set but not used [-Wunused-but-set-variable] Boolean rval = FALSE; ^ macrodlg.c: In function 'PointerToSampleDialog': macrodlg.c:19769:19: warning: variable 'max_char_per_line' set but not used [-Wunused-but-set-variable] Int4 max_char_per_line; ^ macrodlg.c: In function 'SampleDialogCopy': macrodlg.c:19889:53: warning: variable 'last_col' set but not used [-Wunused-but-set-variable] Int2 start_col = 0, end_col = 0, first_col, last_col; ^ macrodlg.c:19889:42: warning: variable 'first_col' set but not used [-Wunused-but-set-variable] Int2 start_col = 0, end_col = 0, first_col, last_col; ^ macrodlg.c: In function 'SingleMacroAcceptButton': macrodlg.c:21177:33: warning: variable 'num_features' set but not used [-Wunused-but-set-variable] Int4 num_fields, num_features; ^ macrodlg.c:21177:21: warning: variable 'num_fields' set but not used [-Wunused-but-set-variable] Int4 num_fields, num_features; ^ macrodlg.c: In function 'LaunchMacroTemplateEditor': macrodlg.c:22877:23: warning: variable 'bfp' set but not used [-Wunused-but-set-variable] BaseFormPtr bfp; ^ macrodlg.c: At top level: macrodlg.c:9778:15: warning: 'LocOrStringConstraintDialog' defined but not used [-Wunused-function] static DialoG LocOrStringConstraintDialog (GrouP h, Nlm_ChangeNotifyProc change_notify, Pointer change_userdata) ^ macrodlg.c: In function 'ApplyProductUpdateTableBtn': macrodlg.c:26278:7: warning: 'lip' may be used uninitialized in this function [-Wmaybe-uninitialized] FreeLog (lip); ^ macrodlg.c: In function 'RemoveSequencesActionDialog': macrodlg.c:6490:15: warning: 'p' may be used uninitialized in this function [-Wmaybe-uninitialized] dlg->dialog = (DialoG) p; ^ macrodlg.c: In function 'ActionToSingleMacroActionForm': macrodlg.c:21322:25: warning: 'val' may be used uninitialized in this function [-Wmaybe-uninitialized] Int2 val, i; ^ In file included from ../include/vibrant.h:130:0, from ../include/vibforms.h:46, from macrodlg.c:48: macrodlg.c: In function 'BuildEditMacroActionWindow': ../include/vibdefns.h:505:22: warning: 'indexer_only_group' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AlignObjects Nlm_AlignObjects ^ macrodlg.c:14910:47: note: 'indexer_only_group' was declared here GrouP p, g, parts_group, x, indexer_only_group; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF biosrc.c biosrc.c: In function 'CreateBioSourceDialog': biosrc.c:3506:18: warning: variable 'y' set but not used [-Wunused-but-set-variable] PrompT y; ^ biosrc.c: At top level: biosrc.c:2459:13: warning: 'OrgModPtrToOrgmodDialog' defined but not used [-Wunused-function] static void OrgModPtrToOrgmodDialog (DialoG d, Pointer data) ^ biosrc.c:2508:16: warning: 'OrgmodDialogToOrgModPtr' defined but not used [-Wunused-function] static Pointer OrgmodDialogToOrgModPtr (DialoG d) ^ biosrc.c:2568:13: warning: 'SubSourcePtrToSubsourceDialog' defined but not used [-Wunused-function] static void SubSourcePtrToSubsourceDialog (DialoG d, Pointer data) ^ biosrc.c:2991:16: warning: 'SubsourceDialogToSubSourcePtr' defined but not used [-Wunused-function] static Pointer SubsourceDialogToSubSourcePtr (DialoG d) ^ biosrc.c:3182:26: warning: 'EnumListFromQualNameAssoc' defined but not used [-Wunused-function] static EnumFieldAssocPtr EnumListFromQualNameAssoc (Nlm_QualNameAssocPtr qp) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF cdrgn.c cdrgn.c: In function 'ProductToSeqLocPtr': cdrgn.c:1318:19: warning: variable 'rfp' set but not used [-Wunused-but-set-variable] RnaFormPtr rfp = NULL; ^ cdrgn.c: In function 'CreateCodeBreakAlist': cdrgn.c:1951:20: warning: variable 'first' set but not used [-Wunused-but-set-variable] Uint1 first; ^ cdrgn.c: In function 'CodeBreakPtrToCodeBreakDialog': cdrgn.c:2002:19: warning: variable 'aa' set but not used [-Wunused-but-set-variable] Uint1 aa; ^ cdrgn.c: In function 'PopulateAAPopup': cdrgn.c:7044:20: warning: variable 'first' set but not used [-Wunused-but-set-variable] Uint1 first; ^ cdrgn.c: At top level: cdrgn.c:2174:13: warning: 'AccessionToGi' defined but not used [-Wunused-function] static Int4 AccessionToGi (CharPtr string) ^ cdrgn.c:6253:14: warning: 'check_rna_type' defined but not used [-Wunused-function] static Uint1 check_rna_type (Uint1 type) ^ cdrgn.c:6330:15: warning: 'CreateMrnaUserObjectDialog' defined but not used [-Wunused-function] static DialoG CreateMrnaUserObjectDialog (GrouP h, CharPtr label, SeqEntryPtr sep, BaseFormPtr bfp) ^ cdrgn.c:6773:18: warning: 'FindOrAddQual' defined but not used [-Wunused-function] static GBQualPtr FindOrAddQual (SeqFeatPtr sfp, CharPtr qual_name) ^ cdrgn.c:6792:13: warning: 'RemoveQualByName' defined but not used [-Wunused-function] static void RemoveQualByName (SeqFeatPtr sfp, CharPtr qual_name) ^ cdrgn.c:6854:13: warning: 'ConvertRnaRefNameToProductQual' defined but not used [-Wunused-function] static void ConvertRnaRefNameToProductQual (SeqFeatPtr sfp) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF import.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF pubdesc.c pubdesc.c: In function 'SetPubdescImportExportItems': pubdesc.c:2859:37: warning: comparison between pointer and integer &&& pfp->currentPage == 1) { ^ pubdesc.c: In function 'MakeReplaceAuthorsForm': pubdesc.c:4289:24: warning: variable 'pepp' set but not used [-Wunused-but-set-variable] PubdescEditProcsPtr pepp; ^ pubdesc.c: In function 'DisplayDocSum': pubdesc.c:4851:9: warning: variable 'lineheight' set but not used [-Wunused-but-set-variable] Int2 lineheight; ^ pubdesc.c: At top level: pubdesc.c:5363:13: warning: 'Quit' defined but not used [-Wunused-function] static void Quit (ButtoN b) ^ pubdesc.c:5099:14: warning: 'AddAll' defined but not used [-Wunused-function] static void AddAll(Entrez2RequestPtr e2rp, CharPtr term, Boolean is_1st) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF seqsub.c seqsub.c: In function 'SeqSubmitFromTemplateEditor': seqsub.c:3250:20: warning: variable 'omdp' set but not used [-Wunused-but-set-variable] ObjMgrDataPtr omdp; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF mapgene.c mapgene.c: In function 'load_new_align': mapgene.c:79:17: warning: variable 'match_slp' set but not used [-Wunused-but-set-variable] SeqLocPtr slp, match_slp, t_slp; ^ mapgene.c: In function 'figure_loc_by_position': mapgene.c:1039:20: warning: variable 'center' set but not used [-Wunused-but-set-variable] Int4 start, stop, center; ^ mapgene.c: In function 'cvt_loc_for_single_gene': mapgene.c:1958:29: warning: variable 'p_align_offset' set but not used [-Wunused-but-set-variable] Int4 offset, align_offset, p_align_offset; ^ mapgene.c:1957:7: warning: unused variable 'shift' [-Wunused-variable] Int4 shift = 0; ^ mapgene.c: In function 'print_header_for_center': mapgene.c:2693:10: warning: variable 'link' set but not used [-Wunused-but-set-variable] CharPtr link; ^ mapgene.c: In function 'PrintGeneticMarkerForOneMap': mapgene.c:3635:10: warning: variable 'link' set but not used [-Wunused-but-set-variable] CharPtr link; ^ mapgene.c: At top level: mapgene.c:27:13: warning: 'print_this_id' defined but not used [-Wunused-function] static void print_this_id (SeqIdPtr sip) ^ mapgene.c:200:13: warning: 'get_center_pointer' defined but not used [-Wunused-function] static Int4 get_center_pointer(SeqLocPtr slp) ^ mapgene.c:1280:13: warning: 'change_anchor_to_front' defined but not used [-Wunused-function] static void change_anchor_to_front(ValNodePtr msp_list, SeqIdPtr anchor_id) ^ mapgene.c:1748:16: warning: 'merge_slp_list' defined but not used [-Wunused-function] static Boolean merge_slp_list(ValNodePtr PNTR gene_slp_list, ValNodePtr slp_list) ^ mapgene.c:1788:13: warning: 'adjust_slp_list' defined but not used [-Wunused-function] static void adjust_slp_list(ValNodePtr slp_list) ^ mapgene.c:3207:16: warning: 'convert_center_name_to_gifname' defined but not used [-Wunused-function] static Boolean convert_center_name_to_gifname (CharPtr center_name, CharPtr gif_name) ^ mapgene.c: In function 'PrintContigForOneMap': mapgene.c:3152:7: warning: 'yac_num' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 yac_num; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF prtgene.c prtgene.c: In function 'print_store_for_html': prtgene.c:749:7: warning: variable 'white_sp' set but not used [-Wunused-but-set-variable] Char white_sp; ^ rm -f libncbidesk.a ar cru libncbidesk.a drawseq.o dotmatrx.o fea2seg.o fstyle.o smdlg1.o smdlg2.o smdlg3.o smtools.o styleman.o stylemui.o glbpic.o layout.o saldist.o saled.o salfiles.o salpanel.o salparam.o salsa.o seqfltr.o seqgraph.o seqgrphx.o seqmtrx.o seqpcc.o seqanal.o aacomp.o seqscrl.o valdlg.o vsm.o vsmfile.o vsmutil.o udvgraph.o udvopen.o udvpanel.o dotvibrant.o dlgutil1.o dlgutil2.o e2trmlst.o e2docsum.o asn2graphic.o medview.o bspview.o gbfview.o gphview.o gphdraw.o gxydraw.o gtrdraw.o seqpanel.o ingengraph.o ingenext.o ingenwin.o macrodlg.o biosrc.o cdrgn.o import.o pubdesc.o seqsub.o mapgene.o prtgene.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libncbidesk.a ../lib ranlib ../lib/libncbidesk.a gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ddvclick.c ddvclick.c: In function 'DDV_SendBSPSelectMsg_OLD': ddvclick.c:979:13: warning: variable 'bDeselectAll' set but not used [-Wunused-but-set-variable] Boolean bDeselectAll=TRUE; ^ ddvclick.c: In function 'DDV_SendBSPSelectMsg': ddvclick.c:1090:18: warning: variable 'bDeselectAll' set but not used [-Wunused-but-set-variable] Boolean bDeselectAll=TRUE; ^ ddvclick.c: In function 'DDV_DragProc': ddvclick.c:2013:13: warning: unused variable 'cur_pgp' [-Wunused-variable] ParaGPtr cur_pgp=NULL; ^ ddvclick.c: In function 'DDV_HoldProc': ddvclick.c:2494:13: warning: unused variable 'Scroll' [-Wunused-variable] Boolean Scroll=FALSE; ^ ddvclick.c:2490:13: warning: unused variable 'cur_pgp' [-Wunused-variable] ParaGPtr cur_pgp=NULL; ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ../include/ddvmain.h:202, from ../include/ddvpanel.h:150, from ddvclick.c:252: ddvclick.c: At top level: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ../include/ddvmain.h:202, from ../include/ddvpanel.h:150, from ddvclick.c:252: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ../include/ddvmain.h:202, from ../include/ddvpanel.h:150, from ddvclick.c:252: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ../include/ddvmain.h:202, from ../include/ddvpanel.h:150, from ddvclick.c:252: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ ddvclick.c:1823:13: warning: 'EraseOutline' defined but not used [-Wunused-function] static void EraseOutline(PaneL p) { ^ ddvclick.c:1811:16: warning: 'RectanglesAreSame' defined but not used [-Wunused-function] static Boolean RectanglesAreSame(RecT rc1, RecT rc2) { ^ ddvclick.c:611:13: warning: 'DDV_GetSeqAlignCoordGivenCol' defined but not used [-Wunused-function] static Int4 DDV_GetSeqAlignCoordGivenCol(DdvMainPtr dmp, Int4 Disp_coord) { ^ ddvclick.c:970:13: warning: 'DDV_SendBSPSelectMsg_OLD' defined but not used [-Wunused-function] static void DDV_SendBSPSelectMsg_OLD(DdvMainPtr dmp,Int4 bsp_coord,Int4 SeqAlign_coord, ^ ddvclick.c: In function 'DDV_GetSeqNameGivenRow': ddvclick.c:956:6: warning: 'sip' may be used uninitialized in this function [-Wmaybe-uninitialized] if (!sip) ^ ddvclick.c: In function 'DDV_ReleaseProc': ddvclick.c:1127:9: warning: 'pgp' may be used uninitialized in this function [-Wmaybe-uninitialized] slp = SeqLocIntNew (bsp_coord_start, bsp_coord_stop, direction, pgp->sip); ^ ddvclick.c:1091:18: note: 'pgp' was declared here ParaGPtr pgp; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ddvgraph.c ddvgraph.c: In function 'DDV_DrawSequence': ddvgraph.c:701:31: warning: unused variable 'pos' [-Wunused-variable] Int2 decal=1,i,x,y,pos=0; ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ../include/ddvmain.h:202, from ddvgraph.c:215: ddvgraph.c: At top level: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ../include/ddvmain.h:202, from ddvgraph.c:215: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ../include/ddvmain.h:202, from ddvgraph.c:215: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ../include/ddvmain.h:202, from ddvgraph.c:215: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ddvopen.c ddvopen.c: In function 'DDV_GetAndCheckSeqAlign': ddvopen.c:1739:8: warning: variable 'nRet' set but not used [-Wunused-but-set-variable] Uint2 nRet=DVV_MSG_M_OK; ^ ddvopen.c: In function 'DDV_FOpenAcceptProc': ddvopen.c:1932:11: warning: variable 'nRet' set but not used [-Wunused-but-set-variable] Uint2 nRet=DVV_MSG_M_OK,The_entityID; ^ ddvopen.c: In function 'DDV_NetOpen_okProc': ddvopen.c:2141:8: warning: variable 'AccessType' set but not used [-Wunused-but-set-variable] Int2 AccessType,procval; ^ ddvopen.c: In function 'DDV_ImportBioseqDlg': ddvopen.c:2819:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ ddvopen.c: In function 'DDV_HideDlg': ddvopen.c:3135:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ In file included from ../include/sqnutils.h:51:0, from ../include/udviewer.h:219, from ddvopen.c:376: ddvopen.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/samutil.h:234:0, from ../include/udviewer.h:228, from ddvopen.c:376: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ddvopen.c:377: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ddvopen.c:377: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ddvopen.c:377: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ddvopen.c:377: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ ddvopen.c:1272:13: warning: 'DDV_Convert' defined but not used [-Wunused-function] static void DDV_Convert(ButtoN g) { ^ ddvopen.c:1285:13: warning: 'DDV_NoConvert' defined but not used [-Wunused-function] static void DDV_NoConvert(ButtoN g) { ^ ddvopen.c:2111:16: warning: 'DDV_IsInt' defined but not used [-Wunused-function] static Boolean DDV_IsInt(CharPtr szAccess) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ddvpanel.c ddvpanel.c: In function 'DDV_CreateViewerPanel': ddvpanel.c:1177:8: warning: variable 'cxChar' set but not used [-Wunused-but-set-variable] Int2 cxChar,cyChar; ^ ddvpanel.c: In function 'DDV_DispStyles_OkProc': ddvpanel.c:1543:21: warning: unused variable 'szBuf' [-Wunused-variable] Char szBuf[15]={""}; ^ ddvpanel.c: In function 'DDV_ExportTexte': ddvpanel.c:2799:40: warning: variable 'browse' set but not used [-Wunused-but-set-variable] ButtoN chk2,chk3,chk4,chk5,chk6,browse,ok; ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ../include/ddvmain.h:202, from ../include/ddvpanel.h:150, from ddvpanel.c:392: ddvpanel.c: At top level: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ../include/ddvmain.h:202, from ../include/ddvpanel.h:150, from ddvpanel.c:392: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ../include/ddvmain.h:202, from ../include/ddvpanel.h:150, from ddvpanel.c:392: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/ddvopen.h:140, from ../include/ddvmain.h:202, from ../include/ddvpanel.h:150, from ddvpanel.c:392: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ ddvpanel.c:3024:13: warning: 'DDV_DeleteRow' defined but not used [-Wunused-function] static void DDV_DeleteRow(IteM i) ^ ddvpanel.c:3266:13: warning: 'DDV_MoveRowLeft' defined but not used [-Wunused-function] static void DDV_MoveRowLeft(IteM i) ^ ddvpanel.c:3272:13: warning: 'DDV_MoveRowRight' defined but not used [-Wunused-function] static void DDV_MoveRowRight(IteM i) ^ ddvpanel.c:3278:13: warning: 'DDV_MoveLeftBoundaryLeft' defined but not used [-Wunused-function] static void DDV_MoveLeftBoundaryLeft(IteM i) ^ ddvpanel.c:3284:13: warning: 'DDV_MoveLeftBoundaryRight' defined but not used [-Wunused-function] static void DDV_MoveLeftBoundaryRight(IteM i) ^ ddvpanel.c:3290:13: warning: 'DDV_MoveRightBoundaryLeft' defined but not used [-Wunused-function] static void DDV_MoveRightBoundaryLeft(IteM i) ^ ddvpanel.c:3296:13: warning: 'DDV_MoveRightBoundaryRight' defined but not used [-Wunused-function] static void DDV_MoveRightBoundaryRight(IteM i) ^ ddvpanel.c:3377:13: warning: 'write_annot' defined but not used [-Wunused-function] static void write_annot(SeqAlignPtr align) ^ ddvpanel.c: In function 'DDVExportTexteOkProc': ddvpanel.c:2647:5: warning: 'bPrintGap' may be used uninitialized in this function [-Wmaybe-uninitialized] DDV_DumpSAPInFastaFile(&(dmp->MSA_d.pgp_l),&dob, hFile,bPrintGap); ^ ddvpanel.c: In function 'DDV_SortPGPLineNum': ddvpanel.c:2441:9: warning: 'pgp' may be used uninitialized in this function [-Wmaybe-uninitialized] n+=pgp->nLines; ^ rm -f libddvlib.a ar cru libddvlib.a ddvclick.o ddvgraph.o ddvopen.o ddvpanel.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libddvlib.a ../lib ranlib ../lib/libddvlib.a gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF corematx.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF dvncode.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objmmdb1.c objmmdb1.c: In function 'BiostrucAsnRead': objmmdb1.c:90:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c: In function 'BiostrucIdFree': objmmdb1.c:323:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb1.c: In function 'BiostrucIdAsnRead': objmmdb1.c:358:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'BiostrucSetAsnRead': objmmdb1.c:547:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c: In function 'BiostrucAnnotSetAsnRead': objmmdb1.c:716:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c: In function 'BiostrucResidueGraphSetAsnRead': objmmdb1.c:885:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c: In function 'BiostrucDescrFree': objmmdb1.c:1015:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb1.c: In function 'BiostrucDescrAsnRead': objmmdb1.c:1059:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'BiostrucHistoryAsnRead': objmmdb1.c:1270:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c:1269:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'BiostrucReplaceAsnRead': objmmdb1.c:1450:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c:1449:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'VersionOfDatabase_version_of_databaseFree': objmmdb1.c:1618:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb1.c: In function 'BiostrucSourceAsnRead': objmmdb1.c:1652:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c: In function 'VersionOfDatabase_version_of_databaseAsnRead': objmmdb1.c:1753:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'BiostrucGraphAsnRead': objmmdb1.c:2000:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c: In function 'BiomolDescrFree': objmmdb1.c:2138:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb1.c: In function 'BiomolDescrAsnRead': objmmdb1.c:2188:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'ResidueGraphAsnRead': objmmdb1.c:2445:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c: In function 'MoleculeGraphAsnRead': objmmdb1.c:2652:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c: In function 'InterResidueBondAsnRead': objmmdb1.c:2853:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c:2852:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'ResidueAsnRead': objmmdb1.c:3033:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c:3032:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'ResidueGraphPntrFree': objmmdb1.c:3172:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb1.c: In function 'ResidueGraphPntrAsnRead': objmmdb1.c:3207:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'BiostrucGraphPntrAsnRead': objmmdb1.c:3394:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c:3393:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'BiostrucResidueGraphSetPntrAsnRead': objmmdb1.c:3559:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c:3558:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'AtomAsnRead': objmmdb1.c:3725:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c: In function 'IntraResidueBondAsnRead': objmmdb1.c:3916:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c:3915:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'ChiralCenterAsnRead': objmmdb1.c:4088:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c:4087:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'AtomPntrAsnRead': objmmdb1.c:4276:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb1.c:4275:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb1.c: In function 'AtomPntrSetAsnRead': objmmdb1.c:4430:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ In file included from ../include/strimprt.h:73:0, from objmmdb1.c:5: objmmdb1.c: At top level: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from objmmdb1.c:5: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ objmmdb1.c: In function 'BiostrucDescrAsnRead': objmmdb1.c:1126:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb1.c: In function 'BiomolDescrAsnRead': objmmdb1.c:2283:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objmmdb2.c objmmdb2.c: In function 'BiostrucModelAsnRead': objmmdb2.c:88:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'ModelDescrFree': objmmdb2.c:241:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb2.c: In function 'ModelDescrAsnRead': objmmdb2.c:288:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb2.c: In function 'ModelSpaceAsnRead': objmmdb2.c:511:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c:510:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb2.c: In function 'Coordinates_coordinatesFree': objmmdb2.c:707:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb2.c: In function 'ModelCoordinateSetAsnRead': objmmdb2.c:741:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'Coordinates_coordinatesAsnRead': objmmdb2.c:829:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb2.c: In function 'ReferenceFrameAsnRead': objmmdb2.c:1060:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c:1059:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb2.c: In function 'CoordinatesFree': objmmdb2.c:1190:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb2.c: In function 'CoordinatesAsnRead': objmmdb2.c:1228:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb2.c: In function 'AtomicCoordinatesAsnRead': objmmdb2.c:1417:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'Surface_surfaceFree': objmmdb2.c:1636:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb2.c: In function 'SurfaceCoordinatesAsnRead': objmmdb2.c:1682:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c:1681:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb2.c: In function 'Surface_surfaceAsnRead': objmmdb2.c:1762:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb2.c: In function 'DensityCoordinatesAsnRead': objmmdb2.c:2026:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'ModelSpacePointsAsnRead': objmmdb2.c:2258:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'AtomicTemperatureFactorsFree': objmmdb2.c:2398:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb2.c: In function 'AtomicTemperatureFactorsAsnRead': objmmdb2.c:2433:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmmdb2.c: In function 'AtomicOccupanciesAsnRead': objmmdb2.c:2609:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'AlternateConformationIdsAsnRead': objmmdb2.c:2753:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'ConformationEnsembleAsnRead': objmmdb2.c:2883:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'IsotropicTemperatureFactorsAsnRead': objmmdb2.c:3046:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'AnisotropicTemperatureFactorsAsnRead': objmmdb2.c:3212:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'TMeshAsnRead': objmmdb2.c:3416:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb2.c: In function 'TrianglesAsnRead': objmmdb2.c:3615:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ In file included from ../include/strimprt.h:72:0, from objmmdb2.c:5: objmmdb2.c: At top level: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from objmmdb2.c:5: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from objmmdb2.c:5: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ objmmdb2.c: In function 'ModelDescrAsnRead': objmmdb2.c:365:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb2.c: In function 'CoordinatesAsnRead': objmmdb2.c:1278:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb2.c: In function 'AtomicTemperatureFactorsAsnRead': objmmdb2.c:2479:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb2.c: In function 'ModelCoordinateSetAsnRead': objmmdb2.c:875:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb2.c:828:10: note: 'choice' was declared here Uint1 choice; ^ objmmdb2.c: In function 'SurfaceCoordinatesAsnRead': objmmdb2.c:1824:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb2.c:1761:10: note: 'choice' was declared here Uint1 choice; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objmmdb3.c objmmdb3.c: In function 'BiostrucFeatureSetAsnRead': objmmdb3.c:87:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'ChemGraphPntrsFree': objmmdb3.c:219:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb3.c: In function 'AtomPntrsAsnRead': objmmdb3.c:442:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'ChemGraphAlignmentAsnRead': objmmdb3.c:624:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'ChemGraphInteractionAsnRead': objmmdb3.c:821:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'SphereAsnRead': objmmdb3.c:1020:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'ConeAsnRead': objmmdb3.c:1188:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'CylinderAsnRead': objmmdb3.c:1368:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'BrickAsnRead': objmmdb3.c:1553:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'TransformAsnRead': objmmdb3.c:1792:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'BiostrucFeatureSetDescrFree': objmmdb3.c:1916:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb3.c: In function 'Location_locationFree': objmmdb3.c:2156:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb3.c: In function 'BiostrucFeatureAsnRead': objmmdb3.c:2201:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'Property_propertyFree': objmmdb3.c:2716:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb3.c: In function 'ColorPropAsnRead': objmmdb3.c:2792:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'CameraAsnRead': objmmdb3.c:2979:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'BiostrucScriptAsnRead': objmmdb3.c:3163:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'RegionPntrsAsnRead': objmmdb3.c:3322:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'RegionSimilarityAsnRead': objmmdb3.c:3639:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'OtherFeatureAsnRead': objmmdb3.c:3815:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'BiostrucMoleculePntrAsnRead': objmmdb3.c:3988:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'MoleculePntrsAsnRead': objmmdb3.c:4330:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'ResidueExplicitPntrsAsnRead': objmmdb3.c:4492:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'ResidueIntervalPntrAsnRead': objmmdb3.c:4659:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'RegionCoordinatesAsnRead': objmmdb3.c:4830:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'RegionBoundaryFree': objmmdb3.c:4965:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb3.c: In function 'AlignStatsAsnRead': objmmdb3.c:5196:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'RealValueAsnRead': objmmdb3.c:5437:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'ModelSpacePointAsnRead': objmmdb3.c:5597:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'MoveFree': objmmdb3.c:5740:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmmdb3.c: In function 'RotMatrixAsnRead': objmmdb3.c:5948:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'TransMatrixAsnRead': objmmdb3.c:6180:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'GLMatrixAsnRead': objmmdb3.c:6358:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmmdb3.c: In function 'BiostrucScriptStepAsnRead': objmmdb3.c:6658:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ In file included from ../include/strimprt.h:72:0, from objmmdb3.c:5: objmmdb3.c: At top level: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from objmmdb3.c:5: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from objmmdb3.c:5: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ objmmdb3.c: In function 'ChemGraphPntrsAsnRead': objmmdb3.c:306:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb3.c: In function 'BiostrucFeatureSetDescrAsnRead': objmmdb3.c:2019:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb3.c: In function 'RegionBoundaryAsnRead': objmmdb3.c:5059:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb3.c: In function 'MoveAsnRead': objmmdb3.c:5820:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb3.c: In function 'RegionPntrsAsnRead': objmmdb3.c:3456:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb3.c:3401:10: note: 'choice' was declared here Uint1 choice; ^ objmmdb3.c: In function 'BiostrucFeatureAsnRead': objmmdb3.c:2365:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmmdb3.c:2303:10: note: 'choice' was declared here Uint1 choice; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objcn3d.c objcn3d.c: In function 'Cn3dStyleDictionaryAsnRead': objcn3d.c:87:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c: In function 'Cn3dUserAnnotationsAsnRead': objcn3d.c:251:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c: In function 'Cn3dColorAsnRead': objcn3d.c:415:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c:414:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcn3d.c: In function 'Cn3dBackboneStyleAsnRead': objcn3d.c:604:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c:603:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcn3d.c: In function 'Cn3dGeneralStyleAsnRead': objcn3d.c:787:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c:786:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcn3d.c: In function 'Cn3dBackboneLabelStyleAsnRead': objcn3d.c:969:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c:968:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcn3d.c: In function 'Cn3dStyleSettingsAsnRead': objcn3d.c:1171:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c:1170:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcn3d.c: In function 'Cn3dStyleSettingsSetAsnRead': objcn3d.c:1573:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c: In function 'Cn3dStyleTableItemAsnRead': objcn3d.c:1702:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c:1701:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcn3d.c: In function 'Cn3dResidueRangeAsnRead': objcn3d.c:1866:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c:1865:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcn3d.c: In function 'Cn3dMoleculeLocationAsnRead': objcn3d.c:2028:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c: In function 'Cn3dObjectLocationAsnRead': objcn3d.c:2190:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c: In function 'Cn3dUserAnnotationAsnRead': objcn3d.c:2355:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c: In function 'Cn3dGLMatrixAsnRead': objcn3d.c:2546:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c:2545:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcn3d.c: In function 'Cn3dVectorAsnRead': objcn3d.c:2833:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c:2832:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcn3d.c: In function 'Cn3dViewSettingsAsnRead': objcn3d.c:3005:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcn3d.c:3004:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ In file included from ../include/mapcn3d.h:8:0, from objcn3d.c:5: objcn3d.c: At top level: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/mapcn3d.h:8:0, from objcn3d.c:5: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF mmdbapi.c mmdbapi.c: In function 'MakeAModelstruc': mmdbapi.c:192:11: warning: unused variable 'iCount' [-Wunused-variable] Int4 iCount = 0; ^ mmdbapi.c:189:11: warning: unused variable 'pdnmsCount' [-Wunused-variable] PDNMS pdnmsCount = NULL; ^ mmdbapi.c: In function 'AddPFBSelect': mmdbapi.c:532:11: warning: unused variable 'pmsdStruc' [-Wunused-variable] PMSD pmsdStruc = NULL; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF mmdbapi1.c mmdbapi1.c: In function 'FreeAtomicModelAsnLists': mmdbapi1.c:1037:21: warning: unused variable 'pcoThis' [-Wunused-variable] CoordinatesPtr pcoThis = NULL; ^ mmdbapi1.c: In function 'FetchBS': mmdbapi1.c:1242:13: warning: unused variable 'bIsNetwork' [-Wunused-variable] Boolean bIsNetwork = FALSE; ^ mmdbapi1.c: In function 'FreeSurfaceModelAsnList': mmdbapi1.c:1627:16: warning: variable 'pvnX' set but not used [-Wunused-but-set-variable] ValNodePtr pvnX = NULL; ^ mmdbapi1.c: In function 'MakeChemGraphNodeList': mmdbapi1.c:2343:16: warning: variable 'pvnThis' set but not used [-Wunused-but-set-variable] ValNodePtr pvnThis = NULL; ^ mmdbapi1.c: In function 'DoApplyTransform': mmdbapi1.c:2573:8: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ mmdbapi1.c: In function 'DoReverseTransform': mmdbapi1.c:2713:8: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ mmdbapi1.c: In function 'InstBSAnnotSet': mmdbapi1.c:2860:8: warning: unused variable 'psfsThis' [-Wunused-variable] PSFS psfsThis = NULL; ^ mmdbapi1.c:2859:22: warning: unused variable 'pbsfThis' [-Wunused-variable] BiostrucFeaturePtr pbsfThis = NULL; ^ mmdbapi1.c:2855:9: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ mmdbapi1.c: In function 'BiosToSeq': mmdbapi1.c:2978:19: warning: unused variable 'loc1' [-Wunused-variable] ValNodePtr loc1 = NULL; ^ mmdbapi1.c:2967:22: warning: unused variable 'pbsf' [-Wunused-variable] BiostrucFeaturePtr pbsf=NULL; ^ mmdbapi1.c: In function 'fnPBSFtoPSA': mmdbapi1.c:3174:19: warning: unused variable 'loc1' [-Wunused-variable] ValNodePtr loc1 = NULL; ^ mmdbapi1.c: In function 'BiostrToSeqAnnotSet': mmdbapi1.c:3408:19: warning: unused variable 'loc1' [-Wunused-variable] ValNodePtr loc1 = NULL; ^ mmdbapi1.c:3397:22: warning: unused variable 'pbsf' [-Wunused-variable] BiostrucFeaturePtr pbsf=NULL; ^ mmdbapi1.c: In function 'InstallAlignedSlave': mmdbapi1.c:3877:9: warning: variable 'iTest' set but not used [-Wunused-but-set-variable] Int2 iTest; ^ mmdbapi1.c:3874:9: warning: unused variable 'psfsThis' [-Wunused-variable] PSFS psfsThis = NULL; ^ mmdbapi1.c: In function 'BiostrucAddFeature': mmdbapi1.c:4184:11: warning: variable 'ncbiVast' set but not used [-Wunused-but-set-variable] Boolean ncbiVast = FALSE; ^ mmdbapi1.c:4182:11: warning: variable 'pdbFootnote' set but not used [-Wunused-but-set-variable] Boolean pdbFootnote = FALSE; ^ mmdbapi1.c:4181:11: warning: variable 'pdbSite' set but not used [-Wunused-but-set-variable] Boolean pdbSite = FALSE; ^ mmdbapi1.c:4172:15: warning: unused variable 'pdvnThis' [-Wunused-variable] DValNodePtr pdvnThis = NULL; ^ mmdbapi1.c: In function 'BiostrucAsnGet': mmdbapi1.c:5289:18: warning: variable 'aop' set but not used [-Wunused-but-set-variable] AsnOptionPtr aop; ^ mmdbapi1.c: In function 'BiosToSeq': mmdbapi1.c:3127:20: warning: 'slavesip' may be used uninitialized in this function [-Wmaybe-uninitialized] dsp->ids->next = slavesip; ^ mmdbapi1.c: In function 'BiostrToSeqAnnotSet': mmdbapi1.c:3559:20: warning: 'slavesip' may be used uninitialized in this function [-Wmaybe-uninitialized] dsp->ids->next = slavesip; ^ mmdbapi1.c: In function 'InstBSAnnotSet': mmdbapi1.c:2885:13: warning: 'iMMDBId' may be used uninitialized in this function [-Wmaybe-uninitialized] pdnmsThis = FindLoadedBiostruc(NULL, iMMDBId); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF mmdbapi2.c mmdbapi2.c: In function 'GetAtomLocs': mmdbapi2.c:1471:9: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (pmadThis) ^ mmdbapi2.c: In function 'AssignAtomLocId': mmdbapi2.c:1537:10: warning: variable 'iTest' set but not used [-Wunused-but-set-variable] Int2 iTest = 0; ^ mmdbapi2.c: In function 'AssignBackBone': mmdbapi2.c:1686:10: warning: variable 'iTest' set but not used [-Wunused-but-set-variable] Int2 iTest = 0; ^ mmdbapi2.c: In function 'AssignVirtual': mmdbapi2.c:1790:10: warning: variable 'iTest' set but not used [-Wunused-but-set-variable] Int2 iTest = 0; ^ mmdbapi2.c: In function 'AssignIons': mmdbapi2.c:1846:10: warning: variable 'iTest' set but not used [-Wunused-but-set-variable] Int2 iTest = 0; ^ mmdbapi2.c: In function 'MolFromPDBChain': mmdbapi2.c:1931:10: warning: variable 'iTest' set but not used [-Wunused-but-set-variable] Int2 iTest; ^ mmdbapi2.c: In function 'SeqStringFromMol': mmdbapi2.c:1948:9: warning: unused variable 'iTest' [-Wunused-variable] Int4 iTest =0; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF mmdbapi3.c mmdbapi3.c: In function 'WritePDBHeader': mmdbapi3.c:840:7: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if(org) ^ mmdbapi3.c: In function 'WritePDBRemarks': mmdbapi3.c:1389:8: warning: unused variable 'len' [-Wunused-variable] int len; ^ mmdbapi3.c:1388:9: warning: unused variable 'pcThis' [-Wunused-variable] Char pcThis[81]; ^ mmdbapi3.c:1387:21: warning: unused variable 'pbsdrLast' [-Wunused-variable] BiostrucDescrPtr pbsdrLast = NULL; ^ mmdbapi3.c:1386:21: warning: unused variable 'pbsdrThis' [-Wunused-variable] BiostrucDescrPtr pbsdrThis = NULL; ^ mmdbapi3.c: In function 'WritePDBConnect': mmdbapi3.c:1610:9: warning: variable 'iTest' set but not used [-Wunused-but-set-variable] Int2 iTest; ^ mmdbapi3.c: In function 'WritePDBModelList': mmdbapi3.c:1625:10: warning: variable 'iCount' set but not used [-Wunused-but-set-variable] Int4 iCount; ^ mmdbapi3.c: In function 'WriteKinAtom': mmdbapi3.c:2287:11: warning: unused variable 'pcElName' [-Wunused-variable] CharPtr pcElName = NULL; ^ mmdbapi3.c: In function 'WriteFASTAMolecule': mmdbapi3.c:3537:9: warning: variable 'iTest' set but not used [-Wunused-but-set-variable] Int4 iTest =0; ^ mmdbapi3.c: In function 'WriteKinAtom': mmdbapi3.c:2314:12: warning: 'iTemp' may be used uninitialized in this function [-Wmaybe-uninitialized] if (iTemp < TempsKine[(iIndex-1)]) return; /* too low */ ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF mmdbapi4.c mmdbapi4.c: In function 'RefreshSurface': mmdbapi4.c:147:10: warning: unused variable 'iVal' [-Wunused-variable] Int4 iVal = 0; ^ mmdbapi4.c: In function 'FreeCoordinatesAsnLists': mmdbapi4.c:335:28: warning: variable 'pdcThis' set but not used [-Wunused-but-set-variable] DensityCoordinatesPtr pdcThis = NULL; ^ mmdbapi4.c: In function 'FreeRedundantAsn': mmdbapi4.c:371:10: warning: unused variable 'pmmdThis' [-Wunused-variable] PMMD pmmdThis = NULL; ^ mmdbapi4.c:370:11: warning: unused variable 'pdnmmThis' [-Wunused-variable] PDNMM pdnmmThis = NULL; ^ mmdbapi4.c:367:22: warning: unused variable 'pbsmThis' [-Wunused-variable] BiostrucModelPtr pbsmThis = NULL; ^ mmdbapi4.c: In function 'RefreshModelAsnMem': mmdbapi4.c:474:13: warning: unused variable 'iCoordSets' [-Wunused-variable] Int4 iCoordSets = 0; ^ mmdbapi4.c:465:20: warning: unused variable 'pappThis' [-Wunused-variable] AtomPntrsPtr pappThis = NULL; ^ mmdbapi4.c:464:27: warning: unused variable 'pmspThis' [-Wunused-variable] ModelSpacePointsPtr pmspThis = NULL; ^ mmdbapi4.c:463:28: warning: unused variable 'pocThis' [-Wunused-variable] AtomicOccupanciesPtr pocThis = NULL; ^ mmdbapi4.c:458:34: warning: unused variable 'paciThis' [-Wunused-variable] AlternateConformationIdsPtr paciThis = NULL; ^ mmdbapi4.c: In function 'RebuildChemGraphAsn': mmdbapi4.c:931:15: warning: unused variable 'bOK' [-Wunused-variable] Boolean bOK = TRUE; ^ mmdbapi4.c: In function 'WriteASNChemGraphOnly': mmdbapi4.c:1192:10: warning: unused variable 'iHash' [-Wunused-variable] Int4 iHash = 0; ^ mmdbapi4.c: In function 'FreeSingleModel': mmdbapi4.c:1336:11: warning: unused variable 'pdnml' [-Wunused-variable] PDNML pdnml = NULL; ^ mmdbapi4.c:1332:22: warning: unused variable 'pbsmTemp' [-Wunused-variable] BiostrucModelPtr pbsmTemp = NULL; ^ mmdbapi4.c: In function 'WriteAsnModelList': mmdbapi4.c:1505:14: warning: unused variable 'paioAIP' [-Wunused-variable] AsnIoPtr paioAIP = NULL; ^ mmdbapi4.c:1502:11: warning: unused variable 'pmldThis' [-Wunused-variable] PMLD pmldThis = NULL; ^ mmdbapi4.c:1498:11: warning: unused variable 'pdnmlThis' [-Wunused-variable] PDNML pdnmlThis = NULL; ^ mmdbapi4.c:1496:22: warning: unused variable 'pbsmThis' [-Wunused-variable] BiostrucModelPtr pbsmThis = NULL; ^ mmdbapi4.c:1495:17: warning: unused variable 'pBSThis' [-Wunused-variable] BiostrucPtr pBSThis = NULL; ^ mmdbapi4.c:1494:13: warning: unused variable 'bFirst' [-Wunused-variable] Boolean bFirst = TRUE; ^ mmdbapi4.c:1493:10: warning: unused variable 'iTest' [-Wunused-variable] Int2 iTest = 0; ^ mmdbapi4.c: In function 'BiostrucAnnotSetToSeqAnnot': mmdbapi4.c:1741:19: warning: unused variable 'loc1' [-Wunused-variable] ValNodePtr loc1 = NULL; ^ mmdbapi4.c: In function 'WriteAsnModelList': mmdbapi4.c:1632:13: warning: 'bRet' may be used uninitialized in this function [-Wmaybe-uninitialized] return bRet; ^ mmdbapi4.c: In function 'BiostrucAnnotSetToSeqAnnot': mmdbapi4.c:1872:20: warning: 'slavesip' may be used uninitialized in this function [-Wmaybe-uninitialized] dsp->ids->next = slavesip; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF mmdbentr.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF vastsubs.c vastsubs.c: In function 'LoadSubsetTable': vastsubs.c:212:2: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fd, "%d", &ndoms); ^ vastsubs.c:239:2: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fd, "%d", &nsubs); ^ vastsubs.c:258:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fd, "%d", &j); ^ vastsubs.c:287:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fd, "%8c", domid); ^ vastsubs.c:296:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fd, "%d", &n); ^ vastsubs.c:302:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fd, "%d %d %d", &subset[j], &grps[j], &ranks[j]); ^ vastsubs.c:304:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fd, "\n"); ^ vastsubs.c:202:16: warning: 'len' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 i, j, n, len, strindex, ndoms, nsubs; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF prunebsc.c prunebsc.c: In function 'PruneFeatureSet': prunebsc.c:220:22: warning: variable 'bsfpDie' set but not used [-Wunused-but-set-variable] BiostrucFeaturePtr bsfpDie, bsfp, bsfpnew = NULL; ^ prunebsc.c: In function 'PruneModel': prunebsc.c:272:30: warning: variable 'mcsDie' set but not used [-Wunused-but-set-variable] ModelCoordinateSetPtr mcs, mcsDie, mcsnew = NULL; ^ prunebsc.c: In function 'PruneBiostruc': prunebsc.c:559:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (vnp = ValNodeFindNext(currentbp->descr, NULL, BiomolDescr_name)) ^ prunebsc.c:574:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (vnp = ValNodeFindNext(het->descr, NULL, BiomolDescr_name)) ^ prunebsc.c:663:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (vnp = ValNodeFindNext(bsfsp->descr, NULL, BiostrucFeatureSetDescr_name)) ^ In file included from ../include/ncbi.h:62:0, from ../include/prunebsc.h:10, from prunebsc.c:34: ../include/ncbistr.h:339:20: warning: 'feature_name' may be used uninitialized in this function [-Wmaybe-uninitialized] #define StringICmp Nlm_StringICmp ^ prunebsc.c:522:25: note: 'feature_name' was declared here CharPtr chnid, hetid, feature_name; ^ prunebsc.c:649:23: warning: 'pirbnew' may be used uninitialized in this function [-Wmaybe-uninitialized] pirbnew->next = pirb; ^ prunebsc.c:591:26: warning: 'currenthet' may be used uninitialized in this function [-Wmaybe-uninitialized] currenthet->next = het; ^ prunebsc.c:701:24: warning: 'mol_id' may be used uninitialized in this function [-Wmaybe-uninitialized] bsmpTail->next = PruneModel(bsmp, pvnIds, mol_id); ^ prunebsc.c:562:16: warning: 'chnid' may be used uninitialized in this function [-Wmaybe-uninitialized] if (*chnid == *chain) ^ prunebsc.c:182:7: warning: 'mtype' may be used uninitialized in this function [-Wmaybe-uninitialized] switch(mtype) ^ prunebsc.c:173:8: note: 'mtype' was declared here Int4 mtype, molecule_id; ^ prunebsc.c:110:7: warning: 'mtype' may be used uninitialized in this function [-Wmaybe-uninitialized] switch(mtype) ^ prunebsc.c:102:8: note: 'mtype' was declared here Int4 mtype; ^ prunebsc.c:127:25: warning: 'currentbp' may be used uninitialized in this function [-Wmaybe-uninitialized] currentbp->next = newbp; ^ prunebsc.c:100:38: note: 'currentbp' was declared here MoleculeGraphPtr newbp, bp = NULL, currentbp; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objcdd.c objcdd.c: In function 'CddIdFree': objcdd.c:53:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objcdd.c: In function 'CddIdAsnRead': objcdd.c:85:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'CddIdSetAsnRead': objcdd.c:248:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:245:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddIdSetAsnWrite': objcdd.c:301:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddAsnRead': objcdd.c:401:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c: In function 'CddSetAsnRead': objcdd.c:796:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:793:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddSetAsnWrite': objcdd.c:849:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddTreeAsnRead': objcdd.c:932:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:931:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'CddTreeSetAsnRead': objcdd.c:1143:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:1140:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddTreeSetAsnWrite': objcdd.c:1196:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddPrefNodesAsnRead': objcdd.c:1276:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:1275:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'CddPrefNodesAsnWrite': objcdd.c:1365:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddProjectAsnRead': objcdd.c:1472:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c: In function 'CddOrgRefAsnRead': objcdd.c:1661:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:1660:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'CddOrgRefSetAsnRead': objcdd.c:1830:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:1827:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddOrgRefSetAsnWrite': objcdd.c:1883:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddPrefNodeDescrFree': objcdd.c:1923:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objcdd.c: In function 'CddPrefNodeDescrAsnRead': objcdd.c:1958:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'CddPrefNodeDescrSetAsnRead': objcdd.c:2121:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:2118:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddPrefNodeDescrSetAsnWrite': objcdd.c:2174:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'GlobalIdAsnRead': objcdd.c:2253:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:2252:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'CddRepeatAsnRead': objcdd.c:2439:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:2438:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'CddBookRefAsnRead': objcdd.c:2615:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:2614:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'CddDescrSetAsnRead': objcdd.c:3170:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:3167:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'CddDescrSetAsnWrite': objcdd.c:3223:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'MatrixAsnRead': objcdd.c:3301:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c: In function 'TriangleAsnRead': objcdd.c:3489:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c: In function 'UpdateCommentFree': objcdd.c:3625:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objcdd.c: In function 'UpdateCommentAsnRead': objcdd.c:3669:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'UpdateAlignAsnRead': objcdd.c:3873:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c: In function 'RejectIdAsnRead': objcdd.c:4047:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c: In function 'RejectIdAsnWrite': objcdd.c:4122:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'FeatureEvidenceFree': objcdd.c:4170:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objcdd.c: In function 'FeatureEvidenceAsnRead': objcdd.c:4214:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'AlignAnnotAsnRead': objcdd.c:4419:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c: In function 'AlignAnnotSetAsnRead': objcdd.c:4587:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:4584:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'AlignAnnotSetAsnWrite': objcdd.c:4640:12: warning: unused variable 'av' [-Wunused-variable] DataVal av; ^ objcdd.c: In function 'DomainParentAsnRead': objcdd.c:4718:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:4717:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'SequenceTreeAsnRead': objcdd.c:4898:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:4897:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'AlgorithmTypeAsnRead': objcdd.c:5085:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:5084:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'SeqTreeNodeAsnRead': objcdd.c:5387:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:5386:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'Children_footprintAsnRead': objcdd.c:5572:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:5571:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'NodeAnnotationAsnRead': objcdd.c:5862:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:5861:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'CddViewerRectAsnRead': objcdd.c:6027:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:6026:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objcdd.c: In function 'CddViewerAsnRead': objcdd.c:6208:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c: In function 'CddScriptAsnRead': objcdd.c:6382:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objcdd.c:6381:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ In file included from objcdd.c:6:0: objcdd.c: At top level: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from objcdd.c:6:0: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from objcdd.c:7:0: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ objcdd.c: In function 'CddDescrAsnRead': objcdd.c:2994:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF cddutil.c cddutil.c: In function 'CddGetPmIds': cddutil.c:649:17: warning: unused variable 'bRefOpen' [-Wunused-variable] Boolean bRefOpen = FALSE; ^ cddutil.c: In function 'CddGetAnnotNames': cddutil.c:807:19: warning: variable 'vnp' set but not used [-Wunused-but-set-variable] ValNodePtr vnp, vnpHead = NULL; ^ cddutil.c: In function 'CddCheckForRepeats': cddutil.c:1034:7: warning: the address of 'CddHasConsensus' will always evaluate as 'true' [-Waddress] if (!CddHasConsensus) return FALSE; ^ cddutil.c:1013:23: warning: variable 'iStatus' set but not used [-Wunused-but-set-variable] Int2 iStatus; ^ cddutil.c: In function 'CddMSLDenDiagToMSLDenSeg': cddutil.c:1663:30: warning: variable 'lasts' set but not used [-Wunused-but-set-variable] Int4 lastm, lasts; ^ cddutil.c:1663:23: warning: variable 'lastm' set but not used [-Wunused-but-set-variable] Int4 lastm, lasts; ^ cddutil.c: In function 'SeqAlignInform': cddutil.c:1938:22: warning: variable 'iStatus' set but not used [-Wunused-but-set-variable] Int2 iStatus; ^ cddutil.c: In function 'CddAlignInform': cddutil.c:2125:22: warning: variable 'iStatus' set but not used [-Wunused-but-set-variable] Int2 iStatus; ^ cddutil.c: In function 'CddPssmInform': cddutil.c:2248:22: warning: variable 'iStatus' set but not used [-Wunused-but-set-variable] Int2 iStatus; ^ cddutil.c: In function 'CddPosFreqInform': cddutil.c:2306:22: warning: variable 'iStatus' set but not used [-Wunused-but-set-variable] Int2 iStatus; ^ cddutil.c: In function 'CddDenDiagCposComputation': cddutil.c:2368:33: warning: variable 'RowHead' set but not used [-Wunused-but-set-variable] ValNodePtr newRow, RowHead; ^ cddutil.c:2365:25: warning: variable 'iStatus' set but not used [-Wunused-but-set-variable] Int2 iStatus; ^ cddutil.c: In function 'CddCposComputation': cddutil.c:2571:33: warning: variable 'RowHead' set but not used [-Wunused-but-set-variable] ValNodePtr newRow, RowHead; ^ cddutil.c:2568:25: warning: variable 'iStatus' set but not used [-Wunused-but-set-variable] Int2 iStatus; ^ cddutil.c: In function 'CddRetrieveBioseqById': cddutil.c:3379:15: warning: unused variable 'retcode' [-Wunused-variable] Int2 retcode = 1; ^ cddutil.c:3377:15: warning: unused variable 'uid' [-Wunused-variable] Int4 uid = 0; ^ cddutil.c: In function 'CddConsensus': cddutil.c:3853:49: warning: variable 'm_end' set but not used [-Wunused-but-set-variable] Int4 m_last, m_frst, s_insert, m_end; ^ cddutil.c: In function 'CddCposCompPart1': cddutil.c:4247:25: warning: variable 'iStatus' set but not used [-Wunused-but-set-variable] Int2 iStatus; ^ cddutil.c: In function 'CddGetNewIndexForThreading': cddutil.c:4392:14: warning: unused variable 'Index' [-Wunused-variable] Int4 i, Index=0; ^ cddutil.c: In function 'CddCposComp': cddutil.c:4474:33: warning: variable 'RowHead' set but not used [-Wunused-but-set-variable] ValNodePtr newRow, RowHead; ^ cddutil.c: In function 'CddDenDiagCposComp2KBP': cddutil.c:4745:59: warning: variable 'RowHead' set but not used [-Wunused-but-set-variable] ValNodePtr ColumnHead, LetterHead, newRow, RowHead, newLetter; ^ cddutil.c: In function 'CddDumpTaxLinks': cddutil.c:5727:16: warning: unused variable 'txid' [-Wunused-variable] Int4 txid = 0, gi = 0; ^ cddutil.c: At top level: cddutil.c:6267:1: warning: "/*" within comment [-Wcomment] /*---------------------------------------------------------------------------*/ ^ In file included from cddutil.c:349:0: ../include/cdd.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "cdd.h24"; ^ ../include/cdd.h:341:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^ ../include/cdd.h:342:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/cdd.h:343:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ In file included from ../include/cddutil.h:205:0, from cddutil.c:353: ../include/objcdd.h:642:37: warning: 'Children_childrenFree' declared 'static' but never defined [-Wunused-function] static Children_childrenPtr LIBCALL Children_childrenFree PROTO ((Children_childrenPtr )); ^ ../include/objcdd.h:643:37: warning: 'Children_childrenAsnRead' declared 'static' but never defined [-Wunused-function] static Children_childrenPtr LIBCALL Children_childrenAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objcdd.h:644:24: warning: 'Children_childrenAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Children_childrenAsnWrite PROTO (( Children_childrenPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objcdd.h:666:38: warning: 'Children_footprintFree' declared 'static' but never defined [-Wunused-function] static Children_footprintPtr LIBCALL Children_footprintFree PROTO ((Children_footprintPtr )); ^ ../include/objcdd.h:667:38: warning: 'Children_footprintNew' declared 'static' but never defined [-Wunused-function] static Children_footprintPtr LIBCALL Children_footprintNew PROTO (( void )); ^ ../include/objcdd.h:668:38: warning: 'Children_footprintAsnRead' declared 'static' but never defined [-Wunused-function] static Children_footprintPtr LIBCALL Children_footprintAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objcdd.h:669:24: warning: 'Children_footprintAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Children_footprintAsnWrite PROTO (( Children_footprintPtr , AsnIoPtr, AsnTypePtr)); ^ cddutil.c:4661:16: warning: 'CddtakeMatrixCheckpoint' defined but not used [-Wunused-function] static Boolean CddtakeMatrixCheckpoint(compactSearchItems *compactSearch, ^ In file included from cddutil.c:353:0: ../include/cddutil.h:589:25: warning: 'CddFindSeqIdInSeqLoc' declared 'static' but never defined [-Wunused-function] static SeqIdPtr CddFindSeqIdInSeqLoc(SeqLocPtr location); ^ cddutil.c: In function 'CddBioseqCopy': cddutil.c:1362:21: warning: 'head' may be used uninitialized in this function [-Wmaybe-uninitialized] newbsp->seq_ext = (Pointer)head; ^ cddutil.c: In function 'CddCopyMSLDenDiag': cddutil.c:3015:25: warning: 'ddpTail' may be used uninitialized in this function [-Wmaybe-uninitialized] ddpTail->next = ddpNew; ^ cddutil.c: In function 'CddCalculateTriangle': cddutil.c:3469:22: warning: 'pscTail' may be used uninitialized in this function [-Wmaybe-uninitialized] pscTail->next = psc; pscTail = psc; psc = NULL; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF cddposutil.c cddposutil.c: In function 'CddfindThreshSequences': cddposutil.c:359:15: warning: variable 'thisId' set but not used [-Wunused-but-set-variable] SeqIdPtr thisId; /* Ids of target sequences in current SeqAlign */ ^ cddposutil.c: In function 'CddfindDenseDiagThreshSequences': cddposutil.c:386:16: warning: variable 'thisId' set but not used [-Wunused-but-set-variable] SeqIdPtr thisId; /* Ids of target sequences in current SeqAlign */ ^ cddposutil.c: In function 'CddposFreqsToMatrix': cddposutil.c:1038:45: warning: operation on '*(*(posSearch->posPrivateMatrix + (sizetype)((long unsigned int)length * 8ul)) + (sizetype)((long unsigned int)a * 4ul))' may be undefined [-Wsequence-point] posSearch->posPrivateMatrix[length][a] = posSearch->posPrivateMatrix[length][a] = BLAST_SCORE_MIN; ^ cddposutil.c: In function 'CddposDenseDiagDemographics': cddposutil.c:1094:17: warning: unused variable 'is_new_id' [-Wunused-variable] Boolean is_new_id = FALSE; ^ cddposutil.c:1093:17: warning: unused variable 'segIndex' [-Wunused-variable] Int4 segIndex; /*Index for which piece we are at*/ ^ cddposutil.c:1092:25: warning: variable 'startS' set but not used [-Wunused-but-set-variable] Int4 startQ, startS; /*Indices into array of starting positions*/ ^ cddposutil.c:1092:17: warning: variable 'startQ' set but not used [-Wunused-but-set-variable] Int4 startQ, startS; /*Indices into array of starting positions*/ ^ cddposutil.c:1091:17: warning: unused variable 'curId' [-Wunused-variable] SeqIdPtr curId; /*Used to compare seq. coming from different SeqAligns*/ ^ cddposutil.c: In function 'CddSetUpSearchInternalByLoc': cddposutil.c:1246:39: warning: unused variable 'last_length_adjustment' [-Wunused-variable] index, length, length_adjustment=0, last_length_adjustment, min_query_length; ^ cddposutil.c: In function 'CddSetUpSearchWithReadDb': cddposutil.c:2040:43: warning: variable 'final_db_seq' set but not used [-Wunused-but-set-variable] Int4 final_virtual_db_seq=0, final_db_seq=0; ^ cddposutil.c:2006:28: warning: unused variable 'virtual_oid_bit' [-Wunused-variable] Uint4 oid_bit, virtual_oid_bit; ^ cddposutil.c:2006:19: warning: unused variable 'oid_bit' [-Wunused-variable] Uint4 oid_bit, virtual_oid_bit; ^ cddposutil.c:2005:30: warning: unused variable 'virtual_mask_index' [-Wunused-variable] Int4 mask_index, virtual_mask_index; ^ cddposutil.c:2005:18: warning: unused variable 'mask_index' [-Wunused-variable] Int4 mask_index, virtual_mask_index; ^ cddposutil.c:2004:19: warning: unused variable 'alias_oidlist' [-Wunused-variable] OIDListPtr alias_oidlist; ^ cddposutil.c:2003:19: warning: unused variable 'use_private_gilist' [-Wunused-variable] Boolean use_private_gilist = FALSE; ^ cddposutil.c:2000:20: warning: unused variable 'vnp' [-Wunused-variable] ValNodePtr vnp; ^ cddposutil.c: In function 'CddposReadAlignment': cddposutil.c:2226:16: warning: variable 'alignPos' set but not used [-Wunused-but-set-variable] Int4 alignPos, queryOffset, subjectOffset, matchLength; ^ In file included from ../include/cddutil.h:205:0, from cddposutil.c:131: cddposutil.c: At top level: ../include/objcdd.h:642:37: warning: 'Children_childrenFree' declared 'static' but never defined [-Wunused-function] static Children_childrenPtr LIBCALL Children_childrenFree PROTO ((Children_childrenPtr )); ^ ../include/objcdd.h:643:37: warning: 'Children_childrenAsnRead' declared 'static' but never defined [-Wunused-function] static Children_childrenPtr LIBCALL Children_childrenAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objcdd.h:644:24: warning: 'Children_childrenAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Children_childrenAsnWrite PROTO (( Children_childrenPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objcdd.h:666:38: warning: 'Children_footprintFree' declared 'static' but never defined [-Wunused-function] static Children_footprintPtr LIBCALL Children_footprintFree PROTO ((Children_footprintPtr )); ^ ../include/objcdd.h:667:38: warning: 'Children_footprintNew' declared 'static' but never defined [-Wunused-function] static Children_footprintPtr LIBCALL Children_footprintNew PROTO (( void )); ^ ../include/objcdd.h:668:38: warning: 'Children_footprintAsnRead' declared 'static' but never defined [-Wunused-function] static Children_footprintPtr LIBCALL Children_footprintAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objcdd.h:669:24: warning: 'Children_footprintAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Children_footprintAsnWrite PROTO (( Children_footprintPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from cddposutil.c:131:0: ../include/cddutil.h:507:27: warning: 'CddReadBlastOptions' declared 'static' but never defined [-Wunused-function] static PGPBlastOptionsPtr CddReadBlastOptions(BioseqPtr bsp, Int4 iPseudo, CharPtr matrix_name); ^ ../include/cddutil.h:512:13: warning: 'BlastKarlinBlkCopy' declared 'static' but never defined [-Wunused-function] static void BlastKarlinBlkCopy(BLAST_KarlinBlkPtr kbp_in,BLAST_KarlinBlkPtr kbp_out); ^ ../include/cddutil.h:516:13: warning: 'CddputMatrixKbp' declared 'static' but never defined [-Wunused-function] static void CddputMatrixKbp(FILE *checkFile, BLAST_KarlinBlkPtr kbp, ^ ../include/cddutil.h:518:13: warning: 'CddputMatrixMatrix' declared 'static' but never defined [-Wunused-function] static void CddputMatrixMatrix(FILE *checkFile, ^ ../include/cddutil.h:522:16: warning: 'CddtakeMatrixCheckpoint' declared 'static' but never defined [-Wunused-function] static Boolean CddtakeMatrixCheckpoint(compactSearchItems *compactSearch, ^ ../include/cddutil.h:589:25: warning: 'CddFindSeqIdInSeqLoc' declared 'static' but never defined [-Wunused-function] static SeqIdPtr CddFindSeqIdInSeqLoc(SeqLocPtr location); ^ ../include/cddutil.h:591:25: warning: 'CddRelocateSeqLoc' declared 'static' but never defined [-Wunused-function] static void CddRelocateSeqLoc(SeqLocPtr location, SeqIdPtr sip, Int4 *ali); ^ ../include/cddutil.h:592:25: warning: 'CddSeqLocInExpAlign' declared 'static' but never defined [-Wunused-function] static Int4 CddSeqLocInExpAlign(SeqLocPtr location, CddExpAlignPtr eap); ^ ../include/cddutil.h:593:25: warning: 'CddFindSeqIdInAlignAnnot' declared 'static' but never defined [-Wunused-function] static SeqIdPtr CddFindSeqIdInAlignAnnot(AlignAnnotPtr oldannot); ^ ../include/cddutil.h:623:24: warning: 'HitYet' declared 'static' but never defined [-Wunused-function] static Boolean HitYet(Int4Ptr retlist, Int4 index, Int4 i); ^ ../include/cddutil.h:649:16: warning: 'CddFixForXML' declared 'static' but never defined [-Wunused-function] static CharPtr CddFixForXML(CharPtr pc); ^ cddposutil.c:971:13: warning: 'CddfreePosFreqs' defined but not used [-Wunused-function] static void CddfreePosFreqs(Nlm_FloatHi ** posFreqs, Int4 length) ^ cddposutil.c: In function 'CddposComputeSequenceWeights': cddposutil.c:840:35: warning: 'intervalSigma' may be used uninitialized in this function [-Wmaybe-uninitialized] posSearch->posSigma[qplace] = intervalSigma; ^ cddposutil.c:832:68: warning: 'Sigma' may be used uninitialized in this function [-Wmaybe-uninitialized] posSearch->posA[thisSeq] = posSearch->posRowSigma[thisSeq]/Sigma; ^ cddposutil.c: In function 'CddposDemographics': cddposutil.c:1199:24: warning: 'retrievalOffset' may be used uninitialized in this function [-Wmaybe-uninitialized] subjectOffset = curSegs->starts[startS] - retrievalOffset; ^ cddposutil.c: In function 'CddSetUpSearchWithReadDb': cddposutil.c:1740:48: warning: 'min_query_length' may be used uninitialized in this function [-Wmaybe-uninitialized] if( 0 != BlastComputeLengthAdjustment(1/min_query_length, ^ cddposutil.c:1246:63: note: 'min_query_length' was declared here index, length, length_adjustment=0, last_length_adjustment, min_query_length; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF objmime.c objmime.c: In function 'NcbiMimeAsn1Free': objmime.c:123:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmime.c: In function 'NcbiMimeAsn1AsnRead': objmime.c:170:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmime.c: In function 'Data_dataFree': objmime.c:377:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmime.c: In function 'EntrezGeneralAsnRead': objmime.c:423:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmime.c:422:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmime.c: In function 'Data_dataAsnRead': objmime.c:517:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmime.c: In function 'BiostrucAlignAsnRead': objmime.c:791:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmime.c: In function 'BiostrucAlignSeqAsnRead': objmime.c:1016:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmime.c: In function 'BiostrucSeqAsnRead': objmime.c:1208:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmime.c: In function 'BiostrucSeqsAsnRead': objmime.c:1402:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmime.c: In function 'SeqAlignData_seq_align_dataFree': objmime.c:1599:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmime.c: In function 'BiostrucSeqsAlignsCddAsnRead': objmime.c:1633:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmime.c: In function 'SeqAlignData_seq_align_dataAsnRead': objmime.c:1720:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmime.c: In function 'BundleSeqsAlignsAsnRead': objmime.c:1954:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ In file included from ../include/mapmime.h:4:0, from objmime.c:78: objmime.c: At top level: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/mapmime.h:4:0, from objmime.c:78: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/mapmime.h:6:0, from objmime.c:78: ../include/objcdd.h:642:37: warning: 'Children_childrenFree' declared 'static' but never defined [-Wunused-function] static Children_childrenPtr LIBCALL Children_childrenFree PROTO ((Children_childrenPtr )); ^ ../include/objcdd.h:643:37: warning: 'Children_childrenAsnRead' declared 'static' but never defined [-Wunused-function] static Children_childrenPtr LIBCALL Children_childrenAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objcdd.h:644:24: warning: 'Children_childrenAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Children_childrenAsnWrite PROTO (( Children_childrenPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objcdd.h:666:38: warning: 'Children_footprintFree' declared 'static' but never defined [-Wunused-function] static Children_footprintPtr LIBCALL Children_footprintFree PROTO ((Children_footprintPtr )); ^ ../include/objcdd.h:667:38: warning: 'Children_footprintNew' declared 'static' but never defined [-Wunused-function] static Children_footprintPtr LIBCALL Children_footprintNew PROTO (( void )); ^ ../include/objcdd.h:668:38: warning: 'Children_footprintAsnRead' declared 'static' but never defined [-Wunused-function] static Children_footprintPtr LIBCALL Children_footprintAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objcdd.h:669:24: warning: 'Children_footprintAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Children_footprintAsnWrite PROTO (( Children_footprintPtr , AsnIoPtr, AsnTypePtr)); ^ objmime.c: In function 'NcbiMimeAsn1AsnRead': objmime.c:232:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmime.c: In function 'EntrezGeneralAsnRead': objmime.c:579:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmime.c:516:10: note: 'choice' was declared here Uint1 choice; ^ objmime.c: In function 'BiostrucSeqsAlignsCddAsnRead': objmime.c:1766:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmime.c:1719:10: note: 'choice' was declared here Uint1 choice; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF strucapi.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF thrdalgs.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF thrdatd.c thrdatd.c: In function 'atd': thrdatd.c:201:8: warning: variable 'hh' set but not used [-Wunused-but-set-variable] float hh; ^ thrdatd.c:198:6: warning: variable 'rf' set but not used [-Wunused-but-set-variable] int rf; /* Reference position for a core element */ ^ thrdatd.c:188:14: warning: unused variable 'm' [-Wunused-variable] int i,j,k,l,m,n; /* Counters */ ^ thrdatd.c:188:12: warning: unused variable 'l' [-Wunused-variable] int i,j,k,l,m,n; /* Counters */ ^ thrdatd.c:171:6: warning: variable 'nrp' set but not used [-Wunused-but-set-variable] int nrp; /* Number of residue-peptide contacts in motif */ ^ thrdatd.c:170:6: warning: variable 'nrr' set but not used [-Wunused-but-set-variable] int nrr; /* Number of residue-residue contacts in motif */ ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF thrdbwfi.c thrdbwfi.c: In function 'bwfi': thrdbwfi.c:114:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ thrdbwfi.c:89:20: warning: 'nz' may be used uninitialized in this function [-Wmaybe-uninitialized] cw=0.; ct=ttb->mx; for(i=0; i<=nz; i++) { ^ thrdbwfi.c:102:13: warning: 'nt' may be used uninitialized in this function [-Wmaybe-uninitialized] ct=ttb->mx; for(i=0; i<=nt; i++) { ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF thrdcpal.c thrdcpal.c: In function 'cpal': thrdcpal.c:210:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF thrdcpll.c thrdcpll.c: In function 'cpll': thrdcpll.c:74:5: warning: variable 'nrt' set but not used [-Wunused-but-set-variable] int nrt; /* Number of residue types */ ^ thrdcpll.c:229:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ thrdcpll.c:220:15: warning: 'r2' may be used uninitialized in this function [-Wmaybe-uninitialized] cl->rf.t2[k]=r2; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF thrdcprl.c thrdcprl.c: In function 'cprl': thrdcprl.c:261:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF thrdcxei.c thrdcxei.c: In function 'cxei': thrdcxei.c:94:15: warning: variable 'ms' set but not used [-Wunused-but-set-variable] int ntot, ms; ^ thrdcxei.c:205:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF thrddgri.c thrddgri.c: In function 'g': thrddgri.c:72:5: warning: variable 's0' set but not used [-Wunused-but-set-variable] int s0; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF thrdrsmp.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF thrdsal0.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF thrdsalr.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF thrdsalu.c thrdsalu.c: In function 'salu': thrdsalu.c:83:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF thrdsgoi.c thrdsgoi.c: In function 'sgoi': thrdsgoi.c:123:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF thrdslo0.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF thrdslor.c thrdslor.c: In function 'slor': thrdslor.c:90:6: warning: 'mp' may be used uninitialized in this function [-Wmaybe-uninitialized] int *mp; /* Motif-derived loop length limits */ ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF thrdslou.c thrdslou.c: In function 'slou': thrdslou.c:114:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF thrdspci.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF thrdspea.c thrdspea.c: In function 'spea': thrdspea.c:91:9: warning: variable 'nrt' set but not used [-Wunused-but-set-variable] int nrt; /* Number of residue types in potential */ ^ thrdspea.c:189:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF thrdspel.c thrdspel.c: In function 'spel': thrdspel.c:88:9: warning: variable 'nrt' set but not used [-Wunused-but-set-variable] int nrt; /* Number of residue types in potential */ ^ thrdspel.c:188:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF thrdspni.c thrdspni.c: In function 'spni': thrdspni.c:238:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF thrdttb0.c thrdttb0.c: In function 'ttb0': thrdttb0.c:75:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF thrdttbi.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF thrdzsc.c thrdzsc.c: In function 'zsc': thrdzsc.c:107:7: warning: unused variable 'gs' [-Wunused-variable] int g,gs; ^ thrdzsc.c:102:18: warning: unused variable 'zsc' [-Wunused-variable] float tg,tgp,tgm,zsc; /* Energy of shuffled sequence */ ^ thrdzsc.c:95:5: warning: unused variable 'ps' [-Wunused-variable] int ps,ms,cs, ^ thrdzsc.c:80:5: warning: unused variable 'temp' [-Wunused-variable] int temp; /* Random index of the query sequence */ ^ thrdzsc.c:79:2: warning: unused variable 'kk' [-Wunused-variable] kk,itr,ii,jj; /* Counters */ ^ thrdzsc.c:369:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ rm -f libncbimmdb.a ar cru libncbimmdb.a corematx.o dvncode.o objmmdb1.o objmmdb2.o objmmdb3.o objcn3d.o mmdbapi.o mmdbapi1.o mmdbapi2.o mmdbapi3.o mmdbapi4.o mmdbentr.o vastsubs.o prunebsc.o objcdd.o cddutil.o cddposutil.o objmime.o strucapi.o thrdalgs.o thrdatd.o thrdbwfi.o thrdcpal.o thrdcpll.o thrdcprl.o thrdcxei.o thrddgri.o thrdrsmp.o thrdsal0.o thrdsalr.o thrdsalu.o thrdsgoi.o thrdslo0.o thrdslor.o thrdslou.o thrdspci.o thrdspea.o thrdspel.o thrdspni.o thrdttb0.o thrdttbi.o thrdzsc.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libncbimmdb.a ../lib ranlib ../lib/libncbimmdb.a gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF csim.c csim.c: In function 'set_pam_200': csim.c:163:29: warning: missing braces around initializer [-Wmissing-braces] static Int2 wgts[23][23] = { /* the PAM200 matrix */ ^ csim.c:163:29: note: (near initialization for 'wgts') csim.c:196:9: warning: array subscript has type 'char' [-Wchar-subscripts] V[achars[i]][achars[j]]=10*(wgts[i][j]); ^ csim.c:196:20: warning: array subscript has type 'char' [-Wchar-subscripts] V[achars[i]][achars[j]]=10*(wgts[i][j]); ^ csim.c: In function 'set_pam_file': csim.c:228:13: warning: array subscript has type 'char' [-Wchar-subscripts] V[alph[i]][alph[j]]=(Int2)(10*weight); ^ csim.c:228:22: warning: array subscript has type 'char' [-Wchar-subscripts] V[alph[i]][alph[j]]=(Int2)(10*weight); ^ csim.c: In function 'big_pass': csim.c:668:13: warning: array subscript has type 'char' [-Wchar-subscripts] va = v[A[i]]; ^ csim.c:692:23: warning: array subscript has type 'char' [-Wchar-subscripts] DIAG(i, j, c, p+va[B[j]]) /* diagonal */ ^ csim.c:440:11: note: in definition of macro 'DIAG' x = ( pvalue ); \ ^ csim.c: In function 'diff1': csim.c:799:13: warning: array subscript has type 'char' [-Wchar-subscripts] va = v[A[1]]; ^ csim.c:805:21: warning: array subscript has type 'char' [-Wchar-subscripts] { c = va[B[j]] - ( GAP(j-1) + GAP(N-j) ); ^ csim.c:849:13: warning: array subscript has type 'char' [-Wchar-subscripts] va = v[A[i]]; ^ csim.c:853:43: warning: array subscript has type 'char' [-Wchar-subscripts] DIAG(i+(s_ptr->I), (s_ptr->J)+j, c, s+v[A[i]][B[j]]) ^ csim.c:440:11: note: in definition of macro 'DIAG' x = ( pvalue ); \ ^ csim.c:853:49: warning: array subscript has type 'char' [-Wchar-subscripts] DIAG(i+(s_ptr->I), (s_ptr->J)+j, c, s+v[A[i]][B[j]]) ^ csim.c:440:11: note: in definition of macro 'DIAG' x = ( pvalue ); \ ^ csim.c:874:13: warning: array subscript has type 'char' [-Wchar-subscripts] va = v[A[i+1]]; ^ csim.c:878:43: warning: array subscript has type 'char' [-Wchar-subscripts] DIAG(i+1+s_ptr->I, j+1+s_ptr->J, c, s+v[A[i+1]][B[j+1]]) ^ csim.c:440:11: note: in definition of macro 'DIAG' x = ( pvalue ); \ ^ csim.c:878:51: warning: array subscript has type 'char' [-Wchar-subscripts] DIAG(i+1+s_ptr->I, j+1+s_ptr->J, c, s+v[A[i+1]][B[j+1]]) ^ csim.c:440:11: note: in definition of macro 'DIAG' x = ( pvalue ); \ ^ csim.c:893:38: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if (c > midc || CC[j] != DD[j] && RR[j] == SS[j]) ^ csim.c: In function 'locate': csim.c:974:13: warning: array subscript has type 'char' [-Wchar-subscripts] va = v[A[i]]; ^ csim.c:991:23: warning: array subscript has type 'char' [-Wchar-subscripts] DIAG(i, j, c, p+va[B[j]]) /* diagonal */ ^ csim.c:440:11: note: in definition of macro 'DIAG' x = ( pvalue ); \ ^ csim.c:1030:14: warning: array subscript has type 'char' [-Wchar-subscripts] va = v[A[(plist->m1)]]; ^ csim.c:1043:33: warning: array subscript has type 'char' [-Wchar-subscripts] DIAG((plist->m1), j, c, p+va[B[j]]) /* diagonal */ ^ csim.c:440:11: note: in definition of macro 'DIAG' x = ( pvalue ); \ ^ csim.c:1061:31: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if ( ! rflag && ( ci > rl && cj > cl || di > rl && dj > cl ^ csim.c:1062:44: warning: suggest parentheses around '&&' within '||' [-Wparentheses] || fi > rl && fj > cl ) ) ^ csim.c:1071:34: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if ( ! cflag && ( ci > rl && cj > cl || di > rl && dj > cl ^ csim.c:1072:20: warning: suggest parentheses around '&&' within '||' [-Wparentheses] || fi > rl && fj > cl ) ) ^ csim.c:1084:14: warning: array subscript has type 'char' [-Wchar-subscripts] va = v[B[(plist->n1)]]; ^ csim.c:1110:40: warning: array subscript has type 'char' [-Wchar-subscripts] DIAG(i, (plist->n1), c, p+va[A[i]]) ^ csim.c:440:11: note: in definition of macro 'DIAG' x = ( pvalue ); \ ^ csim.c:1128:38: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if ( ! cflag && ( ci > rl && cj > cl || di > rl && dj > cl ^ csim.c:1129:29: warning: suggest parentheses around '&&' within '||' [-Wparentheses] || fi > rl && fj > cl ) ) ^ csim.c:1138:34: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if ( ! rflag && ( ci > rl && cj > cl || di > rl && dj > cl ^ csim.c:1139:47: warning: suggest parentheses around '&&' within '||' [-Wparentheses] || fi > rl && fj > cl ) ) ^ csim.c:1144:29: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if ( (plist->m1) == 1 && (plist->n1) == 1 || no_cross(flag, plist, &rl, &cl) ) ^ csim.c: In function 'small_pass': csim.c:1186:13: warning: array subscript has type 'char' [-Wchar-subscripts] va = v[A[i]]; ^ csim.c:1212:23: warning: array subscript has type 'char' [-Wchar-subscripts] DIAG(i, j, c, p+va[B[j]]) /* diagonal */ ^ csim.c:440:11: note: in definition of macro 'DIAG' x = ( pvalue ); \ ^ csim.c: In function 'display': csim.c:1360:5: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (i < M || j < N) ^ csim.c: In function 'set_pam_file': csim.c:227:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fp, "%f", &weight); /**get the matrix**/ ^ csim.c: In function 'SIM': csim.c:1071:62: warning: 'dj' may be used uninitialized in this function [-Wmaybe-uninitialized] if ( ! cflag && ( ci > rl && cj > cl || di > rl && dj > cl ^ csim.c:928:23: note: 'dj' was declared here register Int4 di, dj; /* end-point associated with d */ ^ csim.c:1071:51: warning: 'di' may be used uninitialized in this function [-Wmaybe-uninitialized] if ( ! cflag && ( ci > rl && cj > cl || di > rl && dj > cl ^ csim.c:928:19: note: 'di' was declared here register Int4 di, dj; /* end-point associated with d */ ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF db_slist.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF dust.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_dust.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF falign.c falign.c: In function 'fbld_table': falign.c:490:34: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*++q]; ^ falign.c:494:43: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*q]; ^ falign.c: In function 'bbld_table': falign.c:517:34: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*--q]; ^ falign.c:521:43: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*q]; ^ falign.c: In function 'rcbld_table': falign.c:544:34: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*--q]; ^ falign.c:548:43: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*q]; ^ falign.c: In function 'ex_table': falign.c:567:42: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*q]; ^ falign.c: In function 'free_all': falign.c:668:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (df = cdiag_prev[l]) { ^ falign.c: In function 'scan': falign.c:688:34: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*++q]; ^ falign.c:694:43: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*q]; ^ falign.c:710:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (df = diag_prev[len1+len2-1-pos]) { ^ falign.c:719:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (df=diag_prev[l]) { ^ falign.c: In function 'fscan': falign.c:763:34: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*++q]; ^ falign.c:769:43: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*q]; ^ falign.c: In function 'bscan': falign.c:794:34: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*--q]; ^ falign.c:800:43: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*q]; ^ falign.c: In function 'rfscan': falign.c:870:34: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*++q]; ^ falign.c:876:43: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*q]; ^ falign.c:881:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (df = diag_prev[len1+se2-pos]) { ^ falign.c:889:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (df = diag_prev[len1+se2-pos]) { ^ falign.c: In function 'trcscan': falign.c:1476:34: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*--q]; ^ falign.c:1482:43: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*q]; ^ falign.c: In function 'rclocal': falign.c:1547:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (pf = diag_prev[ocur_diag]) { ^ falign.c: In function 'enterS': falign.c:1897:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (s = findS(f->bgf)) { ^ falign.c: In function 'local': falign.c:1958:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (pf = diag_prev[cur_diag]) { ^ falign.c: In function 'align': falign.c:1999:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (pf = cdiag_prev[cur_diag]) { ^ falign.c: In function 'calign': falign.c:2054:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (pf = cdiag_prev[cur_diag]) { ^ falign.c: In function 'malign': falign.c:2109:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (pf = cdiag_prev[cur_diag]) { ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF g_any.c g_any.c: In function 'k_align': g_any.c:212:10: warning: array subscript has type 'char' [-Wchar-subscripts] va = vv[A[i+1]]; ^ g_any.c:229:26: warning: array subscript has type 'char' [-Wchar-subscripts] if (j < J2) c = s + va[B[j+1]]; ^ g_any.c:319:10: warning: array subscript has type 'char' [-Wchar-subscripts] b2 = PP[t1][b1]; ^ g_any.c:322:10: warning: array subscript has type 'char' [-Wchar-subscripts] t2 = PT[t1][b1]; ^ g_any.c: In function 'z_ALIGN': g_any.c:367:7: warning: variable 'check_score' set but not used [-Wunused-but-set-variable] Int4 check_score; ^ g_any.c: In function 'CHECK_SCORE': g_any.c:492:13: warning: array subscript has type 'char' [-Wchar-subscripts] score = vv[A[++i]][B[++j]] + score; ^ g_any.c:492:21: warning: array subscript has type 'char' [-Wchar-subscripts] score = vv[A[++i]][B[++j]] + score; ^ g_any.c: At top level: g_any.c:428:13: warning: 'ALINE' defined but not used [-Wunused-variable] static Char ALINE[51], BLINE[51], CLINE[51]; ^ g_any.c:428:24: warning: 'BLINE' defined but not used [-Wunused-variable] static Char ALINE[51], BLINE[51], CLINE[51]; ^ g_any.c:428:35: warning: 'CLINE' defined but not used [-Wunused-variable] static Char ALINE[51], BLINE[51], CLINE[51]; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF sim2.c sim2.c: In function 'SIM2': sim2.c:19:16: warning: unused variable 'compB' [-Wunused-variable] CharPtr A, B, compB = NULL; ^ sim2.c:17:26: warning: unused variable 'sapC' [-Wunused-variable] SeqAlignPtr sap = NULL, sapC=NULL, out_sap, out_sapC; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF sim3.c sim3.c: In function 'locate': sim3.c:103:34: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*p++]; ^ sim3.c:105:43: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*p++]; ^ sim3.c:113:48: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*p++]; ^ sim3.c:115:57: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*p++]; ^ sim3.c:129:48: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = (ecode << 2) + encoding[*p++]; ^ sim3.c:133:57: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*p++]; ^ sim3.c:152:45: warning: array subscript has type 'char' [-Wchar-subscripts] ecode1 = ((ecode1 & mask) << 2) + encoding[*q++]; ^ sim3.c:155:57: warning: array subscript has type 'char' [-Wchar-subscripts] ecode = ((ecode & mask) << 2) + encoding[*p++]; ^ sim3.c: At top level: sim3.c:806:13: warning: 'Print_Script' defined but not used [-Wunused-function] static void Print_Script(EditScriptPtr head, Int4 M, Int4 N, CharPtr A, CharPtr B) ^ sim3.c:1048:13: warning: 'get_start_pos' defined but not used [-Wunused-function] static Int4 get_start_pos(SeqLocPtr slp) ^ sim3.c:1056:13: warning: 'get_current_pos' defined but not used [-Wunused-function] static Int4 get_current_pos(Int4Ptr pos, Int4 length) ^ sim3.c:1067:16: warning: 'is_end_seg' defined but not used [-Wunused-function] static Boolean is_end_seg(EditScriptPtr curr, EditScriptPtr head) ^ sim3.c: In function 'locate': sim3.c:230:17: warning: 'paired_bj' may be used uninitialized in this function [-Wmaybe-uninitialized] *j2 = paired_bj+1; ^ sim3.c:229:6: warning: 'paired_fj' may be used uninitialized in this function [-Wmaybe-uninitialized] *j1 = paired_fj; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF sim4.c sim4.c: In function 'sim4x': sim4.c:630:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while(i1 = sgp->Blist[i].next) { ^ sim4.c: In function 'greedy': sim4.c:1770:17: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (row == 0 && col == 0) ^ sim4.c:1794:17: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (row == 0) ^ sim4.c:1838:17: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (col == 0) ^ sim4.c:1962:19: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (row == m && col == n) ^ sim4.c:1991:19: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (row == m) ^ sim4.c:2037:19: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (col == n) ^ sim4.c: In function 'DISPLAY': sim4.c:2625:35: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if (a >= ALINE+50 || i >= M && j >= N) ^ sim4.c: At top level: sim4.c:2563:13: warning: 'S2A' defined but not used [-Wunused-function] static void S2A(EditScriptPtr head, Int4Ptr S) ^ sim4.c:2592:13: warning: 'DISPLAY' defined but not used [-Wunused-function] static void DISPLAY(Int1 A[], Int1 B[], Int4 M, Int4 N, Int4 S[], Int4 AP, Int4 BP) ^ sim4.c:2499:13: warning: 'Print_Script' defined but not used [-Wunused-function] static void Print_Script(EditScriptPtr head, Int4 M, Int4 N, data_t *data) ^ sim4.c: In function 'locate': sim4.c:2919:19: warning: 'paired_bj' may be used uninitialized in this function [-Wmaybe-uninitialized] *j2 = paired_bj + 1; ^ sim4.c:2918:7: warning: 'paired_fj' may be used uninitialized in this function [-Wmaybe-uninitialized] *j1 = paired_fj; ^ sim4.c: In function 'greedy.isra.12': sim4.c:2112:37: warning: 'forth' may be used uninitialized in this function [-Wmaybe-uninitialized] if (m-min_row[back]>=max_row[forth]) { ^ sim4.c:2112:22: warning: 'back' may be used uninitialized in this function [-Wmaybe-uninitialized] if (m-min_row[back]>=max_row[forth]) { ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF simutil.c simutil.c: In function 'make_align': simutil.c:495:9: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ simutil.c: At top level: simutil.c:344:17: warning: 'convert' defined but not used [-Wunused-function] static ScorePtr convert(Int4Ptr x, Int4Ptr y, Int4Ptr start, Int4Ptr length, Int4 n, SeqLocPtr locx, SeqLocPtr locy, Int2Ptr numseg, FloatHiPtr SegScores) ^ simutil.c:814:16: warning: 're_cal_score' defined but not used [-Wunused-function] static FloatHi re_cal_score(RecordEndsPtr o_rep, RecordEndsPtr n_rep) ^ simutil.c:848:16: warning: 'is_alu_seq' defined but not used [-Wunused-function] static Boolean is_alu_seq(CharPtr name) ^ simutil.c: In function 'sort_align_list': simutil.c:602:20: warning: 'score2' may be used uninitialized in this function [-Wmaybe-uninitialized] if (score2 > score1) { /* swap */ ^ simutil.c:602:20: warning: 'score1' may be used uninitialized in this function [-Wmaybe-uninitialized] simutil.c: In function 'get_top_K_alignment': simutil.c:659:16: warning: 'score' may be used uninitialized in this function [-Wmaybe-uninitialized] if (score < cut_off) break; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF slist.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF sec.c sec.c: In function 'Region': sec.c:268:19: warning: array subscript has type 'char' [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:268:28: warning: array subscript has type 'char' [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:292:19: warning: array subscript has type 'char' [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:292:28: warning: array subscript has type 'char' [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:321:19: warning: array subscript has type 'char' [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:321:28: warning: array subscript has type 'char' [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:345:19: warning: array subscript has type 'char' [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:345:28: warning: array subscript has type 'char' [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:428:35: warning: array subscript has type 'char' [-Wchar-subscripts] diag_score = diag_score + V[seq1[i]][seq2[j]]; ^ sec.c:428:44: warning: array subscript has type 'char' [-Wchar-subscripts] diag_score = diag_score + V[seq1[i]][seq2[j]]; ^ sec.c:504:11: warning: 'old_l' may be used uninitialized in this function [-Wmaybe-uninitialized] LB[i] = old_l; ^ sec.c:72:37: warning: 'ppj' may be used uninitialized in this function [-Wmaybe-uninitialized] #define Min(x,y) ((x) <= (y) ? (x) : (y)) ^ sec.c:172:20: note: 'ppj' was declared here Int4 pi, pj, ppi, ppj; ^ sec.c:172:15: warning: 'ppi' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 pi, pj, ppi, ppj; ^ sec.c:172:7: warning: 'pi' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 pi, pj, ppi, ppj; ^ sec.c:502:10: warning: 'ej' may be used uninitialized in this function [-Wmaybe-uninitialized] tr = Min(cj + Width, ej); ^ sec.c:163:15: warning: 'ei' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 bi, bj, ei, ej, t; ^ sec.c:71:37: warning: 'bj' may be used uninitialized in this function [-Wmaybe-uninitialized] #define Max(x,y) ((x) >= (y) ? (x) : (y)) ^ sec.c:163:11: note: 'bj' was declared here Int4 bi, bj, ei, ej, t; ^ In file included from ../include/ncbi.h:59:0, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/simutil.h:77, from sec.c:67: ../include/ncbimem.h:232:23: warning: 'bi' may be used uninitialized in this function [-Wmaybe-uninitialized] #define MemFree Nlm_MemFree ^ sec.c:163:7: note: 'bi' was declared here Int4 bi, bj, ei, ej, t; ^ In file included from ../include/ncbi.h:59:0, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/simutil.h:77, from sec.c:67: ../include/ncbimem.h:232:23: warning: 'RB' may be used uninitialized in this function [-Wmaybe-uninitialized] #define MemFree Nlm_MemFree ^ sec.c:159:10: note: 'RB' was declared here Int4Ptr RB; ^ In file included from ../include/ncbi.h:59:0, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/simutil.h:77, from sec.c:67: ../include/ncbimem.h:232:23: warning: 'LB' may be used uninitialized in this function [-Wmaybe-uninitialized] #define MemFree Nlm_MemFree ^ sec.c:158:10: note: 'LB' was declared here Int4Ptr LB; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF tfuns.c tfuns.c: In function 'find_orf': tfuns.c:846:26: warning: unused variable 'into' [-Wunused-variable] IntFuzzPtr infrom=NULL, into=NULL; ^ tfuns.c:846:13: warning: unused variable 'infrom' [-Wunused-variable] IntFuzzPtr infrom=NULL, into=NULL; ^ tfuns.c: At top level: tfuns.c:956:13: warning: 'find_orf_from_circle' defined but not used [-Wunused-function] static void find_orf_from_circle (SeqPortPtr spp, Boolean flagIsCircle, ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF toasn3.c toasn3.c: In function 'FindOrg': toasn3.c:1311:17: warning: variable 'len' set but not used [-Wunused-but-set-variable] Int4 len; ^ toasn3.c: In function 'CheckQualsWithComm': toasn3.c:1592:18: warning: variable 'orp' set but not used [-Wunused-but-set-variable] OrgRefPtr orp; ^ toasn3.c: In function 'CheckQuals': toasn3.c:1629:18: warning: variable 'orp' set but not used [-Wunused-but-set-variable] OrgRefPtr orp; ^ toasn3.c: In function 'CountSourceFeat': toasn3.c:2415:13: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ toasn3.c:2406:19: warning: variable 'vnp' set but not used [-Wunused-but-set-variable] ValNodePtr vnp; ^ toasn3.c: In function 'TASNTrimInternalSemicolons': toasn3.c:3986:12: warning: variable 'tmp' set but not used [-Wunused-but-set-variable] CharPtr tmp; ^ toasn3.c: In function 'ImpFeatToProtRef': toasn3.c:4672:13: warning: variable 'lfree' set but not used [-Wunused-but-set-variable] Boolean lfree = FALSE, partial5, partial3; ^ toasn3.c: In function 'RemovePeptideImpFeats': toasn3.c:4967:24: warning: variable 'ifp' set but not used [-Wunused-but-set-variable] ImpFeatPtr ifp; ^ In file included from ../include/asn2ff6.h:142:0, from toasn3.c:19: toasn3.c: At top level: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ toasn3.c:1572:16: warning: 'GetQualValue' defined but not used [-Wunused-function] static CharPtr GetQualValue(GBQualPtr gbqual, CharPtr qual) ^ toasn3.c: In function 'GetOriginalBeforeAdjustment': toasn3.c:4185:29: warning: 'last' may be used uninitialized in this function [-Wmaybe-uninitialized] if (last != NULL && last->choice != SEQLOC_INT) /* this is too weird */ ^ toasn3.c: In function 'FixNucProtSet': toasn3.c:2057:21: warning: 'bseg' may be used uninitialized in this function [-Wmaybe-uninitialized] bseg->descr = descr; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF toporg.c toporg.c: In function 'ChkSegset': toporg.c:62:51: warning: variable 'is_title' set but not used [-Wunused-but-set-variable] Boolean is_org = FALSE, is_modif = FALSE, is_title = FALSE; ^ toporg.c:61:17: warning: variable 'orp' set but not used [-Wunused-but-set-variable] OrgRefPtr orp; ^ toporg.c:58:17: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ toporg.c:53:17: warning: variable 'vnp' set but not used [-Wunused-but-set-variable] ValNodePtr vnp = NULL, set_vnp = NULL, upd_date_vnp = NULL; ^ toporg.c: In function 'ChkNucProt': toporg.c:594:51: warning: variable 'is_title' set but not used [-Wunused-but-set-variable] Boolean is_org = FALSE, is_modif = FALSE, is_title = FALSE; ^ toporg.c: In function 'StripBSfromParts': toporg.c:1280:17: warning: variable 'empty' set but not used [-Wunused-but-set-variable] Boolean empty; ^ toporg.c:1279:17: warning: variable 'bsmp' set but not used [-Wunused-but-set-variable] BSMapPtr bsmp; ^ toporg.c:1278:29: warning: variable 'set_vnp' set but not used [-Wunused-but-set-variable] ValNodePtr descr, vnp, set_vnp; ^ toporg.c: In function 'MapsToGenref': toporg.c:1944:17: warning: variable 'loc' set but not used [-Wunused-but-set-variable] SeqLocPtr loc; ^ toporg.c:1939:17: warning: variable 'descr' set but not used [-Wunused-but-set-variable] ValNodePtr descr = NULL, head, last, vnp; ^ toporg.c: In function 'FindOldLineage': toporg.c:2521:17: warning: variable 'lineage' set but not used [-Wunused-but-set-variable] CharPtr lineage; ^ toporg.c: In function 'ArePubsMergeableForFig': toporg.c:4461:36: warning: logical not is only applied to the left hand side of comparison [-Wlogical-not-parentheses] || !cgp_fig->serial_number != cgp_nofig->serial_number) { ^ toporg.c: In function 'StripBadTitleFromProteinProducts': toporg.c:4968:22: warning: variable 'tech' set but not used [-Wunused-but-set-variable] Uint1 tech; ^ toporg.c: At top level: toporg.c:3010:13: warning: 'BarCodeTechToKeyword' defined but not used [-Wunused-function] static void BarCodeTechToKeyword (BioseqPtr bsp, Pointer userdata) ^ toporg.c: In function 'MergeEquivCitSubs': toporg.c:3782:7: warning: 'csp1' may be used uninitialized in this function [-Wmaybe-uninitialized] if (DateMatch (csp1->date, csp2->date, FALSE) != 0) return FALSE; ^ toporg.c:3802:18: note: 'csp1' was declared here CitSubPtr csp1, csp2; ^ toporg.c: In function 'CheckMaps': toporg.c:1715:11: warning: 'to' may be used uninitialized in this function [-Wmaybe-uninitialized] sip->to = to; ^ toporg.c:1696:24: note: 'to' was declared here Int4 from, to; ^ toporg.c:1714:13: warning: 'from' may be used uninitialized in this function [-Wmaybe-uninitialized] sip->from = from; ^ toporg.c:1696:18: note: 'from' was declared here Int4 from, to; ^ toporg.c: In function 'ConvertSegSetToDeltaSeq': toporg.c:6566:3: warning: 'entityID' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqMgrClearFeatureIndexes (entityID, NULL); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF pobutil.c pobutil.c: In function 'build_repeat_feat': pobutil.c:187:7: warning: unused variable 'c' [-Wunused-variable] Char c='%'; ^ pobutil.c: In function 'merge_StdSeg': pobutil.c:1033:7: warning: variable 'start_1' set but not used [-Wunused-but-set-variable] Int4 start_1, stop_1, start_2, stop_2; ^ pobutil.c:1031:7: warning: unused variable 'overlap' [-Wunused-variable] Int4 overlap = -1; ^ In file included from ../include/ncbi.h:59:0, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/seqport.h:47, from ../include/pobutil.h:7, from pobutil.c:3: pobutil.c: In function 'FindHumanRepeats': ../include/ncbimem.h:191:21: warning: 'memset' used with constant zero length parameter; this could be due to transposed parameters [-Wmemset-transposed-args] #define Nlm_MemSet memset ^ ../include/ncbimem.h:210:17: note: in expansion of macro 'Nlm_MemSet' #define MemSet Nlm_MemSet ^ pobutil.c:2380:2: note: in expansion of macro 'MemSet' MemSet((Pointer) (&tmp), sizeof(ValNode), 0); ^ ../include/ncbimem.h:191:21: warning: 'memset' used with constant zero length parameter; this could be due to transposed parameters [-Wmemset-transposed-args] #define Nlm_MemSet memset ^ ../include/ncbimem.h:210:17: note: in expansion of macro 'Nlm_MemSet' #define MemSet Nlm_MemSet ^ pobutil.c:2381:2: note: in expansion of macro 'MemSet' MemSet((Pointer) (&si), sizeof(SeqInt), 0); ^ pobutil.c: In function 'AluFeat': pobutil.c:2431:10: warning: variable 'my_userdata' set but not used [-Wunused-but-set-variable] Pointer my_userdata; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF stsutil.c stsutil.c: In function 'InitSTSSearch_r': stsutil.c:270:10: warning: unused variable 'StsCount' [-Wunused-variable] Int4 StsCount=0; ^ stsutil.c: In function 'GetSTSEntry': stsutil.c:635:13: warning: variable 'p' set but not used [-Wunused-but-set-variable] CharPtr p; ^ stsutil.c: In function 'STSCalculateHash': stsutil.c:753:26: warning: array subscript has type 'char' [-Wchar-subscripts] if ((j = HashCode[*p++]) < 0) ^ stsutil.c: In function 'STSReverse': stsutil.c:771:28: warning: array subscript has type 'char' [-Wchar-subscripts] if ((*t = ComplCode[*s]) == 0) ^ stsutil.c: In function 'InitHashTable': stsutil.c:910:21: warning: variable 'sts_uid' set but not used [-Wunused-but-set-variable] CharPtr gb_uid, sts_uid; ^ stsutil.c:910:13: warning: variable 'gb_uid' set but not used [-Wunused-but-set-variable] CharPtr gb_uid, sts_uid; ^ stsutil.c:908:23: warning: variable 'gi' set but not used [-Wunused-but-set-variable] Int4 id_sts, len, gi, StsCount = 0, StsInvalid =0; ^ stsutil.c:908:10: warning: variable 'id_sts' set but not used [-Wunused-but-set-variable] Int4 id_sts, len, gi, StsCount = 0, StsInvalid =0; ^ stsutil.c:907:23: warning: unused variable 'error' [-Wunused-variable] Int4 LineLength, error= FALSE; ^ stsutil.c: At top level: stsutil.c:892:13: warning: 'STSHashInitFree' defined but not used [-Wunused-function] static void STSHashInitFree(STSHashInitPtr sts) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF suggadj.c suggadj.c: In function 'score_possible_splice_sites': suggadj.c:874:13: warning: array subscript has type 'char' [-Wchar-subscripts] score = ( vx[seq_or_rev[putative_donor]]==3) ?10:0; ^ suggadj.c:875:13: warning: array subscript has type 'char' [-Wchar-subscripts] score += (vx[seq_or_rev[putative_acceptor]]==3 )?10:0; ^ suggadj.c:878:14: warning: array subscript has type 'char' [-Wchar-subscripts] score += ( vx[seq_or_rev[putative_donor+1]]==0 )?3:0; ^ suggadj.c:879:14: warning: array subscript has type 'char' [-Wchar-subscripts] score += ( vx[seq_or_rev[putative_acceptor-1]]==2 )?3:0; ^ suggadj.c: In function 'check_split_codon': suggadj.c:985:29: warning: array subscript has type 'char' [-Wchar-subscripts] val_assuming_1_from_left= vx[seq_or_rev[left_ends+1]] * 16 + ^ suggadj.c:986:4: warning: array subscript has type 'char' [-Wchar-subscripts] vx[seq_or_rev[right_starts-2]]*4+ ^ suggadj.c:987:4: warning: array subscript has type 'char' [-Wchar-subscripts] vx[seq_or_rev[right_starts-1]]; ^ suggadj.c:998:29: warning: array subscript has type 'char' [-Wchar-subscripts] val_assuming_2_from_left= vx[seq_or_rev[left_ends+1]] * 16 + ^ suggadj.c:999:4: warning: array subscript has type 'char' [-Wchar-subscripts] vx[seq_or_rev[left_ends+2]] * 4 + ^ suggadj.c:1000:4: warning: array subscript has type 'char' [-Wchar-subscripts] vx[seq_or_rev[right_starts-1]]; ^ suggadj.c: In function 'overlapping_fixer': suggadj.c:1370:18: warning: array subscript has type 'char' [-Wchar-subscripts] test_val = vx[seq_or_rev[left_exon_ends]]*16 + ^ suggadj.c:1371:8: warning: array subscript has type 'char' [-Wchar-subscripts] vx[seq_or_rev[right_exon_starts-1]]; ^ suggadj.c:1373:20: warning: array subscript has type 'char' [-Wchar-subscripts] test_val += vx[seq_or_rev[right_exon_starts-2]]*4; ^ suggadj.c:1375:20: warning: array subscript has type 'char' [-Wchar-subscripts] test_val += vx[seq_or_rev[left_exon_ends+1]]*4; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF suggest.c suggest.c: In function 'get_frames': suggest.c:458:12: warning: array subscript has type 'char' [-Wchar-subscripts] val = vx[t[0]]*16 + vx[t[1]]*4 + vx[(t==t_max)?'N':t[2]]; ^ suggest.c:458:26: warning: array subscript has type 'char' [-Wchar-subscripts] val = vx[t[0]]*16 + vx[t[1]]*4 + vx[(t==t_max)?'N':t[2]]; ^ suggest.c: At top level: suggest.c:1222:1: warning: 'fprintf_m_stk_entry' defined but not used [-Wunused-function] fprintf_m_stk_entry(FILE *fp, Int4 index, char *msg) ^ suggest.c:1331:13: warning: 'ReportSuggestIntervalsError' defined but not used [-Wunused-function] static void ReportSuggestIntervalsError (SeqRecPtr srp, CharPtr gen_txt) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF suggslp.c suggslp.c: In function 'MakeReverseSequence': suggslp.c:190:11: warning: array subscript has type 'char' [-Wchar-subscripts] *t++ = r[*--s]; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast.c blast.c: In function 'BlastReevaluateWithAmbiguities': blast.c:2954:24: warning: variable 'query_end' set but not used [-Wunused-but-set-variable] Uint1Ptr query_start, query_end, subject_real_start=NULL; ^ blast.c:2949:16: warning: variable 'hspcnt' set but not used [-Wunused-but-set-variable] Int4 context, hspcnt, hspcnt_max, index, index1, status; ^ blast.c: In function 'BlastGetVirtualOIDList': blast.c:3179:9: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (virtual_oidlist = rdfp_chain->oidlist) { ^ blast.c: In function 'BlastGetDbChunk': blast.c:3210:9: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (virtual_oidlist = BlastGetVirtualOIDList(rdfp)) { ^ blast.c: In function 'BlastCreateQueryDNAP': blast.c:4100:11: warning: variable 'strand_option' set but not used [-Wunused-but-set-variable] Uint1 strand_option; ^ blast.c: In function 'BlastWordFinder_contig': blast.c:7094:16: warning: variable 'bits_to_shift' set but not used [-Wunused-but-set-variable] register Int4 bits_to_shift, min_diag_length, min_diag_mask; ^ blast.c: In function 'BlastWordExtend': blast.c:7835:46: warning: variable 'leftscore' set but not used [-Wunused-but-set-variable] BLAST_Score leftsum, rightsum, rightscore, leftscore; ^ blast.c: In function 'BlastNewWordExtend': blast.c:7982:46: warning: variable 'leftscore' set but not used [-Wunused-but-set-variable] BLAST_Score leftsum, rightsum, rightscore, leftscore; ^ blast.c: In function 'BlastNtWordFinder_mh': blast.c:8843:23: warning: variable 'bits_to_shift' set but not used [-Wunused-but-set-variable] register Int4 bits_to_shift, min_diag_length, min_diag_mask; ^ blast.c:8842:103: warning: variable 'compression_factor' set but not used [-Wunused-but-set-variable] Int4 s_pos, q_off, s_off, offset, virtual_wordsize, wordsize, compressed_wordsize, compression_factor; ^ blast.c: In function 'BlastNtWordFinder': blast.c:9076:14: warning: variable 'bits_to_shift' set but not used [-Wunused-but-set-variable] Int4 bits_to_shift, min_diag_length, min_diag_mask; ^ blast.c: In function 'BlastSaveCurrentHitlist': blast.c:10115:11: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if( hitlist_max > 1 ) ^ blast.c:9785:7: warning: variable 'query_length' set but not used [-Wunused-but-set-variable] Int4 query_length; ^ blast.c: In function 'SumHSPEvalue': blast.c:10588:9: warning: variable 'gap_size' set but not used [-Wunused-but-set-variable] Int4 gap_size, num, subject_length; ^ blast.c: In function 'link_hsps': blast.c:11267:10: warning: variable 'frame_change' set but not used [-Wunused-but-set-variable] Boolean frame_change, linked_set, ignore_small_gaps; ^ blast.c: In function 'BLASTMergeHitLists': blast.c:6256:24: warning: 'op_type' may be used uninitialized in this function [-Wmaybe-uninitialized] esp2->op_type = op_type; ^ blast.c:6058:10: note: 'op_type' was declared here Uint1 op_type; ^ In file included from ../include/ncbi.h:59:0, from blast.c:2572: blast.c: In function 'blastMergeFilterLocs': ../include/ncbimem.h:232:23: warning: 'dup_slp' may be used uninitialized in this function [-Wmaybe-uninitialized] #define MemFree Nlm_MemFree ^ blast.c:3933:20: note: 'dup_slp' was declared here SeqLocPtr slp, dup_slp, dup_head; ^ blast.c: In function 'BlastLinkHsps': blast.c:10455:41: warning: 'orig_hitlist' may be used uninitialized in this function [-Wmaybe-uninitialized] search->current_hitlist = orig_hitlist; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blastutl.c blastutl.c: In function 'BlastSeqLocFilterEx': blastutl.c:7554:11: warning: statement with no effect [-Wunused-value] stop_timer("after repeat filtering"); ^ blastutl.c: In function 'BlastPreliminaryGappedScore': blastutl.c:9853:30: warning: variable 'query_length' set but not used [-Wunused-but-set-variable] Int4 index, max_offset = 0, query_length, min_score; ^ blastutl.c: In function 'BlastGetGappedScore': blastutl.c:10282:11: warning: statement with no effect [-Wunused-value] stop_timer("after BlastGappedScoreInternal"); ^ blastutl.c: In function 'BlastNtFindWords': blastutl.c:11445:10: warning: 'end' may be used uninitialized in this function [-Wmaybe-uninitialized] end = MIN(end, len-initial_wordsize); ^ blastutl.c: In function 'BlastFindWords': blastutl.c:11623:8: warning: 'stop' may be used uninitialized in this function [-Wmaybe-uninitialized] stop = MIN(stop, len); ^ blastutl.c:11711:18: warning: 'start_score' may be used uninitialized in this function [-Wmaybe-uninitialized] start_score2 += matrix[(Int4) *(str+index2)][*(words+index2)]; ^ blastutl.c:11704:17: warning: 'first_score' may be used uninitialized in this function [-Wmaybe-uninitialized] start_score = second_score+first_score; ^ blastutl.c:11695:11: warning: 'diff' may be used uninitialized in this function [-Wmaybe-uninitialized] diff2 += diff; ^ blastutl.c: In function 'BlastNewFindWords_Old': blastutl.c:11931:18: warning: 'start_score' may be used uninitialized in this function [-Wmaybe-uninitialized] start_score2 += MtrxScorePosSearch(search->sbp, ^ blastutl.c:11924:17: warning: 'first_score' may be used uninitialized in this function [-Wmaybe-uninitialized] start_score = second_score+first_score; ^ blastutl.c:11915:11: warning: 'diff' may be used uninitialized in this function [-Wmaybe-uninitialized] diff2 += diff; ^ blastutl.c: In function 'BlastNewFindWordsEx': blastutl.c:12124:30: warning: 'start_score' may be used uninitialized in this function [-Wmaybe-uninitialized] start_score2 += posMatrix[offset+index2][*(words+index2)]; ^ blastutl.c:12118:29: warning: 'first_score' may be used uninitialized in this function [-Wmaybe-uninitialized] start_score = second_score + first_score; ^ blastutl.c:12110:23: warning: 'diff' may be used uninitialized in this function [-Wmaybe-uninitialized] diff2 += diff; ^ blastutl.c: In function 'RealBlastGetGappedAlignmentTraceback': blastutl.c:9008:42: warning: 'seqalign_array' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqAlignPtr seqalign, seqalign_var, *seqalign_array; ^ blastutl.c: In function 'SumBlastGetGappedAlignmentEx': blastutl.c:9670:33: warning: 'stop' may be used uninitialized in this function [-Wmaybe-uninitialized] HeapSort(hsp_array+start,(stop-start),sizeof(BLAST_HSPPtr), score_compare_hsps); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blastool.c blastool.c: In function 'OOFBlastHSPGetNumIdentical': blastool.c:6081:9: warning: variable 'context' set but not used [-Wunused-but-set-variable] Int2 context; ^ blastool.c: In function 'BlastCreateVirtualOIDList': blastool.c:2556:24: warning: 'gilist' may be used uninitialized in this function [-Wmaybe-uninitialized] BlastDoubleInt4Ptr gilist, real_gilist = NULL, *real_gilist_ptrs = NULL; ^ blastool.c: In function 'BlastInsertList2Heap': blastool.c:3595:31: warning: 'query_length' may be used uninitialized in this function [-Wmaybe-uninitialized] context = hsp->query_offset / query_length; ^ blastool.c: In function 'BlastFreeHeap': blastool.c:3687:31: warning: 'query_length' may be used uninitialized in this function [-Wmaybe-uninitialized] context = hsp->query_offset / query_length; ^ blastool.c: In function 'BLASTFilterOverlapRegions': blastool.c:4531:24: warning: 'next_tail' may be used uninitialized in this function [-Wmaybe-uninitialized] tail->next = seqalign; ^ blastool.c: In function 'BlastPrintAlignInfo': blastool.c:4800:23: warning: 'sap' may be used uninitialized in this function [-Wmaybe-uninitialized] sap->next = SeqAlignNew(); ^ In file included from ../include/ncbi.h:59:0, from blastool.c:946: blastool.c: In function 'MegaBlastPrintAlignInfo': ../include/ncbimem.h:232:23: warning: 'subject_seq_buffer' may be used uninitialized in this function [-Wmaybe-uninitialized] #define MemFree Nlm_MemFree ^ blastool.c:5046:30: note: 'subject_seq_buffer' was declared here CharPtr query_seq_buffer, subject_seq_buffer; ^ In file included from ../include/ncbi.h:59:0, from blastool.c:946: ../include/ncbimem.h:232:23: warning: 'query_seq_buffer' may be used uninitialized in this function [-Wmaybe-uninitialized] #define MemFree Nlm_MemFree ^ blastool.c:5046:12: note: 'query_seq_buffer' was declared here CharPtr query_seq_buffer, subject_seq_buffer; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blastconcat.c blastconcat.c: In function 'BlastMakeFakeBspConcat': blastconcat.c:648:12: warning: variable 'slp' set but not used [-Wunused-but-set-variable] SeqLocPtr slp = NULL; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF splutil.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF gapxdrop.c gapxdrop.c: In function 'ALIGN_EX': gapxdrop.c:864:10: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (s == 1) ^ gapxdrop.c:867:10: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (s == 2) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF bandalg0.c bandalg0.c: In function 'g_band0_align': bandalg0.c:273:9: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if(leftd >= 1) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF bandalg1.c bandalg1.c: In function 'gband_quadratic': bandalg1.c:54:14: warning: variable 'j' set but not used [-Wunused-but-set-variable] Int4 c, i, j; ^ bandalg1.c: In function 'g_band1_align': bandalg1.c:205:7: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if(leftd >= 1) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF bandalg2.c bandalg2.c: In function 'gb_linear_align': bandalg2.c:208:24: warning: variable 'misma' set but not used [-Wunused-but-set-variable] register Int4 match, misma; ^ bandalg2.c:208:17: warning: variable 'match' set but not used [-Wunused-but-set-variable] register Int4 match, misma; ^ bandalg2.c:207:18: warning: variable 'AA' set but not used [-Wunused-but-set-variable] register Uint1 AA; ^ bandalg2.c:577:12: warning: 'Y' may be used uninitialized in this function [-Wmaybe-uninitialized] _INS(N - Y); ^ bandalg2.c:575:10: warning: 'X' may be used uninitialized in this function [-Wmaybe-uninitialized] _DEL(M - X) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF bandalg3.c bandalg3.c: In function 'gband_linear_qgap': bandalg3.c:54:14: warning: variable 'j' set but not used [-Wunused-but-set-variable] Int4 c, i, j; ^ bandalg3.c:314:16: warning: 'Y' may be used uninitialized in this function [-Wmaybe-uninitialized] else if(Y != rightd) _INS(rightd-Y) ^ bandalg3.c:185:28: note: 'Y' was declared here Int4 ib, best=MININT, X, Y; ^ bandalg3.c:313:21: warning: 'X' may be used uninitialized in this function [-Wmaybe-uninitialized] if(X != M) _DEL(M - X) ^ bandalg3.c:185:25: note: 'X' was declared here Int4 ib, best=MININT, X, Y; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF bandalg4.c bandalg4.c: In function 'g_band4_align_small': bandalg4.c:826:8: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (e == 1) ^ bandalg4.c:829:8: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (e == 2) ^ bandalg4.c:630:8: warning: variable 'band' set but not used [-Wunused-but-set-variable] Int4 band, j; ^ bandalg4.c: In function 'g_band4_align': bandalg4.c:534:22: warning: 'Y' may be used uninitialized in this function [-Wmaybe-uninitialized] if(X != M || Y != N) regA = regB = 1; ^ bandalg4.c:534:12: warning: 'X' may be used uninitialized in this function [-Wmaybe-uninitialized] if(X != M || Y != N) regA = regB = 1; ^ bandalg4.c:569:7: warning: 'k' may be used uninitialized in this function [-Wmaybe-uninitialized] g_band4_align(A, B, r, r + rmid - 1, ^ bandalg4.c:857:37: warning: 'Y' may be used uninitialized in this function [-Wmaybe-uninitialized] else if (Y != rightd) _INS(rightd - Y); ^ bandalg4.c:640:28: note: 'Y' was declared here Int4 ib, best=MININT, X, Y; ^ In file included from bandalg4.c:37:0: ../include/bandalgn.h:140:76: warning: 'X' may be used uninitialized in this function [-Wmaybe-uninitialized] data->last = (data->last < 0) ? (data->sapp[-1] -= (k)) : (*data->sapp++ = -(k)); ^ bandalg4.c:640:25: note: 'X' was declared here Int4 ib, best=MININT, X, Y; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF bandalg5.c bandalg5.c: In function 'gband_q3gap': bandalg5.c:56:14: warning: variable 'j' set but not used [-Wunused-but-set-variable] Int4 c, i, j; ^ bandalg5.c: In function 'g_band5_align': bandalg5.c:292:8: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (e == 1) ^ bandalg5.c:295:8: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (e == 2) ^ bandalg5.c: In function 'gband_q3gap': bandalg5.c:320:6: warning: 'Y' may be used uninitialized in this function [-Wmaybe-uninitialized] if (Y != rightd) _INS(rightd - Y); ^ bandalg5.c:146:28: note: 'Y' was declared here Int4 ib, best=MININT, X, Y; ^ bandalg5.c:319:22: warning: 'X' may be used uninitialized in this function [-Wmaybe-uninitialized] if (X != M) _DEL(M - X); ^ bandalg5.c:146:25: note: 'X' was declared here Int4 ib, best=MININT, X, Y; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF bandalgn.c bandalgn.c: In function 'ExtendSeqAlign': bandalgn.c:1113:22: warning: variable 'ddp' set but not used [-Wunused-but-set-variable] DenseDiagPtr ddp; ^ bandalgn.c: In function 'CC_ExtendSeqAlign': bandalgn.c:1188:22: warning: variable 'ddp' set but not used [-Wunused-but-set-variable] DenseDiagPtr ddp; ^ bandalgn.c: At top level: bandalgn.c:699:14: warning: 'HSblastna_to_ncbi4na' defined but not used [-Wunused-variable] static Uint1 HSblastna_to_ncbi4na[] = { 1, /* A, 0 */ ^ bandalgn.c: In function 'LocalBandToEditBlock': bandalgn.c:463:20: warning: 'edit_block' may be used uninitialized in this function [-Wmaybe-uninitialized] lbsp->edit_block = edit_block; ^ bandalgn.c: In function 'SetLowUpFromBlast': bandalgn.c:1053:7: warning: 'val' may be used uninitialized in this function [-Wmaybe-uninitialized] if (maxsc < val) { ^ bandalgn.c:1060:7: warning: 'alnlen' may be used uninitialized in this function [-Wmaybe-uninitialized] if (maxlen < alnlen) { ^ bandalgn.c:1070:9: warning: 'maxdi_up' may be used uninitialized in this function [-Wmaybe-uninitialized] maxy = MAX(maxy,maxdi_up); ^ bandalgn.c:1069:9: warning: 'mindi_low' may be used uninitialized in this function [-Wmaybe-uninitialized] miny = MIN(miny,mindi_low); ^ bandalgn.c:1062:10: warning: 'maxdi' may be used uninitialized in this function [-Wmaybe-uninitialized] maxy = maxdi + width; ^ bandalgn.c:1063:10: warning: 'mindi' may be used uninitialized in this function [-Wmaybe-uninitialized] miny = mindi - width; ^ bandalgn.c: In function 'GetAlignExtremes': bandalgn.c:1309:7: warning: 'y2' may be used uninitialized in this function [-Wmaybe-uninitialized] *yy2 = y2; ^ bandalgn.c:1308:7: warning: 'y1' may be used uninitialized in this function [-Wmaybe-uninitialized] *yy1 = y1; ^ bandalgn.c:1307:7: warning: 'x2' may be used uninitialized in this function [-Wmaybe-uninitialized] *xx2 = x2; ^ bandalgn.c:1306:7: warning: 'x1' may be used uninitialized in this function [-Wmaybe-uninitialized] *xx1 = x1; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blastkar.c blastkar.c:1053:21: warning: 'blosum62_20_values' defined but not used [-Wunused-variable] static Nlm_FloatHi blosum62_20_values[BLOSUM62_20_VALUES_MAX][8] = { ^ blastkar.c:1121:13: warning: 'blosum62_20_prefs' defined but not used [-Wunused-variable] static Int4 blosum62_20_prefs[BLOSUM62_20_VALUES_MAX] = { ^ blastkar.c:2347:25: warning: 'Dayhoff_prob' defined but not used [-Wunused-variable] static BLAST_LetterProb Dayhoff_prob[] = { ^ blastkar.c:2373:25: warning: 'Altschul_prob' defined but not used [-Wunused-variable] static BLAST_LetterProb Altschul_prob[] = { ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF actutils.c actutils.c: In function 'SlideToHit': actutils.c:346:23: warning: variable 'done' set but not used [-Wunused-but-set-variable] Boolean inIsland, done; ^ actutils.c:346:13: warning: variable 'inIsland' set but not used [-Wunused-but-set-variable] Boolean inIsland, done; ^ actutils.c: In function 'ResolveSpinConflict': actutils.c:1484:35: warning: unused variable 'row2_conflict' [-Wunused-variable] Boolean row1_conflict = FALSE, row2_conflict = FALSE; ^ actutils.c:1484:12: warning: unused variable 'row1_conflict' [-Wunused-variable] Boolean row1_conflict = FALSE, row2_conflict = FALSE; ^ actutils.c: In function 'ACT_FindBestAlnByDotPlot': actutils.c:2002:20: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ actutils.c:2001:20: warning: variable 'start2' set but not used [-Wunused-but-set-variable] Int4 start2; ^ actutils.c:2000:20: warning: variable 'start1' set but not used [-Wunused-but-set-variable] Int4 start1; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from ../include/actutils.h:105, from actutils.c:232: actutils.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ actutils.c:749:13: warning: 'StateTableSearch' defined but not used [-Wunused-function] static void StateTableSearch (TextFsaPtr tbl, CharPtr txt, Int4Ptr state, Int4 pos, ACT_sitelistPtr PNTR asp_prev, ACT_sitelistPtr PNTR asp_head) ^ actutils.c:1375:16: warning: 'am_isa_gap' defined but not used [-Wunused-function] static Boolean am_isa_gap(Int4 start, Int4 prevstop, Uint1 strand) ^ actutils.c:1392:13: warning: 'am_fix_strand' defined but not used [-Wunused-function] static void am_fix_strand(SeqAlignPtr sap, Uint1 strand1, Uint1 strand2) ^ actutils.c:1654:16: warning: 'SpinsConflict' defined but not used [-Wunused-function] static Boolean SpinsConflict (SQN_nPtr spin1, SQN_nPtr spin2, Int4 fuzz, Int4 strand) ^ actutils.c:2927:13: warning: 'MapBioseqToBioseqSpecial' defined but not used [-Wunused-function] static Int4 MapBioseqToBioseqSpecial(SeqAlignPtr sap, Int4 begin, Int4 fin, Int4 pos, Int4 which_end) ^ actutils.c:3132:13: warning: 'DumpAlignments' defined but not used [-Wunused-function] static void DumpAlignments (SeqAlignPtr salp) ^ In file included from ../include/ncbi.h:59:0, from ../include/actutils.h:103, from actutils.c:232: actutils.c: In function 'GetOldBlastAlignmentPiece': ../include/ncbimem.h:232:23: warning: 'program' may be used uninitialized in this function [-Wmaybe-uninitialized] #define MemFree Nlm_MemFree ^ actutils.c:3089:25: note: 'program' was declared here CharPtr program; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF posit.c posit.c: In function 'posDemographics': posit.c:1110:17: warning: variable 'numSeqAligns' set but not used [-Wunused-but-set-variable] Int4 numseq, numSeqAligns; /*number of matching sequences and SeqAligns*/ ^ posit.c: In function 'posFreqsToMatrix': posit.c:1679:45: warning: operation on '*(*(posSearch->posPrivateMatrix + (sizetype)((long unsigned int)length * 8ul)) + (sizetype)((long unsigned int)a * 4ul))' may be undefined [-Wsequence-point] posSearch->posPrivateMatrix[length][a] = posSearch->posPrivateMatrix[length][a] = BLAST_SCORE_MIN; ^ posit.c: In function 'posComputePseudoFreqs': posit.c:1840:16: warning: variable 'lambda' set but not used [-Wunused-but-set-variable] Nlm_FloatHi lambda; /*Karlin-Altschul parameter*/ ^ posit.c: In function 'WposComputation': posit.c:1988:13: warning: variable 'numSeqAligns' set but not used [-Wunused-but-set-variable] Int4 i, numSeqAligns, numseq, qlength; ^ posit.c: In function 'posPrintInformation': posit.c:2319:8: warning: variable 'querySize' set but not used [-Wunused-but-set-variable] Int4 querySize; ^ posit.c: In function 'posFindAlignmentDimensions': posit.c:3064:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(nextLine, ALIGN_LINE_LENGTH,checkFile); ^ posit.c:3070:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(nextLine, ALIGN_LINE_LENGTH,checkFile); ^ posit.c:3079:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(nextLine, ALIGN_LINE_LENGTH,checkFile); ^ posit.c:3086:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(nextLine, ALIGN_LINE_LENGTH,checkFile); ^ posit.c: In function 'posPreprocessAlignment': posit.c:3137:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(nextLine, ALIGN_LINE_LENGTH,checkFile); ^ posit.c:3152:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(nextLine, ALIGN_LINE_LENGTH,checkFile); ^ posit.c: In function 'posReadAlignment': posit.c:3253:2: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(nextline, ALIGN_LINE_LENGTH,checkFile); ^ posit.c: In function 'posFindAlignmentDimensions': posit.c:3090:20: warning: 'testCountSeqs' may be used uninitialized in this function [-Wmaybe-uninitialized] testCountSeqs++; ^ posit.c: In function 'posComputeSequenceWeights': posit.c:1447:36: warning: 'intervalSigma' may be used uninitialized in this function [-Wmaybe-uninitialized] posSearch->posSigma[qplace] = intervalSigma; ^ posit.c:1424:11: warning: 'Sigma' may be used uninitialized in this function [-Wmaybe-uninitialized] if (Sigma > 0) { ^ posit.c: In function 'posReadCheckpoint': posit.c:2873:28: warning: 'j' may be used uninitialized in this function [-Wmaybe-uninitialized] if (i < pssm->numColumns || j < pssm->numRows) { ^ posit.c:2702:11: note: 'j' was declared here Int4 i, j, c; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF lookup.c In file included from ../include/blastdef.h:922:0, from ../include/blast.h:470, from lookup.c:309: lookup.c: In function 'MegaBlastBuildLookupTable': ../include/lookup.h:299:61: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] #define GET_EXTRA_CODE_18_OPT(s) (((*(s+1))<<2) | (*(s+2))) & MASK_EXTRA_OPT ^ lookup.c:1047:35: note: in expansion of macro 'GET_EXTRA_CODE_18_OPT' GET_EXTRA_CODE_18_OPT(seq)) & no_bit0; ^ ../include/lookup.h:299:61: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] #define GET_EXTRA_CODE_18_OPT(s) (((*(s+1))<<2) | (*(s+2))) & MASK_EXTRA_OPT ^ lookup.c:1051:35: note: in expansion of macro 'GET_EXTRA_CODE_18_OPT' GET_EXTRA_CODE_18_OPT(seq)) & no_bit0; ^ ../include/lookup.h:299:61: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] #define GET_EXTRA_CODE_18_OPT(s) (((*(s+1))<<2) | (*(s+2))) & MASK_EXTRA_OPT ^ lookup.c:1078:31: note: in expansion of macro 'GET_EXTRA_CODE_18_OPT' GET_EXTRA_CODE_18_OPT(seq) | bit0; ^ ../include/lookup.h:299:61: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] #define GET_EXTRA_CODE_18_OPT(s) (((*(s+1))<<2) | (*(s+2))) & MASK_EXTRA_OPT ^ lookup.c:1082:31: note: in expansion of macro 'GET_EXTRA_CODE_18_OPT' GET_EXTRA_CODE_18_OPT(seq) | bit0; ^ lookup.c:914:25: warning: variable 'extra_code' set but not used [-Wunused-but-set-variable] register Int4 ecode, extra_code; ^ lookup.c:975:10: warning: 'word_weight' may be used uninitialized in this function [-Wmaybe-uninitialized] if (word_weight >= 12) { ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF readdb.c readdb.c: In function 'readdb_parse_db_names': readdb.c:2498:12: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (**filenames == '"') ^ readdb.c: In function 's_GetBlastDirInfo': readdb.c:2729:32: warning: argument to 'sizeof' in 'memset' call is the same expression as the destination; did you mean to provide an explicit length? [-Wsizeof-pointer-memaccess] memset(blast_dir, 0, sizeof(blast_dir)); ^ readdb.c: In function 'readdb_read_alias_file': readdb.c:3162:29: warning: format '%lld' expects argument of type 'long long int *', but argument 3 has type 'Nlm_Int8 * {aka long int *}' [-Wformat=] sscanf(ptr, "%lld", &(rdbap->len)); ^ readdb.c: In function 'FindBlastDBFileEx': readdb.c:3475:33: warning: unused variable 'envp' [-Wunused-variable] CharPtr buffer, buffer1, envp = NULL; ^ readdb.c: In function 'readdb_new_internalEx': readdb.c:3553:25: warning: unused variable 'envp' [-Wunused-variable] CharPtr charptr, envp = NULL; ^ readdb.c: In function 'readdb_get_link': readdb.c:4747:12: warning: variable 'loaded_new' set but not used [-Wunused-but-set-variable] Boolean loaded_new = FALSE; ^ readdb.c:4746:24: warning: variable 'last_used' set but not used [-Wunused-but-set-variable] ReadDBFILEPtr last, last_used, rdfp_var; ^ readdb.c: In function 'readdb_check_oid': readdb.c:4891:38: warning: comparisons like 'X<=Y<=Z' do not have their mathematical meaning [-Wparentheses] if (rdfp_var->start <= oid <= rdfp_var->stop) ^ readdb.c: In function 'readdb_seqid2fasta': readdb.c:5231:22: warning: unused variable 'dummy_gi' [-Wunused-variable] Int4 dummy_gi = 0; /* Not used, should have been handled above. */ ^ readdb.c:5175:13: warning: unused variable 'chptr' [-Wunused-variable] CharPtr chptr = NULL; ^ readdb.c: In function 'FDBuildOldStyleDefline': readdb.c:6361:33: warning: argument to 'sizeof' in 'memset' call is the same expression as the destination; did you mean to provide an explicit length? [-Wsizeof-pointer-memaccess] MemSet(defline, '\0', sizeof(defline)); ^ readdb.c: In function 'FDBLoadMembershipsTable': readdb.c:8260:21: warning: variable 'fn_name' set but not used [-Wunused-but-set-variable] const char* fn_name = NULL; ^ readdb.c: In function 'SeqIdE2Index': readdb.c:8572:13: warning: unused variable 'tmp' [-Wunused-variable] CharPtr tmp, ptr=NULL; ^ readdb.c:8571:11: warning: unused variable 'tmptype' [-Wunused-variable] Uint1 tmptype; ^ readdb.c: In function 'SeqIdSetE2Index': readdb.c:8876:14: warning: variable 'oldanp' set but not used [-Wunused-but-set-variable] SeqIdPtr oldanp; ^ readdb.c: In function 'Fastacmd_Search_ex': readdb.c:12072:22: warning: variable 'guess_gi' set but not used [-Wunused-but-set-variable] Int4 guess_gi = -1; ^ readdb.c: In function 'DumpOneSequence': readdb.c:12409:14: warning: unused variable 'numeric_id' [-Wunused-variable] Boolean numeric_id = GetAccessionVersionFromSeqId(accn, &gi, &id, TRUE); ^ In file included from readdb.c:2055:0: readdb.c: At top level: ../include/ncbisami.h:183:14: warning: 'PowersOfTwo' defined but not used [-Wunused-variable] static Uint4 PowersOfTwo[] = {01,02,04,010,020,040,0100,0200,0400,01000, ^ ../include/ncbisami.h:191:14: warning: 'OneBit' defined but not used [-Wunused-variable] static Uint1 OneBit[] = {0x80 , 0x40, 0x20, 0x10, 0x8, 0x4, 0x2, 0x1}; ^ In file included from ../include/sqnutils.h:51:0, from readdb.c:2062: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ readdb.c:12821:1: warning: 'readdb_preload_index' defined but not used [-Wunused-function] readdb_preload_index (ReadDBFILEPtr rdfp, Int4 first_db_seq, ^ readdb.c: In function 'readdb_get_taxonomy_names': readdb.c:5674:28: warning: 'ufp_last' may be used uninitialized in this function [-Wmaybe-uninitialized] ufp_last->next = ufp; ^ In file included from ../include/ncbi.h:59:0, from ../include/readdb.h:757, from readdb.c:2052: readdb.c: In function 'readdb_get_descriptor': ../include/ncbimem.h:192:21: warning: 'new_defline_length' may be used uninitialized in this function [-Wmaybe-uninitialized] #define Nlm_MemCpy memcpy ^ readdb.c:6617:26: note: 'new_defline_length' was declared here Int4 defline_length, new_defline_length; ^ readdb.c: In function 'GetAccList': readdb.c:11813:29: warning: 'AccListLast' may be used uninitialized in this function [-Wmaybe-uninitialized] AccListLast->next = AccListTmp; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbisam.c ncbisam.c: In function 'ISAMMakeStringIndex': ncbisam.c:842:22: warning: unused variable 'file_pos' [-Wunused-variable] Int4 file_pos = ftell(data->db_fd); ^ ncbisam.c: In function 'ISAMInitSearch': ncbisam.c:1399:10: warning: variable 'reserved2' set but not used [-Wunused-but-set-variable] Int4 reserved2; ^ In file included from ../include/ncbi.h:59:0, from ncbisam.c:198: ncbisam.c: In function 'ISAMMakeIndex': ../include/ncbimem.h:232:23: warning: 'KeySamples' may be used uninitialized in this function [-Wmaybe-uninitialized] #define MemFree Nlm_MemFree ^ ncbisam.c:983:23: note: 'KeySamples' was declared here Uint4Ptr KeyInfo, KeySamples; ^ In file included from ../include/ncbi.h:59:0, from ncbisam.c:198: ../include/ncbimem.h:232:23: warning: 'KeyDataSamples' may be used uninitialized in this function [-Wmaybe-uninitialized] #define MemFree Nlm_MemFree ^ ncbisam.c:984:34: note: 'KeyDataSamples' was declared here NISAMKeyDataPtr KeyDataInfo, KeyDataSamples; ^ ncbisam.c:984:21: warning: 'KeyDataInfo' may be used uninitialized in this function [-Wmaybe-uninitialized] NISAMKeyDataPtr KeyDataInfo, KeyDataSamples; ^ ncbisam.c:983:14: warning: 'KeyInfo' may be used uninitialized in this function [-Wmaybe-uninitialized] Uint4Ptr KeyInfo, KeySamples; ^ In file included from ../include/ncbi.h:59:0, from ncbisam.c:198: ncbisam.c: In function 'ISAMCreateDatabase': ../include/ncbimem.h:232:23: warning: 'prevterm' may be used uninitialized in this function [-Wmaybe-uninitialized] #define MemFree Nlm_MemFree ^ ncbisam.c:1181:13: note: 'prevterm' was declared here CharPtr prevterm; ^ In file included from ../include/ncbimsg.h:78:0, from ../include/ncbi.h:60, from ncbisam.c:198: ../include/ncbierr.h:246:23: warning: 'field_in' may be used uninitialized in this function [-Wmaybe-uninitialized] #define ErrLogPrintf Nlm_ErrLogPrintf ^ ncbisam.c:1177:37: note: 'field_in' was declared here unsigned long uid_in, uid_last, field_in; ^ ncbisam.c: In function 'NISAMSearch': ncbisam.c:1814:32: warning: 'KeyDataPageStart' may be used uninitialized in this function [-Wmaybe-uninitialized] KeyDataPageStart = MemFree(KeyDataPageStart); ^ ncbisam.c:1812:28: warning: 'KeyPageStart' may be used uninitialized in this function [-Wmaybe-uninitialized] KeyPageStart = MemFree(KeyPageStart); ^ ncbisam.c:1750:36: warning: 'KeyPage' may be used uninitialized in this function [-Wmaybe-uninitialized] Key = SwapUint4(KeyPage[current]); ^ ncbisam.c:1593:24: warning: 'SampleNum' may be used uninitialized in this function [-Wmaybe-uninitialized] *Start = SampleNum * data->PageSize; ^ ncbisam.c:1618:27: note: 'SampleNum' was declared here Int4 Start = 0, Stop, SampleNum; ^ ncbisam.c: In function 'SISAMSearch': ncbisam.c:2373:8: warning: 'SampleNum' may be used uninitialized in this function [-Wmaybe-uninitialized] if ( (SampleNum < 0) || (SampleNum >= data->NumSamples)) { ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbisort.c ncbisort.c: In function 'SORTFracCompare': ncbisort.c:692:12: warning: type defaults to 'int' in declaration of 'tmpa' [-Wimplicit-int] register tmpa = UCHAR(*a), tmpb = UCHAR(*b); ^ ncbisort.c:692:30: warning: type defaults to 'int' in declaration of 'tmpb' [-Wimplicit-int] register tmpa = UCHAR(*a), tmpb = UCHAR(*b); ^ In file included from ncbisort.c:83:0: ncbisort.c: At top level: ../include/ncbisrti.h:213:13: warning: 'inthandler' declared 'static' but never defined [-Wunused-function] static void inthandler(int i); ^ ncbisort.c: In function 'SORTMergeFPS': ncbisort.c:1110:10: warning: 'savealloc' may be used uninitialized in this function [-Wmaybe-uninitialized] if (savealloc < lines[ord[0]].lines[cur[ord[0]]].length + 1) { ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF salign.c salign.c: In function 'BandAlignTwoSeqLocsFunc': salign.c:173:13: warning: variable 'is_prot' set but not used [-Wunused-but-set-variable] Boolean is_prot; ^ salign.c: In function 'SortBlastHits': salign.c:391:15: warning: variable 'totalvalmax' set but not used [-Wunused-but-set-variable] totalvalmax = INT4_MAX, ^ salign.c: In function 'link_solution': salign.c:1188:15: warning: unused variable 'first' [-Wunused-variable] Boolean first = TRUE; ^ salign.c: In function 'SortBlastHits': salign.c:454:6: warning: 'salpdup' may be used uninitialized in this function [-Wmaybe-uninitialized] if (salpdup!=NULL) ^ salign.c: In function 'TranslateSeqLoc.constprop': salign.c:660:10: warning: 'slpp' may be used uninitialized in this function [-Wmaybe-uninitialized] return slpp; ^ salign.c: In function 'BlastTwoSeqLocs': salign.c:591:18: warning: 'strand2' may be used uninitialized in this function [-Wmaybe-uninitialized] sit->strand = strand2; ^ salign.c:589:18: warning: 'strand1' may be used uninitialized in this function [-Wmaybe-uninitialized] sit->strand = strand1; ^ salign.c: In function 'BlastBandAlignTwoSeqLocs': salign.c:1433:17: warning: 'tail' may be used uninitialized in this function [-Wmaybe-uninitialized] tail->next = salptmp; ^ salign.c:1408:15: note: 'tail' was declared here tail, ^ salign.c:1348:38: warning: 'stop' may be used uninitialized in this function [-Wmaybe-uninitialized] intronlg = (float)(abs(stop - start1) - alignlens)/(float)(j-1); ^ salign.c:1301:30: note: 'stop' was declared here Int4 start, start1, stop; ^ salign.c:1348:38: warning: 'start1' may be used uninitialized in this function [-Wmaybe-uninitialized] intronlg = (float)(abs(stop - start1) - alignlens)/(float)(j-1); ^ salign.c:1301:22: note: 'start1' was declared here Int4 start, start1, stop; ^ salign.c:1270:38: warning: 'stop' may be used uninitialized in this function [-Wmaybe-uninitialized] intronlg = (float)(abs(stop - start1) - alignlen)/(float)(j-1); ^ salign.c:1229:30: note: 'stop' was declared here Int4 start, start1, stop; ^ salign.c:1270:38: warning: 'start1' may be used uninitialized in this function [-Wmaybe-uninitialized] intronlg = (float)(abs(stop - start1) - alignlen)/(float)(j-1); ^ salign.c:1229:22: note: 'start1' was declared here Int4 start, start1, stop; ^ salign.c: In function 'SeqLocListToSeqAlign': salign.c:1670:22: warning: 'slptmp1' may be used uninitialized in this function [-Wmaybe-uninitialized] salpblast = BlastTwoSeqLocs (master_slp, slp, is_prot, msp); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF salptool.c salptool.c: In function 'MergeTwoDspBySIM4': salptool.c:285:10: warning: variable 'has_overlap' set but not used [-Wunused-but-set-variable] Boolean has_overlap; ^ salptool.c:281:7: warning: variable 'gap' set but not used [-Wunused-but-set-variable] Int4 gap=0,gap_1, gap_2; ^ In file included from ../include/sqnutils.h:51:0, from salptool.c:12: salptool.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from salptool.c:14: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ salptool.c:46:13: warning: 'SeqAnnotWrite' defined but not used [-Wunused-function] static void SeqAnnotWrite(SeqAlignPtr align) ^ salptool.c:838:13: warning: 'SeqLocTrimPolyATail' defined but not used [-Wunused-function] static void SeqLocTrimPolyATail(SeqLocPtr loc_2, BioseqPtr bsp_2) { ^ salptool.c:1267:16: warning: 'need_recompute' defined but not used [-Wunused-function] static Boolean need_recompute(SeqAlignPtr align, Int4 m_len, Int4 s_len) ^ salptool.c:1453:13: warning: 'getlengthforid' defined but not used [-Wunused-function] static Int4 getlengthforid (SeqIdPtr sip) ^ salptool.c:1468:13: warning: 'showtextalign_fromalign' defined but not used [-Wunused-function] static void showtextalign_fromalign (SeqAlignPtr salp, CharPtr path, FILE *fp) ^ salptool.c:1518:24: warning: 'OrderBestHits' defined but not used [-Wunused-function] static int LIBCALLBACK OrderBestHits(Pointer ptr1, Pointer ptr2) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF urkutil.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF urkpcc.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF urkptpf.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF urkepi.c urkepi.c: In function 'PredictEpiI0': urkepi.c:214:21: warning: array subscript has type 'char' [-Wchar-subscripts] epip->epiarray[*seq] += 1; ^ urkepi.c:239:58: warning: array subscript has type 'char' [-Wchar-subscripts] episcore = DownArrayScore (episcore, epip->epiarray[*seq]); ^ urkepi.c:240:21: warning: array subscript has type 'char' [-Wchar-subscripts] epip->epiarray[*seq] += 1; ^ urkepi.c:241:56: warning: array subscript has type 'char' [-Wchar-subscripts] episcore = UpArrayScore (episcore, epip->epiarray[*seq]); ^ urkepi.c:263:58: warning: array subscript has type 'char' [-Wchar-subscripts] episcore = DownArrayScore (episcore, epip->epiarray[*(seq-window)]); ^ urkepi.c:264:21: warning: array subscript has type 'char' [-Wchar-subscripts] epip->epiarray[*(seq-window)] -= 1; ^ urkepi.c:265:56: warning: array subscript has type 'char' [-Wchar-subscripts] episcore = UpArrayScore (episcore, epip->epiarray[*(seq-window)]); ^ urkepi.c: In function 'OptimizeEpiComp': urkepi.c:605:14: warning: array subscript has type 'char' [-Wchar-subscripts] bin[seq[i]] += 1; ^ urkepi.c:621:14: warning: array subscript has type 'char' [-Wchar-subscripts] bin[seq[i]] += 1; ^ urkepi.c:651:15: warning: array subscript has type 'char' [-Wchar-subscripts] if (fbin[seq[i]] > expect) ^ urkepi.c:657:15: warning: array subscript has type 'char' [-Wchar-subscripts] if (fbin[seq[i]] > expect) ^ urkepi.c: In function 'OptimizeEpiHP': urkepi.c:782:27: warning: array subscript has type 'char' [-Wchar-subscripts] epip->epiarray[seq[j]] += 1; ^ urkepi.c:797:27: warning: array subscript has type 'char' [-Wchar-subscripts] epip->epiarray[seq[j]] += 1; ^ urkepi.c:837:25: warning: array subscript has type 'char' [-Wchar-subscripts] epip->epiarray[seq[n]] -= 1; ^ urkepi.c: In function 'OptimizeEpiProbFunc': urkepi.c:982:27: warning: array subscript has type 'char' [-Wchar-subscripts] epip->epiarray[seq[n]] += 1; ^ urkepi.c:994:27: warning: array subscript has type 'char' [-Wchar-subscripts] epip->epiarray[seq[n]] += 1; ^ urkepi.c: In function 'FilterEpi': urkepi.c:1053:21: warning: 'right' may be used uninitialized in this function [-Wmaybe-uninitialized] cfap->right = right; ^ urkepi.c:936:56: note: 'right' was declared here Int4 i, n, j, k, start, stop, loop, fact, left, right; ^ urkepi.c:1052:20: warning: 'left' may be used uninitialized in this function [-Wmaybe-uninitialized] cfap->left = left; ^ urkepi.c:936:50: note: 'left' was declared here Int4 i, n, j, k, start, stop, loop, fact, left, right; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF urkfltr.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF urkdust.c urkdust.c: In function 'DustMe_h': urkdust.c:196:42: warning: suggest parentheses around '&&' within '||' [-Wparentheses] (dcvp->curlevel <= newlevel) && dcvp->curend == loop+1) ^ urkdust.c: In function 'DustForGraph': urkdust.c:776:17: warning: variable 'drphead' set but not used [-Wunused-but-set-variable] DustRegionPtr drphead; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF urksigu.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF seg.c seg.c: In function 'getprob': seg.c:935:15: warning: 'ans2' may be used uninitialized in this function [-Wmaybe-uninitialized] ans = ans1 + ans2 - totseq; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF urkbias.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF urkcnsrt.c urkcnsrt.c:1203:13: warning: 'ScanFrame' defined but not used [-Wunused-function] static void ScanFrame (BioseqPtr bsp, SeqLocPtr slp, Int4 frame, ^ urkcnsrt.c: In function 'Scan3Frames': urkcnsrt.c:1312:34: warning: 'length' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 i, n, start, stop, length, chunk; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF urktree.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF pseed3.c pseed3.c: In function 'SeedPruneHitsFromSeedReturn': pseed3.c:230:17: warning: variable 'curSegs' set but not used [-Wunused-but-set-variable] DenseSegPtr curSegs, testSegs; /*Used to extract ids from curSeqAlign, testSeqAlign*/ ^ pseed3.c: In function 'seedEngineCore': pseed3.c:507:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses] while (pattern = get_a_pat(patfp, &pname, occurArray, hitArray, &numPatOccur, &effectiveOccurrences, program_flag, unfilter_query, query, search->sbp->query_length, is_dna, patternSearch, seedSearch, showDiagnostics, &(search->error_return), info_vnp, hitArraySz)) { ^ pseed3.c: In function 'output_hits': pseed3.c:1202:10: warning: variable 'posBaseIndex' set but not used [-Wunused-but-set-variable] Int4 posBaseIndex; /*loop index for copying pos results arrays*/ ^ pseed3.c: In function 'init_order': pseed3.c:1483:38: warning: array subscript has type 'char' [-Wchar-subscripts] seedSearch->order[seedSearch->pchars[i]] = i; ^ pseed3.c:1483:19: warning: array subscript has type 'char' [-Wchar-subscripts] seedSearch->order[seedSearch->pchars[i]] = i; ^ pseed3.c:1487:33: warning: array subscript has type 'char' [-Wchar-subscripts] seedSearch->charMultiple[i] = 0; ^ pseed3.c:1489:30: warning: array subscript has type 'char' [-Wchar-subscripts] if (seedSearch->standardProb[i] > seedepsilon) { ^ pseed3.c:1490:22: warning: array subscript has type 'char' [-Wchar-subscripts] matrixRow = matrix[i]; ^ pseed3.c:1493:34: warning: array subscript has type 'char' [-Wchar-subscripts] if (seedSearch->standardProb[j] > seedepsilon) ^ pseed3.c:1494:42: warning: array subscript has type 'char' [-Wchar-subscripts] rowSum += seedSearch->standardProb[j]*exp(-(seedSearch->paramLambda)*matrixRow[j]); ^ pseed3.c:1494:86: warning: array subscript has type 'char' [-Wchar-subscripts] rowSum += seedSearch->standardProb[j]*exp(-(seedSearch->paramLambda)*matrixRow[j]); ^ pseed3.c:1496:28: warning: array subscript has type 'char' [-Wchar-subscripts] seedSearch->charMultiple[i] = rowSum; ^ pseed3.c: In function 'seedParallelFill': pseed3.c:712:68: warning: iteration 100u invokes undefined behavior [-Waggressive-loop-optimizations] returnData->seedSearch->name_space[i] = seedSearch->name_space[i]; ^ pseed3.c:711:4: note: containing loop for( i = 0; i <= BUF_SIZE; i++) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF pattern1.c pattern1.c: In function 'init_pattern': pattern1.c:286:52: warning: array subscript has type 'char' [-Wchar-subscripts] positionProbability = seedSearch->standardProb[seedSearch->order[c]]; ^ pattern1.c:303:53: warning: array subscript has type 'char' [-Wchar-subscripts] positionProbability += seedSearch->standardProb[seedSearch->order[c]]; ^ pattern1.c:317:53: warning: array subscript has type 'char' [-Wchar-subscripts] positionProbability -= seedSearch->standardProb[seedSearch->order[c]]; ^ pattern1.c: In function 'find_hitsS_DNA': pattern1.c:534:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (tmp = (prefixMatchedBitPattern & patternSearch->DNAwhichPrefixPosPtr[seq[i]])) { ^ pattern1.c:547:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (tmp = (prefixMatchedBitPattern & patternSearch->DNAwhichPrefixPosPtr[seq[i]])) { ^ pattern1.c: At top level: pattern1.c:744:8: warning: return type defaults to 'int' [-Wimplicit-int] static and(Int4 *result, Int4 *a, Int4 *b, patternSearchItems *patternSearch) ^ pattern1.c: In function 'and': pattern1.c:750:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (result[i] = (a[i] & b[i])) ^ pattern1.c: In function 'align': pattern1.c:1102:7: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (leftd >= 1) ^ pattern1.c: In function 'get_patL': pattern1.c:1348:42: warning: 'j' may be used uninitialized in this function [-Wmaybe-uninitialized] *end = wordIndex*BITS_PACKED_PER_WORD+j; ^ pattern1.c: In function 'align': pattern1.c:1158:8: warning: 'CDrow' may be used uninitialized in this function [-Wmaybe-uninitialized] score = (CDrow-1)->CC; ^ pattern1.c: In function 'get_patLL': pattern1.c:1393:5: warning: 'pos' may be used uninitialized in this function [-Wmaybe-uninitialized] for (j = 0; j < pos; j+= wordIndex) { ^ pattern1.c: In function 'init_pattern': pattern1.c:192:11: warning: 'tj' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 tj; /*temporary copy of j*/ ^ pattern1.c: In function 'align_of_pattern': pattern1.c:1562:19: warning: 'data' may be used uninitialized in this function [-Wmaybe-uninitialized] local_score += ALIGN_B(querySeq-1, dbSeq-1, queryMatchOffset, dbMatchOffset, ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF impatool.c impatool.c: In function 'IMPALAPrintHelp': impatool.c:301:20: warning: 'ret_buffer' may be used uninitialized in this function [-Wmaybe-uninitialized] ret_buffer = MemFree(ret_buffer); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF posit2.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF mbalign.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF vecscrn.c vecscrn.c: In function 'VSPrintOverviewFromSeqLocs': vecscrn.c:1085:8: warning: 'tmp' may be used uninitialized in this function [-Wmaybe-uninitialized] tmp = tmp->next; ^ vecscrn.c: In function 'VSPrintListFromSeqLocs': vecscrn.c:1191:8: warning: 'tmp' may be used uninitialized in this function [-Wmaybe-uninitialized] tmp = tmp->next; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF mblast.c mblast.c: In function 'BioseqMegaBlastEngineCore': mblast.c:961:12: warning: statement with no effect [-Wunused-value] stop_timer("BioseqBlastEngineCore: before do_the_blast_run()"); ^ mblast.c:987:12: warning: statement with no effect [-Wunused-value] stop_timer("MegaBlastEngineCore: after do_the_blast_run()"); ^ mblast.c:942:14: warning: variable 'seqalign' set but not used [-Wunused-but-set-variable] SeqAlignPtr seqalign, PNTR seqalignp; ^ mblast.c: In function 'MegaBlastSetUpSearchInternalByLoc': mblast.c:1167:16: warning: variable 'avglen' set but not used [-Wunused-but-set-variable] Nlm_FloatHi avglen; ^ mblast.c: In function 'MegaBlastPackAlignmentsByQuery': mblast.c:1829:14: warning: variable 'slp' set but not used [-Wunused-but-set-variable] SeqLocPtr slp; ^ mblast.c: In function 'MegaBlastWordFinder_disc_1b': mblast.c:2372:32: warning: variable 'mask' set but not used [-Wunused-but-set-variable] register Int4 s_off, ecode, mask, q_off, extra_code; ^ mblast.c: In function 'MegaBlastPackAlignmentsByQuery': mblast.c:1864:19: warning: 'sap' may be used uninitialized in this function [-Wmaybe-uninitialized] sap->next = seqalign_var; ^ mblast.c: In function 'MegaBlastWordFinder_disc': mblast.c:2250:53: warning: 'ecode2' may be used uninitialized in this function [-Wmaybe-uninitialized] (((PV_ARRAY_TYPE) 1)<<(ecode2&PV_ARRAY_MASK))) == 0))) { ^ mblast.c:2151:47: warning: 'ecode1' may be used uninitialized in this function [-Wmaybe-uninitialized] for (q_off = lookup->mb_lt->hashtable[ecode1]; q_off>0; ^ mblast.c: In function 'MegaBlastWordFinder': mblast.c:2711:51: warning: 'ecode2' may be used uninitialized in this function [-Wmaybe-uninitialized] for (q_off = lookup->mb_lt->hashtable2[ecode2]; q_off>0; ^ mblast.c:2373:17: note: 'ecode2' was declared here Int4 ecode1, ecode2; ^ mblast.c:2475:52: warning: 'ecode1' may be used uninitialized in this function [-Wmaybe-uninitialized] (((PV_ARRAY_TYPE) 1)<<(ecode1&PV_ARRAY_MASK))) == 0) ^ mblast.c:2373:9: note: 'ecode1' was declared here Int4 ecode1, ecode2; ^ mblast.c: In function 'MegaBlastGapInfoToSeqAlign': mblast.c:3504:16: warning: 'seqalign' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqAlignPtr seqalign, seqalign_var, sap; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF rpsutil.c rpsutil.c: In function 'RPSBlastSearchLight': rpsutil.c:1838:10: warning: variable 'status' set but not used [-Wunused-but-set-variable] Int2 status; ^ rpsutil.c: In function 'RPSBgetCddHits': rpsutil.c:2210:21: warning: variable 'found_score' set but not used [-Wunused-but-set-variable] Boolean found_score = FALSE; ^ In file included from ../include/sqnutils.h:51:0, from rpsutil.c:282: rpsutil.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ rpsutil.c: In function 'getAuxInformation': rpsutil.c:398:5: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile,"%s",underlyingMatrixName); ^ rpsutil.c:404:5: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile,"%d\n", gap_open); ^ rpsutil.c:405:5: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile,"%d\n", gap_extend); ^ rpsutil.c:406:5: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%le", &Kungapped); ^ rpsutil.c:407:5: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%le", &Hungapped); ^ rpsutil.c:408:5: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%d", &maxLength); ^ rpsutil.c:409:5: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%d", &dbLength); ^ rpsutil.c:410:5: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%lf", &privateScalingFactor); ^ rpsutil.c:415:6: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%d", &maxLength); ^ rpsutil.c:416:6: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%le", &(rpsinfo->karlinK[index])); ^ rpsutil.c: In function 'RPSAlignTraceBack': rpsutil.c:1444:32: warning: 'posMatrix' may be used uninitialized in this function [-Wmaybe-uninitialized] search->sbp->posMatrix = posMatrix; ^ rpsutil.c:1433:22: warning: 'rev_subject_length' may be used uninitialized in this function [-Wmaybe-uninitialized] seqalign = BlastGetGapAlgnTbck (search, 0, TRUE, FALSE, ^ rpsutil.c: In function 'RPSCalcEValue': rpsutil.c:1269:30: warning: 'posMatrix' may be used uninitialized in this function [-Wmaybe-uninitialized] search->sbp->posMatrix = posMatrix; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF kappa.c kappa.c: In function 'Kappa_SequenceGetProteinRange': kappa.c:1399:7: warning: unused variable 'i' [-Wunused-variable] int i; ^ kappa.c: At top level: kappa.c:2203:5: warning: initialization from incompatible pointer type [-Wincompatible-pointer-types] Kappa_SequenceGetRange, ^ kappa.c:2203:5: note: (near initialization for 'redo_align_callbacks.get_range') gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF xmlblast.c xmlblast.c: In function 'PSIXmlInit': xmlblast.c:1239:13: warning: variable 'retval' set but not used [-Wunused-but-set-variable] Boolean retval = FALSE; ^ xmlblast.c: In function 'BXMLGetSeqLineForStdSeg': xmlblast.c:373:28: warning: 'genetic_code2' may be used uninitialized in this function [-Wmaybe-uninitialized] CharPtr genetic_code1, genetic_code2; ^ xmlblast.c: In function 'BXMLSeqAlignToHits': xmlblast.c:867:36: warning: 'hspp' may be used uninitialized in this function [-Wmaybe-uninitialized] if((hspp->next = BXMLGetHspFromSeqAlign(sap2, is_aa, chain, ^ xmlblast.c: In function 'SeqAlignToHits': xmlblast.c:1646:24: warning: 'hspp' may be used uninitialized in this function [-Wmaybe-uninitialized] hspp->next = GetHspFromSeqAlign(sap2, ungapped, &hsp_count); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF bxmlobj.c bxmlobj.c: In function 'BlastOutputAsnRead': bxmlobj.c:96:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ bxmlobj.c: In function 'ParametersAsnRead': bxmlobj.c:361:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ bxmlobj.c:360:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ bxmlobj.c: In function 'IterationAsnRead': bxmlobj.c:613:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ bxmlobj.c: In function 'StatisticsAsnRead': bxmlobj.c:829:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ bxmlobj.c:828:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ bxmlobj.c: In function 'HitAsnRead': bxmlobj.c:1039:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ bxmlobj.c: In function 'HspAsnRead': bxmlobj.c:1244:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ bxmlobj.c:1243:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF dotseq.c dotseq.c:96:36: warning: missing braces around initializer [-Wmissing-braces] static Int4 DOTblosum62[24][24] = { ^ dotseq.c:96:36: note: (near initialization for 'DOTblosum62') dotseq.c: In function 'DOT_BuildPLookup': dotseq.c:887:31: warning: variable 'found_ambig' set but not used [-Wunused-but-set-variable] Boolean EXACTMATCH, found_ambig, saved_index = FALSE; ^ dotseq.c:885:19: warning: unused variable 'threshold' [-Wunused-variable] Int4 threshold=13; /* one-hit heuristics T must be at least 13*/ ^ dotseq.c:883:19: warning: unused variable 'index' [-Wunused-variable] Int4 index = 0; ^ dotseq.c: In function 'DOT_ComputeHits': dotseq.c:1043:47: warning: variable 'q_end' set but not used [-Wunused-but-set-variable] Uint1Ptr s, subject0, s_end, q_end; ^ dotseq.c:1041:19: warning: unused variable 'saved_index' [-Wunused-variable] Boolean saved_index = FALSE; ^ dotseq.c:1039:19: warning: unused variable 'threshold' [-Wunused-variable] Int4 threshold=13; ^ dotseq.c: In function 'DOT_SPI_FindBestAlnByDotPlot': dotseq.c:2016:20: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ dotseq.c:2015:20: warning: variable 'start2' set but not used [-Wunused-but-set-variable] Int4 start2; ^ dotseq.c:2014:20: warning: variable 'start1' set but not used [-Wunused-but-set-variable] Int4 start1; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from dotseq.c:87: dotseq.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ dotseq.c: In function 'DOT_BuildHitList': dotseq.c:1286:9: warning: 'index' may be used uninitialized in this function [-Wmaybe-uninitialized] while (ifrom == spot->to == 0) ^ spidey.c: In function 'SPI_FillInLastmRNAHoles': spidey.c:6295:21: warning: variable 'internal' set but not used [-Wunused-but-set-variable] Boolean internal; ^ spidey.c: In function 'SPI_FindBestAlnByDotPlot': spidey.c:6441:20: warning: variable 'strand' set but not used [-Wunused-but-set-variable] Uint1 strand; ^ spidey.c:6440:20: warning: variable 'start2' set but not used [-Wunused-but-set-variable] Int4 start2; ^ spidey.c:6439:20: warning: variable 'start1' set but not used [-Wunused-but-set-variable] Int4 start1; ^ spidey.c: In function 'SPI_ConnectAlnPieces': spidey.c:7810:30: warning: variable 'tmparray' set but not used [-Wunused-but-set-variable] SPI_FragPtr PNTR tmparray; ^ spidey.c:7796:25: warning: variable 'sfpprev' set but not used [-Wunused-but-set-variable] SPI_FragPtr sfpprev; ^ spidey.c: In function 'SPI_AdjustSplicesInPieces': spidey.c:8444:23: warning: variable 'minus' set but not used [-Wunused-but-set-variable] Boolean minus; ^ spidey.c: In function 'SPI_CheckMrnaOrder': spidey.c:10292:35: warning: suggest parentheses around comparison in operand of '==' [-Wparentheses] if ((ival->strand == Seq_strand_plus == ival2->strand ^ spidey.c:10296:38: warning: suggest parentheses around comparison in operand of '==' [-Wparentheses] || (ival->strand == Seq_strand_minus == ival2->strand ^ spidey.c:10309:35: warning: suggest parentheses around comparison in operand of '==' [-Wparentheses] if ((ival->strand == Seq_strand_plus == ival2->strand ^ spidey.c:10311:38: warning: suggest parentheses around comparison in operand of '==' [-Wparentheses] || (ival->strand == Seq_strand_plus == ival2->strand ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from ../include/spidey.h:103, from spidey.c:259: spidey.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF motif.c motif.c: In function 'MOT_FindPolyA': motif.c:86:18: warning: variable 'buf' set but not used [-Wunused-but-set-variable] Uint1 buf[MOT_WINSIZE]; ^ motif.c: In function 'MOT_FindKozak': motif.c:216:18: warning: variable 'buf' set but not used [-Wunused-but-set-variable] Uint1 buf[MOT_WINSIZE]; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from ../include/actutils.h:105, from ../include/motif.h:48, from motif.c:47: motif.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blfmtutl.c blfmtutl.c: In function 'BlastPrintTabularResults': blfmtutl.c:1113:13: warning: 'alignments_count' may be used uninitialized in this function [-Wmaybe-uninitialized] if (--alignments_count < 0) ^ blfmtutl.c:1331:19: warning: 's_end' may be used uninitialized in this function [-Wmaybe-uninitialized] s_end += s_shift; ^ blfmtutl.c:1330:21: warning: 's_start' may be used uninitialized in this function [-Wmaybe-uninitialized] s_start += s_shift; ^ blfmtutl.c:1329:19: warning: 'q_end' may be used uninitialized in this function [-Wmaybe-uninitialized] q_end += q_shift; ^ blfmtutl.c:1328:21: warning: 'q_start' may be used uninitialized in this function [-Wmaybe-uninitialized] q_start += q_shift; ^ blfmtutl.c:1077:24: warning: 'query_id' may be used uninitialized in this function [-Wmaybe-uninitialized] while (slp && SeqIdComp(query_id, SeqLocId(slp)) != SIC_YES) ^ blfmtutl.c: In function 'BlastSetUserErrorString': blfmtutl.c:1392:26: warning: 'title' may be used uninitialized in this function [-Wmaybe-uninitialized] CharPtr buf_start, ptr, title; ^ rm -f libncbitool.a ar cru libncbitool.a csim.o db_slist.o dust.o blast_dust.o falign.o g_any.o sim2.o sim3.o sim4.o simutil.o slist.o sec.o tfuns.o toasn3.o toporg.o pobutil.o stsutil.o suggadj.o suggest.o suggslp.o blast.o blastutl.o blastool.o blastconcat.o splutil.o gapxdrop.o bandalg0.o bandalg1.o bandalg2.o bandalg3.o bandalg4.o bandalg5.o bandalgn.o blastkar.o actutils.o posit.o lookup.o readdb.o ncbisam.o ncbisort.o salign.o salptool.o urkutil.o urkpcc.o urkptpf.o urkepi.o urkfltr.o urkdust.o urksigu.o seg.o urkbias.o urkcnsrt.o urktree.o pseed3.o pattern1.o impatool.o posit2.o mbalign.o vecscrn.o mblast.o rpsutil.o kappa.o xmlblast.o bxmlobj.o dotseq.o spidey.o motif.o blfmtutl.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libncbitool.a ../lib ranlib ../lib/libncbitool.a gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF matrix_frequency_data.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF compo_mode_condition.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF composition_adjustment.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF nlm_linear_algebra.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF optimize_target_freq.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF compo_heap.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF smith_waterman.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF redo_alignment.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF unified_pvalues.c rm -f libblastcompadj.a ar cru libblastcompadj.a matrix_frequency_data.o compo_mode_condition.o composition_adjustment.o nlm_linear_algebra.o optimize_target_freq.o compo_heap.o smith_waterman.o redo_alignment.o unified_pvalues.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libblastcompadj.a ../lib ranlib ../lib/libblastcompadj.a gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF gdfontg.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF gdfontmb.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF gdfontt.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF pictogif.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF gdfontl.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF gdfonts.c gcc -DWIN_GIF -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbidrwg.c ncbidrwg.c: In function 'Nlm_ClearRgn': ncbidrwg.c:6081:16: warning: variable 'ntool' set but not used [-Wunused-but-set-variable] Nlm_RgnTool ntool; ^ ncbidrwg.c: In function 'Nlm_DiffRgn': ncbidrwg.c:6273:16: warning: variable 'ntool3' set but not used [-Wunused-but-set-variable] Nlm_RgnTool ntool3; ^ ncbidrwg.c:6272:16: warning: variable 'ntool2' set but not used [-Wunused-but-set-variable] Nlm_RgnTool ntool2; ^ ncbidrwg.c:6271:16: warning: variable 'ntool1' set but not used [-Wunused-but-set-variable] Nlm_RgnTool ntool1; ^ ncbidrwg.c: In function 'Nlm_XorRgn': ncbidrwg.c:6324:16: warning: variable 'ntool3' set but not used [-Wunused-but-set-variable] Nlm_RgnTool ntool3; ^ ncbidrwg.c:6323:16: warning: variable 'ntool2' set but not used [-Wunused-but-set-variable] Nlm_RgnTool ntool2; ^ ncbidrwg.c:6322:16: warning: variable 'ntool1' set but not used [-Wunused-but-set-variable] Nlm_RgnTool ntool1; ^ ncbidrwg.c: In function 'Nlm_EqualRgn': ncbidrwg.c:6353:16: warning: variable 'ntool2' set but not used [-Wunused-but-set-variable] Nlm_RgnTool ntool2; ^ ncbidrwg.c:6352:16: warning: variable 'ntool1' set but not used [-Wunused-but-set-variable] Nlm_RgnTool ntool1; ^ ncbidrwg.c: In function 'Nlm_EmptyRgn': ncbidrwg.c:6381:17: warning: variable 'ntool' set but not used [-Wunused-but-set-variable] Nlm_RgnTool ntool; ^ ncbidrwg.c: In function 'Nlm_CopyPixmap': ncbidrwg.c:7040:25: warning: variable 'height' set but not used [-Wunused-but-set-variable] Nlm_Int2 height; ^ ncbidrwg.c:7039:25: warning: variable 'width' set but not used [-Wunused-but-set-variable] Nlm_Int2 width; ^ ncbidrwg.c: In function 'Nlm_GetColorRGB': ncbidrwg.c:1373:10: warning: 'i' may be used uninitialized in this function [-Wmaybe-uninitialized] return (Nlm_Uint4)i; ^ rm -f libvibgif.a ar cru libvibgif.a gdfontg.o gdfontmb.o gdfontt.o pictogif.o gdfontl.o gdfonts.o ncbidrwg.o drawing.o mapping.o picture.o ncbimain.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libvibgif.a ../lib ranlib ../lib/libvibgif.a gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF algorend.c algorend.c: In function 'ColorFromSS': algorend.c:893:10: warning: unused variable 'rsult' [-Wunused-variable] Int2 rsult = 0; ^ algorend.c: In function 'Cn3D_RenWire': algorend.c:1400:10: warning: unused variable 'pmldThis' [-Wunused-variable] PMLD pmldThis = NULL; ^ algorend.c:1399:11: warning: unused variable 'pdnmlThis' [-Wunused-variable] PDNML pdnmlThis = NULL; ^ algorend.c:1398:10: warning: unused variable 'pmsdThis' [-Wunused-variable] PMSD pmsdThis = NULL; ^ algorend.c: In function 'Cn3D_ColSeqCons': algorend.c:1795:24: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] pars->ConsColAlg = (Nlm_Int2) GetObjectExtra(i); ^ algorend.c: In function 'RenderObject': algorend.c:3135:25: warning: variable 'fZTo' set but not used [-Wunused-but-set-variable] FloatLo fXTo, fYTo, fZTo; ^ algorend.c:3135:19: warning: variable 'fYTo' set but not used [-Wunused-but-set-variable] FloatLo fXTo, fYTo, fZTo; ^ algorend.c:3135:13: warning: variable 'fXTo' set but not used [-Wunused-but-set-variable] FloatLo fXTo, fYTo, fZTo; ^ algorend.c:3134:29: warning: variable 'fZFrom' set but not used [-Wunused-but-set-variable] FloatLo fXFrom, fYFrom, fZFrom; ^ algorend.c:3134:21: warning: variable 'fYFrom' set but not used [-Wunused-but-set-variable] FloatLo fXFrom, fYFrom, fZFrom; ^ algorend.c:3134:13: warning: variable 'fXFrom' set but not used [-Wunused-but-set-variable] FloatLo fXFrom, fYFrom, fZFrom; ^ algorend.c: In function 'RenderLabel': algorend.c:3393:10: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ algorend.c: In function 'RenderBond': algorend.c:3554:10: warning: variable 'pmsdParent' set but not used [-Wunused-but-set-variable] PMSD pmsdParent = NULL; ^ algorend.c: In function 'RenderHalfWormBond': algorend.c:3673:10: warning: variable 'pmsdParent' set but not used [-Wunused-but-set-variable] PMSD pmsdParent; ^ algorend.c:3671:24: warning: variable 'pmad2' set but not used [-Wunused-but-set-variable] PMAD pmad0, pmad1, pmad2, pmad3; ^ algorend.c: In function 'RenderAnAtom': algorend.c:3758:10: warning: unused variable 'pmadFrom' [-Wunused-variable] PMAD pmadFrom = NULL; ^ algorend.c:3757:10: warning: variable 'pmsdParent' set but not used [-Wunused-but-set-variable] PMSD pmsdParent = NULL; ^ algorend.c: In function 'RenderAllAtom': algorend.c:3829:9: warning: variable 'iMenu' set but not used [-Wunused-but-set-variable] int iMenu; ^ algorend.c:3815:11: warning: unused variable 'pvnmbThis' [-Wunused-variable] PVNMB pvnmbThis = NULL; ^ algorend.c:3811:11: warning: unused variable 'pvnmaThis' [-Wunused-variable] PVNMA pvnmaThis = NULL; ^ algorend.c: In function 'RenderGraph': algorend.c:4498:10: warning: unused variable 'bReservedThis' [-Wunused-variable] Byte bReservedThis = 0; ^ algorend.c: In function 'LabelChainTermini': algorend.c:4772:14: warning: unused variable 'pmbdThis' [-Wunused-variable] PMBD pmbdThis = NULL; ^ algorend.c:4771:15: warning: unused variable 'pvnmbThis' [-Wunused-variable] PVNMB pvnmbThis = NULL; ^ algorend.c: In function 'RenderMolecule': algorend.c:4871:11: warning: variable 'pdnmmThis' set but not used [-Wunused-but-set-variable] PDNMM pdnmmThis = NULL; ^ algorend.c: In function 'fnARLoop': algorend.c:5556:10: warning: variable 'iTest' set but not used [-Wunused-but-set-variable] Int2 iTest; ^ algorend.c: In function 'AlgorithmicRendering': algorend.c:5684:10: warning: unused variable 'i' [-Wunused-variable] Int2 i = 0; ^ algorend.c:5683:10: warning: unused variable 'Cn3d_LayerNow_sofar' [-Wunused-variable] Int2 Cn3d_LayerNow_sofar = 0; ^ algorend.c: In function 'Do3DOrigin': algorend.c:5756:10: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ algorend.c:5751:13: warning: variable 'fTo' set but not used [-Wunused-but-set-variable] FloatLo fTo[3]; ^ algorend.c:5750:13: warning: variable 'fFrom' set but not used [-Wunused-but-set-variable] FloatLo fFrom[3]; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from algorend.c:598: algorend.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ algorend.c:717:16: warning: 'Cn3d_CopyToNode' defined but not used [-Wunused-variable] static Boolean Cn3d_CopyToNode = FALSE; ^ algorend.c:2265:13: warning: 'LabelGroupOnOffProc' defined but not used [-Wunused-function] static void LabelGroupOnOffProc(GrouP g) ^ In file included from ../include/viewer3d.h:129:0, from algorend.c:584: algorend.c: In function 'RenderLabel': ../include/pictur3d.h:235:27: warning: 'iX' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AddText3D Nlm_AddText3D ^ algorend.c:3389:10: note: 'iX' was declared here Int4 iX, iY, iZ; ^ In file included from ../include/viewer3d.h:129:0, from algorend.c:584: ../include/pictur3d.h:235:27: warning: 'iY' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AddText3D Nlm_AddText3D ^ algorend.c:3389:14: note: 'iY' was declared here Int4 iX, iY, iZ; ^ In file included from ../include/viewer3d.h:129:0, from algorend.c:584: ../include/pictur3d.h:235:27: warning: 'iZ' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AddText3D Nlm_AddText3D ^ algorend.c:3389:18: note: 'iZ' was declared here Int4 iX, iY, iZ; ^ algorend.c:3444:41: warning: 'fZCen' may be used uninitialized in this function [-Wmaybe-uninitialized] fZt = (fZCen - fZFrom) + (fZCen - fZTo); ^ algorend.c:3443:41: warning: 'fYCen' may be used uninitialized in this function [-Wmaybe-uninitialized] fYt = (fYCen - fYFrom) + (fYCen - fYTo); ^ algorend.c:3442:41: warning: 'fXCen' may be used uninitialized in this function [-Wmaybe-uninitialized] fXt = (fXCen - fXFrom) + (fXCen - fXTo); ^ algorend.c:3444:41: warning: 'fZTo' may be used uninitialized in this function [-Wmaybe-uninitialized] fZt = (fZCen - fZFrom) + (fZCen - fZTo); ^ algorend.c:3443:41: warning: 'fYTo' may be used uninitialized in this function [-Wmaybe-uninitialized] fYt = (fYCen - fYFrom) + (fYCen - fYTo); ^ algorend.c:3442:41: warning: 'fXTo' may be used uninitialized in this function [-Wmaybe-uninitialized] fXt = (fXCen - fXFrom) + (fXCen - fXTo); ^ algorend.c:3444:22: warning: 'fZFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] fZt = (fZCen - fZFrom) + (fZCen - fZTo); ^ algorend.c:3443:22: warning: 'fYFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] fYt = (fYCen - fYFrom) + (fYCen - fYTo); ^ algorend.c:3442:22: warning: 'fXFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] fXt = (fXCen - fXFrom) + (fXCen - fXTo); ^ algorend.c: In function 'MasterChangeRenderProc.isra.1': algorend.c:1316:33: warning: 'k' may be used uninitialized in this function [-Wmaybe-uninitialized] pars->SolventRender = k; ^ In file included from ../include/viewer3d.h:129:0, from algorend.c:584: algorend.c: In function 'RenderObject': ../include/pictur3d.h:234:27: warning: 'iXFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AddCylinder3D Nlm_AddCylinder3D ^ algorend.c:3136:10: note: 'iXFrom' was declared here Int4 iXFrom, iYFrom, iZFrom; ^ In file included from ../include/viewer3d.h:129:0, from algorend.c:584: ../include/pictur3d.h:234:27: warning: 'iYFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AddCylinder3D Nlm_AddCylinder3D ^ algorend.c:3136:18: note: 'iYFrom' was declared here Int4 iXFrom, iYFrom, iZFrom; ^ In file included from ../include/viewer3d.h:129:0, from algorend.c:584: ../include/pictur3d.h:234:27: warning: 'iZFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AddCylinder3D Nlm_AddCylinder3D ^ algorend.c:3136:26: note: 'iZFrom' was declared here Int4 iXFrom, iYFrom, iZFrom; ^ In file included from ../include/viewer3d.h:129:0, from algorend.c:584: ../include/pictur3d.h:234:27: warning: 'iXTo' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AddCylinder3D Nlm_AddCylinder3D ^ algorend.c:3137:10: note: 'iXTo' was declared here Int4 iXTo, iYTo, iZTo; ^ In file included from ../include/viewer3d.h:129:0, from algorend.c:584: ../include/pictur3d.h:234:27: warning: 'iYTo' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AddCylinder3D Nlm_AddCylinder3D ^ algorend.c:3137:16: note: 'iYTo' was declared here Int4 iXTo, iYTo, iZTo; ^ In file included from ../include/viewer3d.h:129:0, from algorend.c:584: ../include/pictur3d.h:234:27: warning: 'iZTo' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AddCylinder3D Nlm_AddCylinder3D ^ algorend.c:3137:22: note: 'iZTo' was declared here Int4 iXTo, iYTo, iZTo; ^ In file included from ../include/viewer3d.h:129:0, from algorend.c:584: algorend.c: In function 'Do3DOrigin': ../include/pictur3d.h:232:27: warning: 'iXFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AddLine3D Nlm_AddLine3D ^ algorend.c:5752:10: note: 'iXFrom' was declared here Int4 iXFrom, iYFrom, iZFrom; ^ In file included from ../include/viewer3d.h:129:0, from algorend.c:584: ../include/pictur3d.h:232:27: warning: 'iYFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AddLine3D Nlm_AddLine3D ^ algorend.c:5752:18: note: 'iYFrom' was declared here Int4 iXFrom, iYFrom, iZFrom; ^ In file included from ../include/viewer3d.h:129:0, from algorend.c:584: ../include/pictur3d.h:232:27: warning: 'iZFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AddLine3D Nlm_AddLine3D ^ algorend.c:5752:26: note: 'iZFrom' was declared here Int4 iXFrom, iYFrom, iZFrom; ^ In file included from ../include/viewer3d.h:129:0, from algorend.c:584: ../include/pictur3d.h:232:27: warning: 'iXTo' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AddLine3D Nlm_AddLine3D ^ algorend.c:5753:10: note: 'iXTo' was declared here Int4 iXTo, iYTo, iZTo; ^ In file included from ../include/viewer3d.h:129:0, from algorend.c:584: ../include/pictur3d.h:232:27: warning: 'iYTo' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AddLine3D Nlm_AddLine3D ^ algorend.c:5753:16: note: 'iYTo' was declared here Int4 iXTo, iYTo, iZTo; ^ In file included from ../include/viewer3d.h:129:0, from algorend.c:584: ../include/pictur3d.h:232:27: warning: 'iZTo' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AddLine3D Nlm_AddLine3D ^ algorend.c:5753:22: note: 'iZTo' was declared here Int4 iXTo, iYTo, iZTo; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF cn3dmsel.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF cn3dopen.c cn3dopen.c: In function 'Cn3D_OpenStart': cn3dopen.c:722:10: warning: unused variable 'iBioseq' [-Wunused-variable] Int4 iBioseq = 0; ^ cn3dopen.c: In function 'MMDB_ReadMime': cn3dopen.c:1000:19: warning: unused variable 'pdnmlThis' [-Wunused-variable] PDNML pdnmlThis = NULL; ^ cn3dopen.c:989:25: warning: unused variable 'pbsasThis' [-Wunused-variable] BiostrucAlignSeqPtr pbsasThis = NULL; ^ cn3dopen.c: In function 'Cn3D_NetOpenBiostruc': cn3dopen.c:1310:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from cn3dopen.c:412: cn3dopen.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/sqnutils.h:51:0, from cn3dopen.c:413: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ cn3dopen.c:430:15: warning: 'Cn3D_wOpen' defined but not used [-Wunused-variable] static WindoW Cn3D_wOpen; ^ cn3dopen.c:431:15: warning: 'Cn3D_bOpenBrowse' defined but not used [-Wunused-variable] static ButtoN Cn3D_bOpenBrowse; ^ cn3dopen.c: In function 'MMDB_ReadMime': cn3dopen.c:529:9: warning: 'salp' may be used uninitialized in this function [-Wmaybe-uninitialized] SAM_ReplaceGI(salp); ^ cn3dopen.c:513:15: note: 'salp' was declared here SeqAlign *salp; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF cn3dsave.c cn3dsave.c: In function 'Cn3D_ExportAsnNow': cn3dsave.c:375:11: warning: unused variable 'pdnmlThis' [-Wunused-variable] PDNML pdnmlThis = NULL; ^ cn3dsave.c:372:24: warning: variable 'pbsfThis' set but not used [-Wunused-but-set-variable] BiostrucFeaturePtr pbsfThis; ^ cn3dsave.c:366:10: warning: unused variable 'pmsdSlave' [-Wunused-variable] PMSD pmsdSlave = NULL, pmsdMaster = NULL; ^ cn3dsave.c:362:27: warning: variable 'FirstSlave' set but not used [-Wunused-but-set-variable] Boolean iCn3d = TRUE, FirstSlave = FALSE; ^ cn3dsave.c:357:13: warning: unused variable 'pcSave' [-Wunused-variable] CharPtr pcSave = NULL; ^ cn3dsave.c: In function 'Cn3D_SaveBiostruc': cn3dsave.c:524:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ cn3dsave.c:523:11: warning: variable 'gMS' set but not used [-Wunused-but-set-variable] GrouP gMS; ^ cn3dsave.c:518:10: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ cn3dsave.c: In function 'Cn3D_ExportDictNow': cn3dsave.c:598:13: warning: unused variable 'pcSave' [-Wunused-variable] CharPtr pcSave = NULL; ^ cn3dsave.c:596:10: warning: unused variable 'iCount' [-Wunused-variable] Int4 iCount = 0; ^ cn3dsave.c: In function 'Cn3D_SaveDictionary': cn3dsave.c:629:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ cn3dsave.c:624:10: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ cn3dsave.c: In function 'Cn3D_SaveSub': cn3dsave.c:688:10: warning: variable 'i' set but not used [-Wunused-but-set-variable] IteM i; ^ In file included from cn3dsave.c:165:0: cn3dsave.c: At top level: ../include/asnmime.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnmime.h12"; ^ ../include/asnmime.h:117:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^ ../include/asnmime.h:118:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnmime.h:119:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from cn3dsave.c:171: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ cn3dsave.c:184:15: warning: 'Cn3D_bFeatOn' defined but not used [-Wunused-variable] static ButtoN Cn3D_bFeatOn; ^ cn3dsave.c: In function 'Cn3D_GetSubSet.isra.1': cn3dsave.c:289:24: warning: 'isep' may be used uninitialized in this function [-Wmaybe-uninitialized] isep->next = SeqEntryNew(); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF cn3dxprt.c cn3dxprt.c: In function 'Cn3D_ExportPDB': cn3dxprt.c:209:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ cn3dxprt.c:208:11: warning: variable 'gMS' set but not used [-Wunused-but-set-variable] GrouP gMS; ^ cn3dxprt.c:203:10: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ cn3dxprt.c: In function 'Cn3D_ExportKin': cn3dxprt.c:381:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ cn3dxprt.c:380:11: warning: variable 'gMS' set but not used [-Wunused-but-set-variable] GrouP gMS; ^ cn3dxprt.c:375:10: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ cn3dxprt.c: In function 'Cn3D_ExportSub': cn3dxprt.c:513:10: warning: variable 'i' set but not used [-Wunused-but-set-variable] IteM i; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF cn3dwin.c cn3dwin.c:733:1: warning: missing braces around initializer [-Wmissing-braces] { ^ cn3dwin.c:733:1: note: (near initialization for 'Cn3d_PaletteRGB') cn3dwin.c: In function 'Viewer3DGroups': cn3dwin.c:1728:10: warning: unused variable 'groups' [-Wunused-variable] Int2 groups = 0; ^ cn3dwin.c: In function 'Viewer3DViewer': cn3dwin.c:1784:10: warning: unused variable 'groups' [-Wunused-variable] Int2 groups = 0; ^ cn3dwin.c: In function 'Cn3D_AlignEdit': cn3dwin.c:1936:10: warning: unused variable 'iCount' [-Wunused-variable] Int2 iCount = 0; ^ cn3dwin.c:1935:10: warning: variable 'pmmdThis' set but not used [-Wunused-but-set-variable] PMMD pmmdThis = NULL; ^ cn3dwin.c:1933:17: warning: unused variable 'salp' [-Wunused-variable] SeqAlignPtr salp = NULL; ^ cn3dwin.c:1931:29: warning: variable 'pmsdSlave' set but not used [-Wunused-but-set-variable] PMSD pmsdMaster = NULL, pmsdSlave = NULL; ^ cn3dwin.c:1930:11: warning: unused variable 'pdnmsSlave' [-Wunused-variable] PDNMS pdnmsSlave = NULL; ^ cn3dwin.c: In function 'Cn3D_Menus': cn3dwin.c:2131:11: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] (Nlm_VoidPtr) i, NULL); ^ In file included from ../include/sqnutils.h:51:0, from ../include/udviewer.h:219, from cn3dwin.c:665: cn3dwin.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/samutil.h:234:0, from ../include/udviewer.h:228, from cn3dwin.c:665: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ cn3dwin.c:682:13: warning: 'Cn3D_iLabelCtrl' defined but not used [-Wunused-variable] static IteM Cn3D_iLabelCtrl = NULL; ^ cn3dwin.c:688:13: warning: 'Cn3D_iModelCtrl' defined but not used [-Wunused-variable] static IteM Cn3D_iModelCtrl = NULL; ^ cn3dwin.c:922:13: warning: 'Cn3D_ZoomCB' defined but not used [-Wunused-function] static void Cn3D_ZoomCB(IteM i) ^ cn3dwin.c:929:13: warning: 'Cn3D_MoveCB' defined but not used [-Wunused-function] static void Cn3D_MoveCB(IteM i) ^ cn3dwin.c:1428:13: warning: 'HLatom_MA' defined but not used [-Wunused-function] static void HLatom_MA(MAPtr ma, ^ cn3dwin.c:1626:13: warning: 'HLmolecule_MA' defined but not used [-Wunused-function] static void HLmolecule_MA(MAPtr ma, ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF cn3dentr.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF cn3dmsg.c cn3dmsg.c: In function 'SeqStrucMediaMsgFunc': cn3dmsg.c:593:19: warning: variable 'omudp' set but not used [-Wunused-but-set-variable] OMUserDataPtr omudp = NULL; ^ In file included from ../include/sqnutils.h:51:0, from cn3dmsg.c:267: cn3dmsg.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/cn3dopen.h:111:0, from cn3dmsg.c:271: ../include/objmime.h:145:29: warning: 'Data_dataFree' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataFree PROTO ((Data_dataPtr )); ^ ../include/objmime.h:146:29: warning: 'Data_dataAsnRead' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:147:24: warning: 'Data_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Data_dataAsnWrite PROTO (( Data_dataPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:285:47: warning: 'SeqAlignData_seq_align_dataFree' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataFree PROTO ((SeqAlignData_seq_align_dataPtr )); ^ ../include/objmime.h:286:47: warning: 'SeqAlignData_seq_align_dataAsnRead' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:287:24: warning: 'SeqAlignData_seq_align_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL SeqAlignData_seq_align_dataAsnWrite PROTO (( SeqAlignData_seq_align_dataPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF cn3dmatn.c cn3dmatn.c: In function 'FindMM': cn3dmatn.c:217:29: warning: unused variable 'pdnmsThisSlave' [-Wunused-variable] PDNMS pdnmsThis = NULL, pdnmsThisSlave = NULL; ^ cn3dmatn.c: In function 'DoMediaHL': cn3dmatn.c:249:10: warning: variable 'MainAtom' set but not used [-Wunused-but-set-variable] Byte MainAtom = 0; ^ cn3dmatn.c:247:10: warning: unused variable 'paldThis' [-Wunused-variable] PALD paldThis = NULL; ^ cn3dmatn.c:246:11: warning: unused variable 'pvnalThis' [-Wunused-variable] PVNAL pvnalThis = NULL; ^ cn3dmatn.c:245:10: warning: unused variable 'pmadThis' [-Wunused-variable] PMAD pmadThis = NULL; ^ cn3dmatn.c:244:11: warning: unused variable 'pvnmaThis' [-Wunused-variable] PVNMA pvnmaThis = NULL; ^ cn3dmatn.c: In function 'Cn3DCheckAndDoHighlight': cn3dmatn.c:372:10: warning: unused variable 'pmsdThis' [-Wunused-variable] PMSD pmsdThis = NULL; ^ cn3dmatn.c:371:10: warning: unused variable 'pmmdThis' [-Wunused-variable] PMMD pmmdThis = NULL; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF cn3dmodl.c cn3dmodl.c: In function 'Cn3DCheckNoSingleHighlight': cn3dmodl.c:353:11: warning: unused variable 'pdnmgThis' [-Wunused-variable] PDNMG pdnmgThis = NULL; ^ cn3dmodl.c: In function 'Cn3DCheckHighlighted': cn3dmodl.c:364:29: warning: unused variable 'pmsdSlave' [-Wunused-variable] PMSD pmsdMaster = NULL, pmsdSlave = NULL; ^ cn3dmodl.c: In function 'Cn3D_ReSetVisibleStatus': cn3dmodl.c:508:10: warning: unused variable 'pmgd' [-Wunused-variable] PMGD pmgd = NULL; ^ cn3dmodl.c:507:11: warning: unused variable 'pdnmg' [-Wunused-variable] PDNMG pdnmg = NULL; ^ cn3dmodl.c:506:10: warning: unused variable 'pmmdThis' [-Wunused-variable] PMMD pmmdThis = NULL; ^ cn3dmodl.c: In function 'fnAlignList': cn3dmodl.c:996:25: warning: unused variable 'itemtype' [-Wunused-variable] Uint2 entityID = 0, itemtype = 0; ^ cn3dmodl.c:996:11: warning: unused variable 'entityID' [-Wunused-variable] Uint2 entityID = 0, itemtype = 0; ^ cn3dmodl.c:995:14: warning: unused variable 'sipThis' [-Wunused-variable] SeqIdPtr sipThis = NULL; ^ cn3dmodl.c:993:10: warning: unused variable 'pmmdThis' [-Wunused-variable] PMMD pmmdThis = NULL; ^ cn3dmodl.c: In function 'SynchronizeModVisibleStatus': cn3dmodl.c:1065:11: warning: unused variable 'pdnmg' [-Wunused-variable] PDNMG pdnmg = NULL; ^ cn3dmodl.c:1064:10: warning: unused variable 'pmmdThis' [-Wunused-variable] PMMD pmmdThis = NULL; ^ cn3dmodl.c: In function 'SetResidueVisibilities': cn3dmodl.c:1201:11: warning: unused variable 'pvnmoThis' [-Wunused-variable] PVNMO pvnmoThis = NULL; ^ In file included from ../include/cn3dopen.h:111:0, from cn3dmodl.c:319: cn3dmodl.c: At top level: ../include/objmime.h:145:29: warning: 'Data_dataFree' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataFree PROTO ((Data_dataPtr )); ^ ../include/objmime.h:146:29: warning: 'Data_dataAsnRead' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:147:24: warning: 'Data_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Data_dataAsnWrite PROTO (( Data_dataPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:285:47: warning: 'SeqAlignData_seq_align_dataFree' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataFree PROTO ((SeqAlignData_seq_align_dataPtr )); ^ ../include/objmime.h:286:47: warning: 'SeqAlignData_seq_align_dataAsnRead' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:287:24: warning: 'SeqAlignData_seq_align_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL SeqAlignData_seq_align_dataAsnWrite PROTO (( SeqAlignData_seq_align_dataPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from cn3dmodl.c:323: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF cn3dshim.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF cn3dmesh.c cn3dmesh.c: In function 'Cn3D_MeshAcceptProc': cn3dmesh.c:103:10: warning: unused variable 'pmsdThis' [-Wunused-variable] PMSD pmsdThis = NULL; ^ cn3dmesh.c: In function 'Cn3D_OpenMesh': cn3dmesh.c:151:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ cn3dmesh.c: In function 'Cn3D_MeshAcceptProc': cn3dmesh.c:111:5: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(hFile, "%d %d %d", &(Mesh.NumVert), &(Mesh.NumEdge), ^ cn3dmesh.c:119:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(hFile, "%lf %lf %lf %lf %lf %lf %f %f %f %d %d %d", ^ cn3dmesh.c:129:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(hFile, "%d %d %d %d %d", &Mesh.Edges[i].Vertex[0], ^ cn3dmesh.c:133:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(hFile, "%d %d %d %d %d %d %d %d %d", &Mesh.Tri[i].Edge[0], ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF cn3dstyl.c cn3dstyl.c: In function 'GetThisSpecialAlgorRenderSet': cn3dstyl.c:459:27: warning: unused variable 'sfipThis' [-Wunused-variable] SpecialFeatureInfoPtr sfipThis = NULL; ^ cn3dstyl.c: In function 'GetSpecialAlgorRenderSet': cn3dstyl.c:641:10: warning: unused variable 'parsThis' [-Wunused-variable] PARS parsThis = NULL; ^ cn3dstyl.c:640:23: warning: unused variable 'sfpThis' [-Wunused-variable] SpecialFeaturePtr sfpThis = NULL; ^ cn3dstyl.c: In function 'ChangeSpecialLabelsProc': cn3dstyl.c:866:44: warning: unused variable 'PDBOn' [-Wunused-variable] Boolean NumOn = FALSE, NameOn = FALSE, PDBOn = FALSE, WhiteOn = ^ cn3dstyl.c: In function 'lFeatureEditedAction': cn3dstyl.c:1136:10: warning: unused variable 'val' [-Wunused-variable] Int4 val = 0; ^ cn3dstyl.c: In function 'bFeatureMoveAction': cn3dstyl.c:1153:23: warning: unused variable 'sfpThis' [-Wunused-variable] SpecialFeaturePtr sfpThis = NULL; ^ cn3dstyl.c: In function 'bFeatureEditAction': cn3dstyl.c:1176:23: warning: unused variable 'sfpThis' [-Wunused-variable] SpecialFeaturePtr sfpThis = NULL; ^ cn3dstyl.c: In function 'ModelControls': cn3dstyl.c:1364:19: warning: variable 'ppt13' set but not used [-Wunused-but-set-variable] PrompT ppt12, ppt13, ppt14; ^ cn3dstyl.c:1362:36: warning: variable 'ppt5' set but not used [-Wunused-but-set-variable] PrompT ppt1, ppt2, ppt3, ppt4, ppt5, ppt6, ppt7, ppt8, ppt9, ppt10, ^ cn3dstyl.c:1362:12: warning: variable 'ppt1' set but not used [-Wunused-but-set-variable] PrompT ppt1, ppt2, ppt3, ppt4, ppt5, ppt6, ppt7, ppt8, ppt9, ppt10, ^ cn3dstyl.c: In function 'GetBiostrucFeatureLocationForHihglightedResidues': cn3dstyl.c:1728:30: warning: variable 'SingleInterval' set but not used [-Wunused-but-set-variable] Boolean Started = FALSE, SingleInterval, UserDefinedFeatureFound = ^ cn3dstyl.c:1725:20: warning: variable 'iMolCurrent' set but not used [-Wunused-but-set-variable] Int2 iMol = 0, iMolCurrent = 0; ^ cn3dstyl.c: In function 'MakeBiostrucFeatureSetForUserDefinedFeature': cn3dstyl.c:2122:60: warning: unused variable 'bsfsp_tail' [-Wunused-variable] BiostrucFeatureSetPtr bsfsp = NULL, bsfsp_head = NULL, bsfsp_tail = ^ cn3dstyl.c:2122:41: warning: unused variable 'bsfsp_head' [-Wunused-variable] BiostrucFeatureSetPtr bsfsp = NULL, bsfsp_head = NULL, bsfsp_tail = ^ cn3dstyl.c: In function 'GetUserDefinedFeature': cn3dstyl.c:2196:27: warning: unused variable 'sfipThis' [-Wunused-variable] SpecialFeatureInfoPtr sfipThis = NULL; ^ cn3dstyl.c: In function 'Cn3DIndexUserDefinedFeature': cn3dstyl.c:2551:23: warning: variable 'sfpThis' set but not used [-Wunused-but-set-variable] SpecialFeaturePtr sfpThis = NULL; ^ cn3dstyl.c:2549:10: warning: unused variable 'pmmdThis' [-Wunused-variable] PMMD pmmdThis = NULL; ^ cn3dstyl.c:2548:11: warning: unused variable 'pdnmmHead' [-Wunused-variable] PDNMM pdnmmHead = NULL; ^ cn3dstyl.c:2547:10: warning: unused variable 'pmsdThis' [-Wunused-variable] PMSD pmsdThis = NULL; ^ In file included from ../include/cn3dopen.h:111:0, from cn3dstyl.c:89: cn3dstyl.c: At top level: ../include/objmime.h:145:29: warning: 'Data_dataFree' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataFree PROTO ((Data_dataPtr )); ^ ../include/objmime.h:146:29: warning: 'Data_dataAsnRead' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:147:24: warning: 'Data_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Data_dataAsnWrite PROTO (( Data_dataPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:285:47: warning: 'SeqAlignData_seq_align_dataFree' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataFree PROTO ((SeqAlignData_seq_align_dataPtr )); ^ ../include/objmime.h:286:47: warning: 'SeqAlignData_seq_align_dataAsnRead' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:287:24: warning: 'SeqAlignData_seq_align_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL SeqAlignData_seq_align_dataAsnWrite PROTO (( SeqAlignData_seq_align_dataPtr , AsnIoPtr, AsnTypePtr)); ^ cn3dstyl.c:144:14: warning: 'Cn3D_pupModelStyleItem' defined but not used [-Wunused-variable] static PopuP Cn3D_pupModelStyleItem; ^ cn3dstyl.c:149:15: warning: 'bResetFeatureTitle' defined but not used [-Wunused-variable] static ButtoN bResetFeatureTitle; ^ cn3dstyl.c:456:30: warning: 'GetThisSpecialAlgorRenderSet' defined but not used [-Wunused-function] static SpecialFeatureInfoPtr GetThisSpecialAlgorRenderSet(Int2 id) ^ cn3dstyl.c: In function 'CopyLocation': cn3dstyl.c:496:27: warning: 'rsipNewHead' may be used uninitialized in this function [-Wmaybe-uninitialized] rspNew->data.ptrvalue = (VoidPtr) rsipNewHead; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF seqcons.c In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from seqcons.c:115: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/sqnutils.h:51:0, from ../include/alignmgr2.h:111, from ../include/actutils.h:105, from seqcons.c:116: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ seqcons.c: In function 'CSC_Algorithm_ByBlosum62': seqcons.c:402:43: warning: 'minScore' may be used uninitialized in this function [-Wmaybe-uninitialized] scale = 1.0 - 1.0 * (score[i] - minScore) / (maxScore - minScore); ^ seqcons.c:402:67: warning: 'maxScore' may be used uninitialized in this function [-Wmaybe-uninitialized] scale = 1.0 - 1.0 * (score[i] - minScore) / (maxScore - minScore); ^ rm -f libncbicn3d.a ar cru libncbicn3d.a algorend.o cn3dmsel.o cn3dopen.o cn3dsave.o cn3dxprt.o cn3dwin.o cn3dentr.o cn3dmsg.o cn3dmatn.o cn3dmodl.o cn3dshim.o cn3dmesh.o cn3dstyl.o seqcons.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libncbicn3d.a ../lib ranlib ../lib/libncbicn3d.a mv algorend.o algorend.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL algorend.c algorend.c: In function 'Cn3D_SetOGLFont': algorend.c:791:24: warning: unused variable 'currentUnderlined' [-Wunused-variable] currentUnderlined = FALSE; ^ algorend.c:790:45: warning: unused variable 'currentItalic' [-Wunused-variable] static Nlm_Boolean currentBold = FALSE, currentItalic = FALSE, ^ algorend.c:790:24: warning: unused variable 'currentBold' [-Wunused-variable] static Nlm_Boolean currentBold = FALSE, currentItalic = FALSE, ^ algorend.c:789:40: warning: unused variable 'currentSize' [-Wunused-variable] static Nlm_Int2 currentIndex = -1, currentSize = -1; ^ algorend.c:789:21: warning: unused variable 'currentIndex' [-Wunused-variable] static Nlm_Int2 currentIndex = -1, currentSize = -1; ^ algorend.c: In function 'ColorFromSS': algorend.c:893:10: warning: unused variable 'rsult' [-Wunused-variable] Int2 rsult = 0; ^ algorend.c: In function 'Cn3D_RenWire': algorend.c:1400:10: warning: unused variable 'pmldThis' [-Wunused-variable] PMLD pmldThis = NULL; ^ algorend.c:1399:11: warning: unused variable 'pdnmlThis' [-Wunused-variable] PDNML pdnmlThis = NULL; ^ algorend.c:1398:10: warning: unused variable 'pmsdThis' [-Wunused-variable] PMSD pmsdThis = NULL; ^ algorend.c: In function 'Cn3D_ColSeqCons': algorend.c:1795:24: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] pars->ConsColAlg = (Nlm_Int2) GetObjectExtra(i); ^ algorend.c: In function 'MasterChangeLabelsProc': algorend.c:2075:44: warning: unused variable 'TopOn' [-Wunused-variable] Boolean NumOn, NameOn, PDBOn, WhiteOn, TopOn; ^ algorend.c:2073:13: warning: unused variable 'k' [-Wunused-variable] Int2 i, k, nameval; ^ algorend.c: In function 'ResetLabelCtrls': algorend.c:2272:25: warning: variable 'size' set but not used [-Wunused-but-set-variable] Int2 i, val, style, size, termStyle; ^ algorend.c: In function 'LabelControls': algorend.c:2434:19: warning: variable 'ppt11' set but not used [-Wunused-but-set-variable] PrompT ppt10, ppt11; ^ algorend.c:2431:36: warning: unused variable 'ppt7' [-Wunused-variable] PrompT ppt1, ppt2, ppt3, ppt4, ppt7, ppt8, ppt9; ^ algorend.c: In function 'Cn3D_SetQualityFromAppParams': algorend.c:2649:9: warning: unused variable 'i' [-Wunused-variable] int i; ^ algorend.c: In function 'OGL_Quality': algorend.c:2769:23: warning: unused variable 'q' [-Wunused-variable] Nlm_PrompT bp, p, q; ^ algorend.c:2769:20: warning: variable 'p' set but not used [-Wunused-but-set-variable] Nlm_PrompT bp, p, q; ^ algorend.c:2769:16: warning: variable 'bp' set but not used [-Wunused-but-set-variable] Nlm_PrompT bp, p, q; ^ algorend.c: In function 'RenderControls': algorend.c:2893:12: warning: variable 'ppt5' set but not used [-Wunused-but-set-variable] PrompT ppt5; ^ algorend.c: In function 'RenderObject': algorend.c:3138:10: warning: unused variable 'iCylRadius' [-Wunused-variable] Int4 iCylRadius; ^ algorend.c:3137:22: warning: unused variable 'iZTo' [-Wunused-variable] Int4 iXTo, iYTo, iZTo; ^ algorend.c:3137:16: warning: unused variable 'iYTo' [-Wunused-variable] Int4 iXTo, iYTo, iZTo; ^ algorend.c:3137:10: warning: unused variable 'iXTo' [-Wunused-variable] Int4 iXTo, iYTo, iZTo; ^ algorend.c:3136:26: warning: unused variable 'iZFrom' [-Wunused-variable] Int4 iXFrom, iYFrom, iZFrom; ^ algorend.c:3136:18: warning: unused variable 'iYFrom' [-Wunused-variable] Int4 iXFrom, iYFrom, iZFrom; ^ algorend.c:3136:10: warning: unused variable 'iXFrom' [-Wunused-variable] Int4 iXFrom, iYFrom, iZFrom; ^ algorend.c:3133:10: warning: unused variable 'i' [-Wunused-variable] Int4 i = 0; ^ algorend.c: In function 'RenderLabel': algorend.c:3394:10: warning: variable 'paldPrim' set but not used [-Wunused-but-set-variable] PALD paldPrim = NULL; ^ algorend.c:3393:10: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ algorend.c:3389:18: warning: unused variable 'iZ' [-Wunused-variable] Int4 iX, iY, iZ; ^ algorend.c:3389:14: warning: unused variable 'iY' [-Wunused-variable] Int4 iX, iY, iZ; ^ algorend.c:3389:10: warning: unused variable 'iX' [-Wunused-variable] Int4 iX, iY, iZ; ^ algorend.c: In function 'RenderBond': algorend.c:3554:10: warning: variable 'pmsdParent' set but not used [-Wunused-but-set-variable] PMSD pmsdParent = NULL; ^ algorend.c: In function 'RenderHalfWormBond': algorend.c:3673:10: warning: variable 'pmsdParent' set but not used [-Wunused-but-set-variable] PMSD pmsdParent; ^ algorend.c:3671:24: warning: variable 'pmad2' set but not used [-Wunused-but-set-variable] PMAD pmad0, pmad1, pmad2, pmad3; ^ algorend.c: In function 'RenderAnAtom': algorend.c:3758:10: warning: unused variable 'pmadFrom' [-Wunused-variable] PMAD pmadFrom = NULL; ^ algorend.c: In function 'RenderAllAtom': algorend.c:3829:9: warning: variable 'iMenu' set but not used [-Wunused-but-set-variable] int iMenu; ^ algorend.c:3815:11: warning: unused variable 'pvnmbThis' [-Wunused-variable] PVNMB pvnmbThis = NULL; ^ algorend.c:3811:11: warning: unused variable 'pvnmaThis' [-Wunused-variable] PVNMA pvnmaThis = NULL; ^ algorend.c: In function 'RenderGraph': algorend.c:4498:10: warning: unused variable 'bReservedThis' [-Wunused-variable] Byte bReservedThis = 0; ^ algorend.c: In function 'LabelChainTermini': algorend.c:4772:14: warning: unused variable 'pmbdThis' [-Wunused-variable] PMBD pmbdThis = NULL; ^ algorend.c:4771:15: warning: unused variable 'pvnmbThis' [-Wunused-variable] PVNMB pvnmbThis = NULL; ^ algorend.c: In function 'RenderMolecule': algorend.c:4871:11: warning: variable 'pdnmmThis' set but not used [-Wunused-but-set-variable] PDNMM pdnmmThis = NULL; ^ algorend.c: In function 'fnARLoop': algorend.c:5556:10: warning: variable 'iTest' set but not used [-Wunused-but-set-variable] Int2 iTest; ^ algorend.c: In function 'AlgorithmicRendering': algorend.c:5684:10: warning: unused variable 'i' [-Wunused-variable] Int2 i = 0; ^ algorend.c:5683:10: warning: unused variable 'Cn3d_LayerNow_sofar' [-Wunused-variable] Int2 Cn3d_LayerNow_sofar = 0; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from algorend.c:598: algorend.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ algorend.c:717:16: warning: 'Cn3d_CopyToNode' defined but not used [-Wunused-variable] static Boolean Cn3d_CopyToNode = FALSE; ^ algorend.c:2265:13: warning: 'LabelGroupOnOffProc' defined but not used [-Wunused-function] static void LabelGroupOnOffProc(GrouP g) ^ algorend.c: In function 'MasterChangeRenderProc': algorend.c:1316:33: warning: 'k' may be used uninitialized in this function [-Wmaybe-uninitialized] pars->SolventRender = k; ^ algorend.c: In function 'RenderLabel': algorend.c:3448:15: warning: 'fZCen' may be used uninitialized in this function [-Wmaybe-uninitialized] fZCen += fZt / l; ^ algorend.c:3443:41: warning: 'fYCen' may be used uninitialized in this function [-Wmaybe-uninitialized] fYt = (fYCen - fYFrom) + (fYCen - fYTo); ^ algorend.c:3442:41: warning: 'fXCen' may be used uninitialized in this function [-Wmaybe-uninitialized] fXt = (fXCen - fXFrom) + (fXCen - fXTo); ^ algorend.c:3439:30: warning: 'fZTo' may be used uninitialized in this function [-Wmaybe-uninitialized] fZCen = fZTo + (fZTo - fZFrom) / 2.0; ^ algorend.c:3443:41: warning: 'fYTo' may be used uninitialized in this function [-Wmaybe-uninitialized] fYt = (fYCen - fYFrom) + (fYCen - fYTo); ^ algorend.c:3442:41: warning: 'fXTo' may be used uninitialized in this function [-Wmaybe-uninitialized] fXt = (fXCen - fXFrom) + (fXCen - fXTo); ^ algorend.c:3439:30: warning: 'fZFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] fZCen = fZTo + (fZTo - fZFrom) / 2.0; ^ algorend.c:3443:22: warning: 'fYFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] fYt = (fYCen - fYFrom) + (fYCen - fYTo); ^ algorend.c:3442:22: warning: 'fXFrom' may be used uninitialized in this function [-Wmaybe-uninitialized] fXt = (fXCen - fXFrom) + (fXCen - fXTo); ^ mv algorend.o algorend.glo mv algorend.tmp algorend.o mv cn3dmsel.o cn3dmsel.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dmsel.c mv cn3dmsel.o cn3dmsel.glo mv cn3dmsel.tmp cn3dmsel.o mv cn3dopen.o cn3dopen.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dopen.c cn3dopen.c: In function 'Cn3D_OpenStart': cn3dopen.c:722:10: warning: unused variable 'iBioseq' [-Wunused-variable] Int4 iBioseq = 0; ^ cn3dopen.c: In function 'MMDB_ReadMime': cn3dopen.c:1000:19: warning: unused variable 'pdnmlThis' [-Wunused-variable] PDNML pdnmlThis = NULL; ^ cn3dopen.c:989:25: warning: unused variable 'pbsasThis' [-Wunused-variable] BiostrucAlignSeqPtr pbsasThis = NULL; ^ cn3dopen.c: In function 'Cn3D_NetOpenBiostruc': cn3dopen.c:1310:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from cn3dopen.c:412: cn3dopen.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/sqnutils.h:51:0, from cn3dopen.c:413: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ cn3dopen.c:430:15: warning: 'Cn3D_wOpen' defined but not used [-Wunused-variable] static WindoW Cn3D_wOpen; ^ cn3dopen.c:431:15: warning: 'Cn3D_bOpenBrowse' defined but not used [-Wunused-variable] static ButtoN Cn3D_bOpenBrowse; ^ cn3dopen.c: In function 'MMDB_ReadMime': cn3dopen.c:529:9: warning: 'salp' may be used uninitialized in this function [-Wmaybe-uninitialized] SAM_ReplaceGI(salp); ^ cn3dopen.c:513:15: note: 'salp' was declared here SeqAlign *salp; ^ mv cn3dopen.o cn3dopen.glo mv cn3dopen.tmp cn3dopen.o mv cn3dsave.o cn3dsave.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dsave.c cn3dsave.c: In function 'Cn3D_AddMatrix': cn3dsave.c:206:41: warning: unused variable 'bsfsp_new' [-Wunused-variable] BiostrucFeatureSetPtr bsfsp = NULL, bsfsp_new = NULL; ^ cn3dsave.c: In function 'Cn3D_ExportAsnNow': cn3dsave.c:375:11: warning: unused variable 'pdnmlThis' [-Wunused-variable] PDNML pdnmlThis = NULL; ^ cn3dsave.c:372:24: warning: variable 'pbsfThis' set but not used [-Wunused-but-set-variable] BiostrucFeaturePtr pbsfThis; ^ cn3dsave.c:366:10: warning: unused variable 'pmsdSlave' [-Wunused-variable] PMSD pmsdSlave = NULL, pmsdMaster = NULL; ^ cn3dsave.c:362:27: warning: variable 'FirstSlave' set but not used [-Wunused-but-set-variable] Boolean iCn3d = TRUE, FirstSlave = FALSE; ^ cn3dsave.c:357:13: warning: unused variable 'pcSave' [-Wunused-variable] CharPtr pcSave = NULL; ^ cn3dsave.c: In function 'Cn3D_SaveBiostruc': cn3dsave.c:524:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ cn3dsave.c:523:11: warning: variable 'gMS' set but not used [-Wunused-but-set-variable] GrouP gMS; ^ cn3dsave.c:518:10: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ cn3dsave.c: In function 'Cn3D_ExportDictNow': cn3dsave.c:598:13: warning: unused variable 'pcSave' [-Wunused-variable] CharPtr pcSave = NULL; ^ cn3dsave.c:596:10: warning: unused variable 'iCount' [-Wunused-variable] Int4 iCount = 0; ^ cn3dsave.c: In function 'Cn3D_SaveDictionary': cn3dsave.c:629:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ cn3dsave.c:624:10: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ cn3dsave.c: In function 'Cn3D_SaveSub': cn3dsave.c:688:10: warning: variable 'i' set but not used [-Wunused-but-set-variable] IteM i; ^ In file included from cn3dsave.c:165:0: cn3dsave.c: At top level: ../include/asnmime.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnmime.h12"; ^ ../include/asnmime.h:117:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^ ../include/asnmime.h:118:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnmime.h:119:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from cn3dsave.c:171: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ cn3dsave.c:184:15: warning: 'Cn3D_bFeatOn' defined but not used [-Wunused-variable] static ButtoN Cn3D_bFeatOn; ^ cn3dsave.c: In function 'Cn3D_GetSubSet.isra.1': cn3dsave.c:289:24: warning: 'isep' may be used uninitialized in this function [-Wmaybe-uninitialized] isep->next = SeqEntryNew(); ^ mv cn3dsave.o cn3dsave.glo mv cn3dsave.tmp cn3dsave.o mv cn3dxprt.o cn3dxprt.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dxprt.c cn3dxprt.c: In function 'Cn3D_ExportPDB': cn3dxprt.c:209:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ cn3dxprt.c:208:11: warning: variable 'gMS' set but not used [-Wunused-but-set-variable] GrouP gMS; ^ cn3dxprt.c:203:10: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ cn3dxprt.c: In function 'Cn3D_ExportKin': cn3dxprt.c:381:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ cn3dxprt.c:380:11: warning: variable 'gMS' set but not used [-Wunused-but-set-variable] GrouP gMS; ^ cn3dxprt.c:375:10: warning: variable 'pmsdThis' set but not used [-Wunused-but-set-variable] PMSD pmsdThis = NULL; ^ cn3dxprt.c: In function 'Cn3D_ExportSub': cn3dxprt.c:513:10: warning: variable 'i' set but not used [-Wunused-but-set-variable] IteM i; ^ mv cn3dxprt.o cn3dxprt.glo mv cn3dxprt.tmp cn3dxprt.o mv cn3dwin.o cn3dwin.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dwin.c cn3dwin.c:733:1: warning: missing braces around initializer [-Wmissing-braces] { ^ cn3dwin.c:733:1: note: (near initialization for 'Cn3d_PaletteRGB') cn3dwin.c: In function 'Cn3D_Default_HLColor': cn3dwin.c:982:27: warning: variable 'colorB' set but not used [-Wunused-but-set-variable] Uint1 colorR, colorG, colorB; ^ cn3dwin.c:982:19: warning: variable 'colorG' set but not used [-Wunused-but-set-variable] Uint1 colorR, colorG, colorB; ^ cn3dwin.c:982:11: warning: variable 'colorR' set but not used [-Wunused-but-set-variable] Uint1 colorR, colorG, colorB; ^ cn3dwin.c: In function 'Cn3D_RedrawEx': cn3dwin.c:1251:19: warning: unused variable 'iColor' [-Wunused-variable] DDV_ColorCell iColor; ^ cn3dwin.c: In function 'fnPreCHLresidue': cn3dwin.c:1543:10: warning: unused variable 'pmsdThis' [-Wunused-variable] PMSD pmsdThis = NULL; ^ cn3dwin.c: In function 'Viewer3DGroups': cn3dwin.c:1728:10: warning: unused variable 'groups' [-Wunused-variable] Int2 groups = 0; ^ cn3dwin.c: In function 'Cn3D_AlignEdit': cn3dwin.c:1936:10: warning: unused variable 'iCount' [-Wunused-variable] Int2 iCount = 0; ^ cn3dwin.c:1935:10: warning: variable 'pmmdThis' set but not used [-Wunused-but-set-variable] PMMD pmmdThis = NULL; ^ cn3dwin.c:1933:17: warning: unused variable 'salp' [-Wunused-variable] SeqAlignPtr salp = NULL; ^ cn3dwin.c:1931:29: warning: variable 'pmsdSlave' set but not used [-Wunused-but-set-variable] PMSD pmsdMaster = NULL, pmsdSlave = NULL; ^ cn3dwin.c:1930:11: warning: unused variable 'pdnmsSlave' [-Wunused-variable] PDNMS pdnmsSlave = NULL; ^ cn3dwin.c: In function 'Cn3D_Menus': cn3dwin.c:2131:11: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] (Nlm_VoidPtr) i, NULL); ^ cn3dwin.c: In function 'Cn3DWin': cn3dwin.c:2364:5: warning: implicit declaration of function 'Nlm_SetOGLContext' [-Wimplicit-function-declaration] Nlm_SetOGLContext(NULL, NULL, NULL, NULL); ^ In file included from ../include/sqnutils.h:51:0, from ../include/udviewer.h:219, from cn3dwin.c:665: cn3dwin.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/samutil.h:234:0, from ../include/udviewer.h:228, from cn3dwin.c:665: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ cn3dwin.c:676:14: warning: 'Cn3D_Vy' defined but not used [-Wunused-variable] static Uint2 Cn3D_Vy, Cn3D_Rx; ^ cn3dwin.c:682:13: warning: 'Cn3D_iLabelCtrl' defined but not used [-Wunused-variable] static IteM Cn3D_iLabelCtrl = NULL; ^ cn3dwin.c:688:13: warning: 'Cn3D_iModelCtrl' defined but not used [-Wunused-variable] static IteM Cn3D_iModelCtrl = NULL; ^ cn3dwin.c:713:14: warning: 'Cn3D_gViewer' defined but not used [-Wunused-variable] static GrouP Cn3D_gViewer; ^ cn3dwin.c:719:14: warning: 'Cn3D_gViewCtrl' defined but not used [-Wunused-variable] static GrouP Cn3D_gViewCtrl; ^ cn3dwin.c:922:13: warning: 'Cn3D_ZoomCB' defined but not used [-Wunused-function] static void Cn3D_ZoomCB(IteM i) ^ cn3dwin.c:929:13: warning: 'Cn3D_MoveCB' defined but not used [-Wunused-function] static void Cn3D_MoveCB(IteM i) ^ cn3dwin.c:936:13: warning: 'Cn3D_Default_BgColor' defined but not used [-Wunused-function] static void Cn3D_Default_BgColor(IteM i) ^ cn3dwin.c:953:13: warning: 'Cn3D_BgColor' defined but not used [-Wunused-function] static void Cn3D_BgColor(IteM i) ^ cn3dwin.c:979:13: warning: 'Cn3D_Default_HLColor' defined but not used [-Wunused-function] static void Cn3D_Default_HLColor(IteM i) ^ cn3dwin.c:1349:25: warning: 'DoHighlightSeg' defined but not used [-Wunused-function] static void LIBCALLBACK DoHighlightSeg(PFB pfbThis, ^ cn3dwin.c:1428:13: warning: 'HLatom_MA' defined but not used [-Wunused-function] static void HLatom_MA(MAPtr ma, ^ cn3dwin.c:1626:13: warning: 'HLmolecule_MA' defined but not used [-Wunused-function] static void HLmolecule_MA(MAPtr ma, ^ mv cn3dwin.o cn3dwin.glo mv cn3dwin.tmp cn3dwin.o mv cn3dentr.o cn3dentr.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dentr.c mv cn3dentr.o cn3dentr.glo mv cn3dentr.tmp cn3dentr.o mv cn3dmsg.o cn3dmsg.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dmsg.c cn3dmsg.c: In function 'SeqStrucMediaMsgFunc': cn3dmsg.c:593:19: warning: variable 'omudp' set but not used [-Wunused-but-set-variable] OMUserDataPtr omudp = NULL; ^ In file included from ../include/sqnutils.h:51:0, from cn3dmsg.c:267: cn3dmsg.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/cn3dopen.h:111:0, from cn3dmsg.c:271: ../include/objmime.h:145:29: warning: 'Data_dataFree' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataFree PROTO ((Data_dataPtr )); ^ ../include/objmime.h:146:29: warning: 'Data_dataAsnRead' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:147:24: warning: 'Data_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Data_dataAsnWrite PROTO (( Data_dataPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:285:47: warning: 'SeqAlignData_seq_align_dataFree' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataFree PROTO ((SeqAlignData_seq_align_dataPtr )); ^ ../include/objmime.h:286:47: warning: 'SeqAlignData_seq_align_dataAsnRead' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:287:24: warning: 'SeqAlignData_seq_align_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL SeqAlignData_seq_align_dataAsnWrite PROTO (( SeqAlignData_seq_align_dataPtr , AsnIoPtr, AsnTypePtr)); ^ mv cn3dmsg.o cn3dmsg.glo mv cn3dmsg.tmp cn3dmsg.o mv cn3dmatn.o cn3dmatn.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dmatn.c cn3dmatn.c: In function 'FindMM': cn3dmatn.c:217:29: warning: unused variable 'pdnmsThisSlave' [-Wunused-variable] PDNMS pdnmsThis = NULL, pdnmsThisSlave = NULL; ^ cn3dmatn.c: In function 'DoMediaHL': cn3dmatn.c:249:10: warning: variable 'MainAtom' set but not used [-Wunused-but-set-variable] Byte MainAtom = 0; ^ cn3dmatn.c:247:10: warning: unused variable 'paldThis' [-Wunused-variable] PALD paldThis = NULL; ^ cn3dmatn.c:246:11: warning: unused variable 'pvnalThis' [-Wunused-variable] PVNAL pvnalThis = NULL; ^ cn3dmatn.c:245:10: warning: unused variable 'pmadThis' [-Wunused-variable] PMAD pmadThis = NULL; ^ cn3dmatn.c:244:11: warning: unused variable 'pvnmaThis' [-Wunused-variable] PVNMA pvnmaThis = NULL; ^ cn3dmatn.c: In function 'Cn3DCheckAndDoHighlight': cn3dmatn.c:372:10: warning: unused variable 'pmsdThis' [-Wunused-variable] PMSD pmsdThis = NULL; ^ cn3dmatn.c:371:10: warning: unused variable 'pmmdThis' [-Wunused-variable] PMMD pmmdThis = NULL; ^ mv cn3dmatn.o cn3dmatn.glo mv cn3dmatn.tmp cn3dmatn.o mv cn3dmodl.o cn3dmodl.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dmodl.c cn3dmodl.c: In function 'Cn3DCheckNoSingleHighlight': cn3dmodl.c:353:11: warning: unused variable 'pdnmgThis' [-Wunused-variable] PDNMG pdnmgThis = NULL; ^ cn3dmodl.c: In function 'Cn3DCheckHighlighted': cn3dmodl.c:364:29: warning: unused variable 'pmsdSlave' [-Wunused-variable] PMSD pmsdMaster = NULL, pmsdSlave = NULL; ^ cn3dmodl.c: In function 'Cn3D_ReSetVisibleStatus': cn3dmodl.c:508:10: warning: unused variable 'pmgd' [-Wunused-variable] PMGD pmgd = NULL; ^ cn3dmodl.c:507:11: warning: unused variable 'pdnmg' [-Wunused-variable] PDNMG pdnmg = NULL; ^ cn3dmodl.c:506:10: warning: unused variable 'pmmdThis' [-Wunused-variable] PMMD pmmdThis = NULL; ^ cn3dmodl.c: In function 'fnAlignList': cn3dmodl.c:996:25: warning: unused variable 'itemtype' [-Wunused-variable] Uint2 entityID = 0, itemtype = 0; ^ cn3dmodl.c:996:11: warning: unused variable 'entityID' [-Wunused-variable] Uint2 entityID = 0, itemtype = 0; ^ cn3dmodl.c:995:14: warning: unused variable 'sipThis' [-Wunused-variable] SeqIdPtr sipThis = NULL; ^ cn3dmodl.c:993:10: warning: unused variable 'pmmdThis' [-Wunused-variable] PMMD pmmdThis = NULL; ^ cn3dmodl.c: In function 'SynchronizeModVisibleStatus': cn3dmodl.c:1065:11: warning: unused variable 'pdnmg' [-Wunused-variable] PDNMG pdnmg = NULL; ^ cn3dmodl.c:1064:10: warning: unused variable 'pmmdThis' [-Wunused-variable] PMMD pmmdThis = NULL; ^ cn3dmodl.c: In function 'SetResidueVisibilities': cn3dmodl.c:1201:11: warning: unused variable 'pvnmoThis' [-Wunused-variable] PVNMO pvnmoThis = NULL; ^ In file included from ../include/cn3dopen.h:111:0, from cn3dmodl.c:319: cn3dmodl.c: At top level: ../include/objmime.h:145:29: warning: 'Data_dataFree' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataFree PROTO ((Data_dataPtr )); ^ ../include/objmime.h:146:29: warning: 'Data_dataAsnRead' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:147:24: warning: 'Data_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Data_dataAsnWrite PROTO (( Data_dataPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:285:47: warning: 'SeqAlignData_seq_align_dataFree' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataFree PROTO ((SeqAlignData_seq_align_dataPtr )); ^ ../include/objmime.h:286:47: warning: 'SeqAlignData_seq_align_dataAsnRead' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:287:24: warning: 'SeqAlignData_seq_align_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL SeqAlignData_seq_align_dataAsnWrite PROTO (( SeqAlignData_seq_align_dataPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from cn3dmodl.c:323: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ mv cn3dmodl.o cn3dmodl.glo mv cn3dmodl.tmp cn3dmodl.o mv cn3dshim.o cn3dshim.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dshim.c cn3dshim.c: In function 'Cn3D_Size': cn3dshim.c:413:10: warning: unused variable 'pmsdThis' [-Wunused-variable] PMSD pmsdThis; ^ cn3dshim.c:412:11: warning: unused variable 'pdnmsSlave' [-Wunused-variable] PDNMS pdnmsSlave; ^ cn3dshim.c: In function 'Cn3D_SizeCB': cn3dshim.c:391:36: warning: iteration 2u invokes undefined behavior [-Waggressive-loop-optimizations] BoundBox->x[i] = pflvDataThis[i / (int) 2]; ^ cn3dshim.c:390:17: note: containing loop for (i = 0; i < 6; i++) { ^ cn3dshim.c:399:36: warning: iteration 1u invokes undefined behavior [-Waggressive-loop-optimizations] BoundBox->x[i + 1]) BoundBox->x[i + 1] = ^ cn3dshim.c:395:17: note: containing loop for (i = 0; i < 6; i += 2) { /* check to see if the atom lies outside the bound box */ ^ mv cn3dshim.o cn3dshim.glo mv cn3dshim.tmp cn3dshim.o mv cn3dmesh.o cn3dmesh.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dmesh.c cn3dmesh.c: In function 'Cn3D_MeshAcceptProc': cn3dmesh.c:103:10: warning: unused variable 'pmsdThis' [-Wunused-variable] PMSD pmsdThis = NULL; ^ cn3dmesh.c: In function 'Cn3D_OpenMesh': cn3dmesh.c:151:12: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ cn3dmesh.c: In function 'Cn3D_MeshAcceptProc': cn3dmesh.c:111:5: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(hFile, "%d %d %d", &(Mesh.NumVert), &(Mesh.NumEdge), ^ cn3dmesh.c:119:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(hFile, "%lf %lf %lf %lf %lf %lf %f %f %f %d %d %d", ^ cn3dmesh.c:129:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(hFile, "%d %d %d %d %d", &Mesh.Edges[i].Vertex[0], ^ cn3dmesh.c:133:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(hFile, "%d %d %d %d %d %d %d %d %d", &Mesh.Tri[i].Edge[0], ^ mv cn3dmesh.o cn3dmesh.glo mv cn3dmesh.tmp cn3dmesh.o mv cn3dstyl.o cn3dstyl.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dstyl.c cn3dstyl.c: In function 'GetThisSpecialAlgorRenderSet': cn3dstyl.c:459:27: warning: unused variable 'sfipThis' [-Wunused-variable] SpecialFeatureInfoPtr sfipThis = NULL; ^ cn3dstyl.c: In function 'GetSpecialAlgorRenderSet': cn3dstyl.c:641:10: warning: unused variable 'parsThis' [-Wunused-variable] PARS parsThis = NULL; ^ cn3dstyl.c:640:23: warning: unused variable 'sfpThis' [-Wunused-variable] SpecialFeaturePtr sfpThis = NULL; ^ cn3dstyl.c: In function 'ChangeSpecialLabelsProc': cn3dstyl.c:867:16: warning: unused variable 'TopOn' [-Wunused-variable] FALSE, TopOn = FALSE; ^ cn3dstyl.c:866:44: warning: unused variable 'PDBOn' [-Wunused-variable] Boolean NumOn = FALSE, NameOn = FALSE, PDBOn = FALSE, WhiteOn = ^ cn3dstyl.c:864:17: warning: unused variable 'k' [-Wunused-variable] Int2 i = 0, k = 0, nameval = 0; ^ cn3dstyl.c: In function 'ModelSetLabelCtrls': cn3dstyl.c:1059:37: warning: variable 'size' set but not used [-Wunused-but-set-variable] Int2 i = 0, val = 0, style = 0, size = 0; ^ cn3dstyl.c: In function 'lFeatureEditedAction': cn3dstyl.c:1136:10: warning: unused variable 'val' [-Wunused-variable] Int4 val = 0; ^ cn3dstyl.c: In function 'bFeatureMoveAction': cn3dstyl.c:1153:23: warning: unused variable 'sfpThis' [-Wunused-variable] SpecialFeaturePtr sfpThis = NULL; ^ cn3dstyl.c: In function 'bFeatureEditAction': cn3dstyl.c:1176:23: warning: unused variable 'sfpThis' [-Wunused-variable] SpecialFeaturePtr sfpThis = NULL; ^ cn3dstyl.c: In function 'ModelControls': cn3dstyl.c:1364:19: warning: variable 'ppt13' set but not used [-Wunused-but-set-variable] PrompT ppt12, ppt13, ppt14; ^ cn3dstyl.c:1363:9: warning: unused variable 'ppt11' [-Wunused-variable] ppt11; ^ cn3dstyl.c:1362:60: warning: unused variable 'ppt9' [-Wunused-variable] PrompT ppt1, ppt2, ppt3, ppt4, ppt5, ppt6, ppt7, ppt8, ppt9, ppt10, ^ cn3dstyl.c:1362:36: warning: variable 'ppt5' set but not used [-Wunused-but-set-variable] PrompT ppt1, ppt2, ppt3, ppt4, ppt5, ppt6, ppt7, ppt8, ppt9, ppt10, ^ cn3dstyl.c:1362:12: warning: variable 'ppt1' set but not used [-Wunused-but-set-variable] PrompT ppt1, ppt2, ppt3, ppt4, ppt5, ppt6, ppt7, ppt8, ppt9, ppt10, ^ cn3dstyl.c: In function 'GetBiostrucFeatureLocationForHihglightedResidues': cn3dstyl.c:1728:30: warning: variable 'SingleInterval' set but not used [-Wunused-but-set-variable] Boolean Started = FALSE, SingleInterval, UserDefinedFeatureFound = ^ cn3dstyl.c:1725:20: warning: variable 'iMolCurrent' set but not used [-Wunused-but-set-variable] Int2 iMol = 0, iMolCurrent = 0; ^ cn3dstyl.c: In function 'MakeBiostrucFeatureSetForUserDefinedFeature': cn3dstyl.c:2122:60: warning: unused variable 'bsfsp_tail' [-Wunused-variable] BiostrucFeatureSetPtr bsfsp = NULL, bsfsp_head = NULL, bsfsp_tail = ^ cn3dstyl.c:2122:41: warning: unused variable 'bsfsp_head' [-Wunused-variable] BiostrucFeatureSetPtr bsfsp = NULL, bsfsp_head = NULL, bsfsp_tail = ^ cn3dstyl.c: In function 'GetUserDefinedFeature': cn3dstyl.c:2196:27: warning: unused variable 'sfipThis' [-Wunused-variable] SpecialFeatureInfoPtr sfipThis = NULL; ^ cn3dstyl.c: In function 'Cn3DIndexUserDefinedFeature': cn3dstyl.c:2551:23: warning: variable 'sfpThis' set but not used [-Wunused-but-set-variable] SpecialFeaturePtr sfpThis = NULL; ^ cn3dstyl.c:2549:10: warning: unused variable 'pmmdThis' [-Wunused-variable] PMMD pmmdThis = NULL; ^ cn3dstyl.c:2548:11: warning: unused variable 'pdnmmHead' [-Wunused-variable] PDNMM pdnmmHead = NULL; ^ cn3dstyl.c:2547:10: warning: unused variable 'pmsdThis' [-Wunused-variable] PMSD pmsdThis = NULL; ^ In file included from ../include/cn3dopen.h:111:0, from cn3dstyl.c:89: cn3dstyl.c: At top level: ../include/objmime.h:145:29: warning: 'Data_dataFree' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataFree PROTO ((Data_dataPtr )); ^ ../include/objmime.h:146:29: warning: 'Data_dataAsnRead' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:147:24: warning: 'Data_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Data_dataAsnWrite PROTO (( Data_dataPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:285:47: warning: 'SeqAlignData_seq_align_dataFree' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataFree PROTO ((SeqAlignData_seq_align_dataPtr )); ^ ../include/objmime.h:286:47: warning: 'SeqAlignData_seq_align_dataAsnRead' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:287:24: warning: 'SeqAlignData_seq_align_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL SeqAlignData_seq_align_dataAsnWrite PROTO (( SeqAlignData_seq_align_dataPtr , AsnIoPtr, AsnTypePtr)); ^ cn3dstyl.c:144:14: warning: 'Cn3D_pupModelStyleItem' defined but not used [-Wunused-variable] static PopuP Cn3D_pupModelStyleItem; ^ cn3dstyl.c:149:15: warning: 'bResetFeatureTitle' defined but not used [-Wunused-variable] static ButtoN bResetFeatureTitle; ^ cn3dstyl.c:456:30: warning: 'GetThisSpecialAlgorRenderSet' defined but not used [-Wunused-function] static SpecialFeatureInfoPtr GetThisSpecialAlgorRenderSet(Int2 id) ^ cn3dstyl.c: In function 'CopyLocation': cn3dstyl.c:496:27: warning: 'rsipNewHead' may be used uninitialized in this function [-Wmaybe-uninitialized] rspNew->data.ptrvalue = (VoidPtr) rsipNewHead; ^ mv cn3dstyl.o cn3dstyl.glo mv cn3dstyl.tmp cn3dstyl.o mv seqcons.o seqcons.tmp gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL seqcons.c In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from seqcons.c:115: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/sqnutils.h:51:0, from ../include/alignmgr2.h:111, from ../include/actutils.h:105, from seqcons.c:116: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ seqcons.c: In function 'CSC_Algorithm_ByBlosum62': seqcons.c:402:43: warning: 'minScore' may be used uninitialized in this function [-Wmaybe-uninitialized] scale = 1.0 - 1.0 * (score[i] - minScore) / (maxScore - minScore); ^ seqcons.c:402:67: warning: 'maxScore' may be used uninitialized in this function [-Wmaybe-uninitialized] scale = 1.0 - 1.0 * (score[i] - minScore) / (maxScore - minScore); ^ mv seqcons.o seqcons.glo mv seqcons.tmp seqcons.o rm -f libncbicn3dOGL.a ar cru libncbicn3dOGL.a algorend.glo cn3dmsel.glo cn3dopen.glo cn3dsave.glo cn3dxprt.glo cn3dwin.glo cn3dentr.glo cn3dmsg.glo cn3dmatn.glo cn3dmodl.glo cn3dshim.glo cn3dmesh.glo cn3dstyl.glo seqcons.glo ar: `u' modifier ignored since `D' is the default (see `U') cp -p libncbicn3dOGL.a ../lib ranlib ../lib/libncbicn3dOGL.a gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF aa_ungapped.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_diagnostics.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_engine.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_extend.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_filter.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_gapalign.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_hits.c blast_hits.c: In function 'Blast_HSPResultsFromHSPStreamWithLimitEx': blast_hits.c:3499:13: warning: variable 'rm_hsps' set but not used [-Wunused-but-set-variable] Boolean rm_hsps = FALSE; ^ blast_hits.c: At top level: blast_hits.c:3212:12: warning: 's_SortHspWrapEvalue' defined but not used [-Wunused-function] static int s_SortHspWrapEvalue(const void *x, const void *y) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_itree.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_lookup.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_message.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_options.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_seg.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_seqsrc.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_sw.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_setup.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_stat.c blast_stat.c: In function 's_BlastGumbelBlkNew': blast_stat.c:818:21: warning: unused variable 'retv' [-Wunused-variable] Blast_GumbelBlk* retv; ^ blast_stat.c: At top level: blast_stat.c:5081:15: warning: 's_CalculateNormalProbability' defined but not used [-Wunused-function] static double s_CalculateNormalProbability(double x_, double eps_) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_traceback.c blast_traceback.c: In function 'Blast_TracebackFromHSPList': blast_traceback.c:393:25: warning: 'qe' may be used uninitialized in this function [-Wmaybe-uninitialized] Blast_HSPInit(qs, qe, ss, se, qs, ss, ^ blast_traceback.c:365:22: note: 'qe' was declared here Int4 qs, qe, ss, se, es, ee, os; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_util.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF gapinfo.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF greedy_align.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF link_hsps.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF lookup_wrap.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF na_ungapped.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbi_math.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF ncbi_std.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF pattern.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF phi_extend.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF phi_lookup.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF lookup_util.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_encoding.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_psi.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_psi_priv.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_kappa.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF matrix_freq_ratios.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_hspstream.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_parameters.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_posit.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF phi_gapalign.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_program.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_query_info.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_tune.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_aalookup.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_nalookup.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_aascan.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_nascan.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_dynarray.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF split_query.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF gencode_singleton.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF index_ungapped.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF hspfilter_collector.c rm -f libblast.a ar cru libblast.a aa_ungapped.o blast_diagnostics.o blast_engine.o blast_extend.o blast_filter.o blast_gapalign.o blast_hits.o blast_itree.o blast_lookup.o blast_message.o blast_options.o blast_seg.o blast_seqsrc.o blast_sw.o blast_setup.o blast_stat.o blast_traceback.o blast_util.o gapinfo.o greedy_align.o link_hsps.o lookup_wrap.o na_ungapped.o ncbi_math.o ncbi_std.o pattern.o phi_extend.o phi_lookup.o lookup_util.o blast_encoding.o blast_psi.o blast_psi_priv.o blast_kappa.o matrix_freq_ratios.o blast_hspstream.o blast_parameters.o blast_posit.o phi_gapalign.o blast_program.o blast_query_info.o blast_tune.o blast_aalookup.o blast_nalookup.o blast_aascan.o blast_nascan.o blast_dynarray.o split_query.o gencode_singleton.o index_ungapped.o hspfilter_collector.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libblast.a ../lib ranlib ../lib/libblast.a gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_api.c blast_api.c: In function 's_BlastRPSInfoInit': blast_api.c:149:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(auxfile, "%s", buffer); ^ blast_api.c:151:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(auxfile, "%d", &info->aux_info.gap_open_penalty); ^ blast_api.c:152:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(auxfile, "%d", &info->aux_info.gap_extend_penalty); ^ blast_api.c:153:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(auxfile, "%le", &info->aux_info.ungapped_k); ^ blast_api.c:154:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(auxfile, "%le", &info->aux_info.ungapped_h); ^ blast_api.c:155:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(auxfile, "%d", &info->aux_info.max_db_seq_length); ^ blast_api.c:156:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(auxfile, "%d", &info->aux_info.db_length); ^ blast_api.c:157:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(auxfile, "%lf", &info->aux_info.scale_factor); ^ blast_api.c:161:7: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(auxfile, "%d", &seq_size); /* not used */ ^ blast_api.c:162:7: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(auxfile, "%le", &info->aux_info.karlin_k[i]); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_input.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_format.c blast_format.c: In function 's_MBXmlInit': blast_format.c:255:13: warning: variable 'retval' set but not used [-Wunused-but-set-variable] Boolean retval = FALSE; ^ blast_format.c: In function 's_LoadMatrix': blast_format.c:673:20: warning: array subscript has type 'char' [-Wchar-subscripts] ss[pchars[i]][pchars[j]] = pack_matrix->scores[(i*dim)+j]; ^ blast_format.c:673:31: warning: array subscript has type 'char' [-Wchar-subscripts] ss[pchars[i]][pchars[j]] = pack_matrix->scores[(i*dim)+j]; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_mtlock.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_options_api.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_prelim.c blast_prelim.c: In function 'Blast_PrelimSearchThreadRun': blast_prelim.c:100:9: warning: variable 'status' set but not used [-Wunused-but-set-variable] Int2 status = 0; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_returns.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_seq.c blast_seq.c: In function 's_SeqLocFillSequenceBuffer': blast_seq.c:529:10: warning: variable 'seq_code' set but not used [-Wunused-but-set-variable] Uint1 seq_code, strand; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_seqalign.c blast_seqalign.c: In function 's_HSPListToSeqAlignUngapped': blast_seqalign.c:343:26: warning: variable 'hspset_cnt_old' set but not used [-Wunused-but-set-variable] Int4 hsp_cnt, index2, hspset_cnt_old; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_tabular.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF repeats_filter.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF seqsrc_multiseq.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF seqsrc_readdb.c seqsrc_readdb.c: In function 's_ReaddbGetNextChunk': seqsrc_readdb.c:375:11: warning: variable 'real_readdb_entries' set but not used [-Wunused-but-set-variable] Uint4 real_readdb_entries; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF twoseq_api.c twoseq_api.c: In function 's_TwoSeqBasicFillOptions': twoseq_api.c:100:10: warning: unused variable 'status' [-Wunused-variable] Int2 status = 0; ^ In file included from ../include/sqnutils.h:51:0, from ../include/algo/blast/api/twoseq_api.h:41, from twoseq_api.c:45: twoseq_api.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF dust_filter.c dust_filter.c: In function 's_GetFilteringLocations': dust_filter.c:171:32: warning: unused variable 'filter_slp_rev' [-Wunused-variable] BlastSeqLoc* filter_slp_rev = NULL; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF blast_message_api.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -D_PNG -I../include -DWIN_MOTIF hspfilter_queue.c hspfilter_queue.c: In function 's_BlastHSPQueueInit': hspfilter_queue.c:65:24: warning: unused variable 'q_data' [-Wunused-variable] BlastHSPQueueData * q_data = data; ^ rm -f libblastapi.a ar cru libblastapi.a blast_api.o blast_input.o blast_format.o blast_mtlock.o blast_options_api.o blast_prelim.o blast_returns.o blast_seq.o blast_seqalign.o blast_tabular.o repeats_filter.o seqsrc_multiseq.o seqsrc_readdb.o twoseq_api.o dust_filter.o blast_message_api.o hspfilter_queue.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libblastapi.a ../lib ranlib ../lib/libblastapi.a gcc -o asntool -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -DWIN_MOTIF -L../shlib asntool.c asncode.c ../lib/libncbi.a -lm asncode.c: In function 'AsnCode_SETOF_base_or_user': asncode.c:1518:20: warning: variable 'real_type' set but not used [-Wunused-but-set-variable] Int2 real_type; ^ asncode.c:1517:20: warning: variable 'valslot' set but not used [-Wunused-but-set-variable] CharPtr valslot; ^ asncode.c: In function 'userobj_and_basetype_SETOF': asncode.c:2472:20: warning: variable 'valslot' set but not used [-Wunused-but-set-variable] CharPtr valslot; ^ asncode.c: In function 'AsnCodeIsReallyChoice': asncode.c:3201:7: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (now_atp) ^ asncode.c: In function 'AsnCodeFunctionWriteFuncChoiceStart': asncode.c:3623:20: warning: variable 'obj_use' set but not used [-Wunused-but-set-variable] CharPtr obj_use = which_node->obj_name; ^ asncode.c: In function 'AsnCodeIter': asncode.c:4237:7: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (iter->atp != NULL) ^ asncode.c: In function 'AsnCode': asncode.c:4316:48: warning: variable 'objnamety' set but not used [-Wunused-but-set-variable] CharPtr objnameuc = NULL, objnamemc = NULL, objnamety = NULL; ^ asncode.c: At top level: asncode.c:286:17: warning: 'defptr' defined but not used [-Wunused-variable] static CharPtr defptr = "ASNCODE_PTRVAL_SLOT"; ^ asncode.c:288:17: warning: 'defbigint' defined but not used [-Wunused-variable] static CharPtr defbigint = "ASNCODE_BIGINTVAL_SLOT"; ^ asncode.c:289:17: warning: 'defreal' defined but not used [-Wunused-variable] static CharPtr defreal = "ASNCODE_REALVAL_SLOT"; ^ asncode.c:290:17: warning: 'defbool' defined but not used [-Wunused-variable] static CharPtr defbool = "ASNCODE_BOOLVAL_SLOT"; ^ asncode.c:291:17: warning: 'defbyte' defined but not used [-Wunused-variable] static CharPtr defbyte = "ASNCODE_BYTEVAL_SLOT"; ^ ../lib/libncbi.a(ncbifile.o): In function `Nlm_TmpNam': /«PKGBUILDDIR»/build/ncbifile.c:1209: warning: the use of `tempnam' is dangerous, better use `mkstemp' cp -p asntool ../bin make[2]: Leaving directory '/«PKGBUILDDIR»/build' /usr/bin/make -C build -f makedemo.unx LCL=lnx CC="gcc " LDFLAGS1="-g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='\"Dec 10 2015\"' -DBUILD_TIME='\"06:19:59\"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now" RAN="ranlib" OTHERLIBS="-lm" VIBLIBS="-lXm -lXmu -lXt -lX11 " VIBFLAG="-DWIN_MOTIF" NCBI_LINKINGLIBDIR="../shlib" \ CFLAGS1="-c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='\"Dec 10 2015\"' -DBUILD_TIME='\"06:19:59\"'" VIBLIBS= VIBFLAG= LIB50=-lpcre make[2]: Entering directory '/«PKGBUILDDIR»/build' ./ln-if-absent ../demo/*.* . ./ln-if-absent ../regexp/test/*.* . ./ln-if-absent ../regexp/demo/*.* . ./ln-if-absent ../internal/*.* . set: No match. makedemo.unx:156: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) chmod -R ug+rw,o+r . echo Waiting...go Waiting...go gcc -o testcore -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib testcore.c -lncbi -lm testcore.c:337:13: warning: 'TestStrings' defined but not used [-Wunused-function] static void TestStrings (void) ^ gcc -o makeset -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib makeset.c -lncbi In file included from makeset.c:9:0: ../include/all.h:7192:0: warning: "RNA_QUAL" redefined #define RNA_QUAL &at[2231] ^ ../include/all.h:5745:0: note: this is the location of the previous definition #define RNA_QUAL &at[1023] ^ makeset.c: In function 'Nlm_Main': makeset.c:27:26: warning: unused variable 'uid' [-Wunused-variable] Int4 seekptr, tempseek, uid; ^ makeset.c:27:16: warning: unused variable 'tempseek' [-Wunused-variable] Int4 seekptr, tempseek, uid; ^ makeset.c:27:7: warning: unused variable 'seekptr' [-Wunused-variable] Int4 seekptr, tempseek, uid; ^ gcc -o getmesh -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib getmesh.c -lncbi gcc -o indexpub -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib indexpub.c -lncbi gcc -o getpub -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib getpub.c -lncbi gcc -o testobj -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib testobj.c -lncbiobj -lncbi -lm gcc -o seqtest -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib seqtest.c -lncbiobj -lncbi -lm gcc -o dosimple -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib dosimple.c -lncbiobj -lncbi -lm gcc -o asn2ff -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib asn2ff.c -lncbiobj -lncbi asn2ff.c: In function 'Nlm_Main': asn2ff.c:129:10: warning: unused variable 'good' [-Wunused-variable] Boolean good = FALSE; ^ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from asn2ff.c:9: asn2ff.c: At top level: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ asn2ff.c: In function 'Nlm_Main': asn2ff.c:405:13: warning: 'atp2' may be used uninitialized in this function [-Wmaybe-uninitialized] the_set = SeqEntryAsnRead(aip, atp); ^ asn2ff.c:352:9: warning: 'atp1' may be used uninitialized in this function [-Wmaybe-uninitialized] ssp = SeqSubmitAsnRead(aip, atp); ^ gcc -o checksub -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib checksub.c -lncbiobj -lncbi gcc -o asndhuff -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib asndhuff.c -lncbicdr -lncbiobj -lncbi asndhuff.c: In function 'do_medline': asndhuff.c:182:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses] for (count=0; entry=CASN_NextMedlineEntry(casnh); ++count) ^ asndhuff.c: In function 'do_sequence': asndhuff.c:221:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses] for (count=0; entry=CASN_NextSeqEntry(casnh); ++count) ^ asndhuff.c:200:10: warning: unused variable 'val' [-Wunused-variable] DataVal val; ^ gcc -o entrcmd -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib entrcmd.c -lncbiacc -lncbicdr -lncbiobj -lncbi -lm entrcmd.c: In function 'PrintDSPMwww': entrcmd.c:373:21: warning: unused variable 'lsp' [-Wunused-variable] LocalLinkSetPtr lsp; ^ entrcmd.c: In function 'PrintDSPNwww': entrcmd.c:465:21: warning: unused variable 'lsp' [-Wunused-variable] LocalLinkSetPtr lsp; ^ entrcmd.c: In function 'PrintDSPPwww': entrcmd.c:569:21: warning: unused variable 'lsp' [-Wunused-variable] LocalLinkSetPtr lsp; ^ entrcmd.c: In function 'TermProcessing': entrcmd.c:1297:13: warning: variable 'inclusive' set but not used [-Wunused-but-set-variable] Boolean inclusive; ^ entrcmd.c:1296:13: warning: variable 'endWithTerm' set but not used [-Wunused-but-set-variable] Boolean endWithTerm = FALSE; ^ entrcmd.c:1295:13: warning: variable 'beginWithTerm' set but not used [-Wunused-but-set-variable] Boolean beginWithTerm = FALSE; ^ entrcmd.c: At top level: entrcmd.c:284:16: warning: 'IsGenBank' defined but not used [-Wunused-function] static Boolean IsGenBank (SeqEntryPtr sep) ^ entrcmd.c: In function 'LinkSetToLocalLinkSet': entrcmd.c:212:12: warning: 'lsp' may be used uninitialized in this function [-Wmaybe-uninitialized] return lsp; ^ entrcmd.c: In function 'TermProcessing': entrcmd.c:1387:43: warning: 'ratio' may be used uninitialized in this function [-Wmaybe-uninitialized] termsBefore = (Int2) (numTerms / ((float) ratio / 2)); ^ entrcmd.c: In function 'Nlm_Main': entrcmd.c:1548:17: warning: 'db' may be used uninitialized in this function [-Wmaybe-uninitialized] slp->db = db; ^ entrcmd.c:1476:13: note: 'db' was declared here DocType db; ^ entrcmd.c:1582:13: warning: 'vector' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4Ptr vector; ^ entrcmd.c:2207:24: warning: 'neighborFile' may be used uninitialized in this function [-Wmaybe-uninitialized] neighborFp = FileOpen(neighborFile, "r"); ^ In file included from ../include/ncbi.h:62:0, from entrcmd.c:113: ../include/ncbistr.h:312:18: warning: 'taxString' may be used uninitialized in this function [-Wmaybe-uninitialized] #define StrICmp Nlm_StrICmp ^ entrcmd.c:1917:13: note: 'taxString' was declared here CharPtr taxString; ^ entrcmd.c:2231:9: warning: 'termString' may be used uninitialized in this function [-Wmaybe-uninitialized] TermProcessing(programStr, termString, db, FALSE); ^ entrcmd.c:2137:12: warning: 'boolString' may be used uninitialized in this function [-Wmaybe-uninitialized] if ((bsp = EntrezTLEvalXString(boolString, db, -1, NULL, NULL)) != NULL) ^ gcc -o errhdr -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib errhdr.c -lncbi In file included from /usr/include/string.h:639:0, from ../include/ncbilcl.h:156, from ../include/ncbi.h:57, from errhdr.c:1: In function 'strncat', inlined from 'main' at errhdr.c:44:4: /usr/include/x86_64-linux-gnu/bits/string3.h:156:10: warning: call to __builtin___strncat_chk might overflow destination buffer return __builtin___strncat_chk (__dest, __src, __len, __bos (__dest)); ^ gcc -o cdscan -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib cdscan.c -lncbiacc -lncbicdr -lncbiobj -lncbi -lm cdscan.c:133:13: warning: 'root' defined but not used [-Wunused-variable] static Char root [PATH_MAX]; ^ cdscan.c:392:13: warning: 'GenBankPubs' defined but not used [-Wunused-function] static void GenBankPubs (SeqEntryPtr sep, FILE * fp) ^ cdscan.c:576:13: warning: 'SeqEntryToFeat' defined but not used [-Wunused-function] static void SeqEntryToFeat (SeqEntryPtr sep, FILE *fp) ^ gcc -o findspl -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib findspl.c -lncbiacc -lncbiobj -lncbi gcc -o ncbisort -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib sortcmd.c -lncbitool -lblastcompadj \ -lncbi -lm gcc -o fa2htgs -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib fa2htgs.c -lncbiobj -lncbi fa2htgs.c: In function 'Nlm_Main': fa2htgs.c:475:10: warning: 'dsp' may be used uninitialized in this function [-Wmaybe-uninitialized] litp = (SeqLitPtr) dsp->data.ptrvalue; ^ fa2htgs.c:448:16: note: 'dsp' was declared here DeltaSeqPtr dsp; ^ gcc -o fastacmd -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib fastacmd.c -lncbitool -lncbi gcc -o formatdb -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib formatdb.c -lncbitool -lncbiobj -lncbi In file included from ../include/sqnutils.h:51:0, from formatdb.c:421: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -o formatrpsdb -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib formatrpsdb.c -lncbitool \ -lblast -lncbiobj -lncbi In file included from ../include/sqnutils.h:51:0, from formatrpsdb.c:145: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ formatrpsdb.c: In function 'RPSUpdateStatistics': formatrpsdb.c:440:43: warning: 'j' may be used uninitialized in this function [-Wmaybe-uninitialized] if (freq_list != NULL || i < seq_size || j < alphabet_size) ^ formatrpsdb.c: In function 'RPSUpdatePSSM': formatrpsdb.c:522:13: warning: 'j' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 i, j; ^ gcc -o blastall -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib blastall.c -lblastapi \ -lblast -lncbitool -lncbiobj -lncbi blastall.c: In function 'Main_old': blastall.c:1812:26: warning: variable 'nuc_concat' set but not used [-Wunused-but-set-variable] Boolean concat_done, nuc_concat; ^ In file included from ../include/sqnutils.h:51:0, from blastall.c:727: blastall.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ blastall.c: In function 'Main_old': blastall.c:2410:74: warning: 'fake_bsp_arr' may be used uninitialized in this function [-Wmaybe-uninitialized] curr_bsp = (num_queries>0) ? *(fake_bsp_arr + bsp_iter) : query_bsp; ^ blastall.c:2715:40: warning: 'seq_annot_arr' may be used uninitialized in this function [-Wmaybe-uninitialized] *(seq_annot_arr + sap_iter) = seqannot; ^ blastall.c:2742:84: warning: 'sap_array' may be used uninitialized in this function [-Wmaybe-uninitialized] curr_seqalign = (num_queries > 0) ? *(sap_array + sap_iter) : seqalign; ^ blastall.c:2468:5: warning: 'num_bsps' may be used uninitialized in this function [-Wmaybe-uninitialized] for (index=0; indexLambda)); ^ profiles.c:282:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(thisMatrixFile,"%le", &(kbp->K)); ^ profiles.c:283:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(thisMatrixFile,"%le", &(kbp->logK)); ^ profiles.c:284:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(thisMatrixFile,"%le", &(kbp->H)); ^ profiles.c: In function 'readSequence': profiles.c:204:6: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets((CharPtr) descr, MAXLINELEN, sequenceFile); ^ profiles.c:206:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(sequenceFile, "%*[^\n]"); ^ profiles.c:235:6: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets((CharPtr) lineOfQuery, MAXLINELEN, sequenceFile); ^ profiles.c:237:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(sequenceFile, "%*[^\n]"); ^ profiles.c: In function 'findProfileParams': profiles.c:461:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile,"%s",underlyingMatrixName); ^ profiles.c:462:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile,"%d\n", &local_gap_open); ^ profiles.c:463:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile,"%d\n", &local_gap_extend); ^ profiles.c:464:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%le", &Kungapped); ^ profiles.c:465:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%le", &Hungapped); ^ profiles.c:466:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%d", &maxLength); ^ profiles.c:467:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%d", &sequenceDbSize); ^ profiles.c:468:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%lf\n", &scalingFactor); ^ profiles.c:471:6: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%d", &thisLength); ^ profiles.c:472:6: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%le", &Kungapped); ^ profiles.c: In function 'readSequence': profiles.c:192:11: warning: 'query' may be used uninitialized in this function [-Wmaybe-uninitialized] Uint1 * query; /*sequence read in*/ ^ profiles.c: In function 'findMatchingProfiles': profiles.c:1244:22: warning: 'bestScore' may be used uninitialized in this function [-Wmaybe-uninitialized] newSW->score = bestScore; ^ profiles.c:1246:23: warning: 'bestEvalue' may be used uninitialized in this function [-Wmaybe-uninitialized] newSW->eValue = bestEvalue; ^ profiles.c:1108:13: warning: 'prefixLength' may be used uninitialized in this function [-Wmaybe-uninitialized] c1++, c2++) ^ profiles.c: In function 'Nlm_Main': profiles.c:1769:16: warning: 'txmatrix' may be used uninitialized in this function [-Wmaybe-uninitialized] txmatrix = TxMatrixDestruct(txmatrix); ^ profiles.c:1767:11: warning: 'matrix' may be used uninitialized in this function [-Wmaybe-uninitialized] matrix = BLAST_MatrixDestruct(matrix); ^ profiles.c:1775:11: warning: 'search' may be used uninitialized in this function [-Wmaybe-uninitialized] search = BlastSearchBlkDestruct(search); ^ profiles.c:1773:12: warning: 'options' may be used uninitialized in this function [-Wmaybe-uninitialized] options = BLASTOptionDelete(options); ^ profiles.c:1779:25: warning: 'fake_bsp' may be used uninitialized in this function [-Wmaybe-uninitialized] fake_bsp->length = 0; ^ gcc -o megablast -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib megablast.c -lblastapi \ -lblast -lncbitool -lncbiobj -lncbi megablast.c: In function 'BLAST_FillOptions': megablast.c:1908:9: warning: unused variable 'windows' [-Wunused-variable] Int4 windows = 0; ^ In file included from ../include/sqnutils.h:51:0, from megablast.c:661: megablast.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -o vecscreen -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib vecscreen.c -lncbitool \ -lncbiobj -lncbi In file included from ../include/sqnutils.h:51:0, from vecscreen.c:68: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -o gil2bin -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib gil2bin.c -lncbitool -lncbi gcc -o blastclust -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib blastclust.c -lncbitool \ -lncbiobj -lncbi blastclust.c: In function 'Nlm_Main': blastclust.c:1067:8: warning: suggest parentheses around assignment used as truth value [-Wparentheses] if (tmpdir = getenv("TMPDIR")) { ^ blastclust.c:1278:25: warning: variable 'head' set but not used [-Wunused-but-set-variable] SeqAlignPtr PNTR head; /* Will not be used */ ^ blastclust.c:961:11: warning: variable 'align_type' set but not used [-Wunused-but-set-variable] Uint1 align_type; ^ In file included from ../include/sqnutils.h:51:0, from blastclust.c:200: blastclust.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ blastclust.c: In function 'PrintNeighbors': blastclust.c:785:39: warning: 'context' may be used uninitialized in this function [-Wmaybe-uninitialized] kbp = search->sbp->kbp[context]; ^ blastclust.c:776:59: warning: 'query_length' may be used uninitialized in this function [-Wmaybe-uninitialized] length_coverage = MIN(((FloatHi)q_length) / query_length, ^ blastclust.c:668:31: warning: 'hsp_info_array' may be used uninitialized in this function [-Wmaybe-uninitialized] BlastClustHspInfoPtr PNTR hsp_info_array; ^ blastclust.c:809:26: warning: 'hsp' may be used uninitialized in this function [-Wmaybe-uninitialized] esp = hsp->gap_info->esp; ^ gcc -o rpsblast -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib rpsblast.c -lblastapi \ -lblast -lncbitool -lncbiobj -lncbi rpsblast.c: In function 'Nlm_Main': rpsblast.c:567:22: warning: variable 'program_number' set but not used [-Wunused-but-set-variable] EBlastProgramType program_number; ^ In file included from ../include/sqnutils.h:51:0, from ../include/algo/blast/api/twoseq_api.h:41, from ../include/algo/blast/api/blast_format.h:51, from rpsblast.c:330: rpsblast.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -o asn2xml -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib asn2xml.c -lncbiobj -lncbi gcc -o debruijn -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib debruijn.c -lblast -lncbi debruijn.c: In function 'Nlm_Main': debruijn.c:72:12: warning: pointer targets in assignment differ in signedness [-Wpointer-sign] alphabet = myargs[1].strvalue; ^ debruijn.c:80:14: warning: pointer targets in passing argument 1 of 'strlen' differ in signedness [-Wpointer-sign] k = strlen(alphabet); ^ In file included from ../include/ncbilcl.h:156:0, from ../include/ncbi.h:57, from debruijn.c:38: /usr/include/string.h:398:15: note: expected 'const char *' but argument is of type 'Nlm_Uint1 * {aka unsigned char *}' extern size_t strlen (const char *__s) ^ debruijn.c:89:10: warning: pointer targets in assignment differ in signedness [-Wpointer-sign] output = (char *) malloc(outputsize + 1); ^ debruijn.c:106:8: warning: pointer targets in passing argument 1 of 'puts' differ in signedness [-Wpointer-sign] puts(output); ^ In file included from ../include/ncbilcl.h:154:0, from ../include/ncbi.h:57, from debruijn.c:38: /usr/include/stdio.h:695:12: note: expected 'const char *' but argument is of type 'Nlm_Uint1 * {aka unsigned char *}' extern int puts (const char *__s); ^ debruijn.c:109:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ gcc -o asn2idx -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib asn2idx.c -lncbiobj -lncbi gcc -o sortbyquote -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib sortbyquote.c -lncbi gcc -o subfuse -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib subfuse.c -lncbiobj -lncbi gcc -o test_regexp -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib pcretest.c -lpcre gcc -o demo_regexp -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib pcredemo.c -lpcre gcc -o demo_regexp_grep -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib pcregrep.c -lpcre make[2]: Leaving directory '/«PKGBUILDDIR»/build' cd build && rm -f blast blastall blastall_old blastpgp seedtop megablast rpsblast blastclust /usr/bin/make -C build -f makedemo.unx LCL=lnx CC="gcc " LDFLAGS1="-g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='\"Dec 10 2015\"' -DBUILD_TIME='\"06:19:59\"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now" RAN="ranlib" OTHERLIBS="-lm" VIBLIBS="-lXm -lXmu -lXt -lX11 " VIBFLAG="-DWIN_MOTIF" NCBI_LINKINGLIBDIR="../shlib" \ CFLAGS1="-c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='\"Dec 10 2015\"' -DBUILD_TIME='\"06:19:59\"'" VIBLIBS= VIBFLAG= THREAD_OBJ="ncbithr.o" \ THREAD_OTHERLIBS="-lpthread" blast blastall blastall_old blastpgp seedtop megablast rpsblast blastclust make[2]: Entering directory '/«PKGBUILDDIR»/build' ./ln-if-absent ../demo/*.* . ./ln-if-absent ../regexp/test/*.* . ./ln-if-absent ../regexp/demo/*.* . ./ln-if-absent ../internal/*.* . set: No match. makedemo.unx:156: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) chmod -R ug+rw,o+r . gcc -o blast -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib blast_driver.c ncbithr.o -lblastapi \ -lblast -lncbitool -lncbiobj -lncbi -lpthread gcc -o blastall -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib blastall.c ncbithr.o -lblastapi \ -lblast -lncbitool -lncbiobj -lncbi -lpthread blastall.c: In function 'Main_old': blastall.c:1812:26: warning: variable 'nuc_concat' set but not used [-Wunused-but-set-variable] Boolean concat_done, nuc_concat; ^ In file included from ../include/sqnutils.h:51:0, from blastall.c:727: blastall.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ blastall.c: In function 'Main_old': blastall.c:2410:74: warning: 'fake_bsp_arr' may be used uninitialized in this function [-Wmaybe-uninitialized] curr_bsp = (num_queries>0) ? *(fake_bsp_arr + bsp_iter) : query_bsp; ^ blastall.c:2715:40: warning: 'seq_annot_arr' may be used uninitialized in this function [-Wmaybe-uninitialized] *(seq_annot_arr + sap_iter) = seqannot; ^ blastall.c:2742:84: warning: 'sap_array' may be used uninitialized in this function [-Wmaybe-uninitialized] curr_seqalign = (num_queries > 0) ? *(sap_array + sap_iter) : seqalign; ^ blastall.c:2468:5: warning: 'num_bsps' may be used uninitialized in this function [-Wmaybe-uninitialized] for (index=0; index0) ? *(fake_bsp_arr + bsp_iter) : query_bsp; ^ blastall.c:2715:40: warning: 'seq_annot_arr' may be used uninitialized in this function [-Wmaybe-uninitialized] *(seq_annot_arr + sap_iter) = seqannot; ^ blastall.c:2742:84: warning: 'sap_array' may be used uninitialized in this function [-Wmaybe-uninitialized] curr_seqalign = (num_queries > 0) ? *(sap_array + sap_iter) : seqalign; ^ blastall.c:2468:5: warning: 'num_bsps' may be used uninitialized in this function [-Wmaybe-uninitialized] for (index=0; indexsbp->kbp[context]; ^ blastclust.c:776:59: warning: 'query_length' may be used uninitialized in this function [-Wmaybe-uninitialized] length_coverage = MIN(((FloatHi)q_length) / query_length, ^ blastclust.c:668:31: warning: 'hsp_info_array' may be used uninitialized in this function [-Wmaybe-uninitialized] BlastClustHspInfoPtr PNTR hsp_info_array; ^ blastclust.c:809:26: warning: 'hsp' may be used uninitialized in this function [-Wmaybe-uninitialized] esp = hsp->gap_info->esp; ^ make[2]: Leaving directory '/«PKGBUILDDIR»/build' /usr/bin/make -C build -f makenet.unx LCL=lnx CC="gcc " LDFLAGS1="-g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='\"Dec 10 2015\"' -DBUILD_TIME='\"06:19:59\"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now" RAN="ranlib" OTHERLIBS="-lm" VIBLIBS="-lXm -lXmu -lXt -lX11 " VIBFLAG="-DWIN_MOTIF" NCBI_LINKINGLIBDIR="../shlib" \ CFLAGS1="-c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='\"Dec 10 2015\"' -DBUILD_TIME='\"06:19:59\"'" THREAD_OBJ="ncbithr.o" \ THREAD_OTHERLIBS="-lpthread" \ NETENTREZVERSION="2.02c2ASN1SPEC6" BLIB31=libvibnet.a \ OGLLIBS= VIBLIBS= VIB="Psequin sbtedit udv ddv blastcl3 taxblast idfetch bl2seq asn2gb tbl2asn gene2xml entrez2 gbseqget asn2all asn2asn asn2fsa asn2xml asndisc asnmacro asnval cleanasn insdseqget nps2gps spidey trna2sap trna2tbl Cn3D" make[2]: Entering directory '/«PKGBUILDDIR»/build' ./ln-if-absent ../connect/test/*.c . ./ln-if-absent ../network/entrez/client/*.h ../include ./ln-if-absent ../network/entrez/client/*.c . ./ln-if-absent ../network/medarch/client/*.h ../include ./ln-if-absent ../network/medarch/client/*.c . ./ln-if-absent ../network/taxonomy/client/*.h ../include set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../network/taxonomy/client/*.c . set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../network/taxon1/common/*.h ../include ./ln-if-absent ../network/taxon1/common/*.c . ./ln-if-absent ../network/taxon1/taxon2/*.h ../include ./ln-if-absent ../network/taxon1/taxon2/*.c . ./ln-if-absent ../network/id0arch/client/*.h ../include set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../network/id0arch/client/*.c . set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../network/id1arch/*.h ../include ./ln-if-absent ../network/id1arch/*.c . ./ln-if-absent ../network/id2arch/*.h ../include ./ln-if-absent ../network/id2arch/*.c . ./ln-if-absent ../network/spell/client/*.h ../include ./ln-if-absent ../network/spell/client/*.c . ./ln-if-absent ../network/suggest/client/*.h ../include ./ln-if-absent ../network/suggest/client/*.c . ./ln-if-absent ../network/blast3/client/*.h ../include ./ln-if-absent ../network/blast3/client/*.c . ./ln-if-absent ../tools/taxblast.h ../include ./ln-if-absent ../tools/taxblast.c . ./ln-if-absent /*.c . set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/misc/*.c . set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/misc/*.h ../include set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/ssparse/*.c . set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/ssparse/*.h ../include set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/libparsn/*.c . set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/libparsn/*.h ../include set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/smart/smartnet/*.c . set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/smart/smartnet/*.h ../include set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/www/*.c . set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/www/*.h ../include set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/query/*.c . set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../internal/query/*.h ../include set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../network/sybutils/ctlib/*.c . set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../network/sybutils/ctlib/*.h ../include set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../network/sybutils/oslib/*.c . set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../network/sybutils/oslib/*.h ../include set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../network/sybutils/idloadlib/*.c . set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../network/sybutils/idloadlib/*.h ../include set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../network/nsclilib/*.h ../include ./ln-if-absent ../network/nsclilib/*.c . ./ln-if-absent ../network/vibnet/*.c . ./ln-if-absent ../network/vibnet/*.h ../include ./ln-if-absent ../cdromlib/*.h ../include ./ln-if-absent ../network/wwwblast/Src/*.c . ./ln-if-absent ../cdromlib/accentr.c . ./ln-if-absent ../cdromlib/accutils.c . ./ln-if-absent ../sequin/*.* . ./ln-if-absent ../demo/entrez.c . ./ln-if-absent ../demo/seqget.c . ./ln-if-absent ../demo/entrcmd.c . ./ln-if-absent ../demo/batch.c . ./ln-if-absent ../demo/qbatch.c . ./ln-if-absent ../demo/elecpcr.c . ./ln-if-absent ../demo/asn2fast.c . ./ln-if-absent ../demo/asn2asn.c . ./ln-if-absent ../demo/cleanasn.c . ./ln-if-absent ../demo/cspeedtest.c . ./ln-if-absent ../demo/sqn2agp.c . ./ln-if-absent ../demo/sugint.c . ./ln-if-absent ../demo/fetchent.c . ./ln-if-absent ../demo/udvmain.c . ./ln-if-absent ../demo/rtestval.c . ./ln-if-absent ../demo/aceread_tst.c . ./ln-if-absent ../demo/asn2ff.c . ./ln-if-absent ../demo/asn2gb.c . ./ln-if-absent ../demo/asn2fsa.c . ./ln-if-absent ../demo/asn2all.c . ./ln-if-absent ../demo/gene2xml.c . ./ln-if-absent ../demo/asnval.c . ./ln-if-absent ../demo/asndisc.c . ./ln-if-absent ../demo/asnbarval.c . ./ln-if-absent ../demo/aceread_tst.c . ./ln-if-absent ../demo/asnmacro.c . ./ln-if-absent ../demo/asnstrip.c . ./ln-if-absent ../demo/tbl2asn.c . ./ln-if-absent ../demo/raw2delt.c . ./ln-if-absent ../demo/flint.c . ./ln-if-absent ../demo/xlint.c . ./ln-if-absent ../demo/diffshift.c . ./ln-if-absent ../demo/gbseqget.c . ./ln-if-absent ../demo/insdseqget.c . ./ln-if-absent ../demo/nps2gps.c . ./ln-if-absent ../demo/testent2.c . ./ln-if-absent ../demo/trna2sap.c . ./ln-if-absent ../demo/trna2tbl.c . ./ln-if-absent ../demo/entrez2.c . ./ln-if-absent ../demo/condense.c . ./ln-if-absent ../demo/spideymain.c . ./ln-if-absent ../demo/dotmain.c . ./ln-if-absent ../demo/ingenmain.c . ./ln-if-absent ../demo/bl2seq.c . ./ln-if-absent ../demo/blastall.c . ./ln-if-absent ../demo/blast_driver.c . ./ln-if-absent ../demo/src_chk.c . ./ln-if-absent ../demo/tbl_chk.c . ./ln-if-absent ../demo/srchnt.c ../demo/srchaa.c ../demo/mts.c ../demo/sigme.c ../demo/dst.c ../demo/ccp.c ../demo/epi.c ../demo/twop.c ../demo/cnsrt.c ../demo/cnsgn.c ../demo/ccpv.c ../demo/dustv.c ../demo/epiv.c ../demo/sigmev.c ../demo/twopv.c ../demo/cnsrtv.c ../demo/cnsgnv.c ../demo/searchv.c . ./ln-if-absent ../network/entrez/server/*.* . set: No match. makenet.unx:468: recipe for target 'copy' failed make[2]: [copy] Error 1 (ignored) ./ln-if-absent ../network/suggest/server/*.* . chmod -R ug+rw,o+r . echo Waiting...go Waiting...go gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" ni_lib_.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" ni_debug.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" ni_service.c ni_service.c: In function 's_GenericGetService': ni_service.c:199:19: warning: unused variable 'c' [-Wunused-variable] CONNECTOR c; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" ni_error.c rm -f libnetcli.a ar cru libnetcli.a ni_lib_.o ni_debug.o ni_service.o ni_error.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libnetcli.a ../lib ranlib ../lib/libnetcli.a gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" netentr.c netentr.c: In function 's_NetEntTLEvalCount': netentr.c:798:5: warning: "/*" within comment [-Wcomment] /*MsgSetReadTimeout(Entrez_ni, 60);*/ ^ netentr.c: In function 's_NetDocSumListGet': netentr.c:856:18: warning: variable 'amp' set but not used [-Wunused-but-set-variable] AsnModulePtr amp; ^ netentr.c: In function 's_NetTermListByTerm': netentr.c:1212:9: warning: variable 'terms_to_read' set but not used [-Wunused-but-set-variable] int terms_to_read; ^ netentr.c:1200:14: warning: unused variable 'asnout' [-Wunused-variable] AsnIoPtr asnout = Entrez_asnout; ^ netentr.c: In function 's_NetTermListByPage': netentr.c:1343:14: warning: unused variable 'asnout' [-Wunused-variable] AsnIoPtr asnout = Entrez_asnout; ^ netentr.c: In function 'NetEntTLEval': netentr.c:675:12: warning: 'lsp' may be used uninitialized in this function [-Wmaybe-uninitialized] return lsp; ^ netentr.c: In function 'NetEntTLEvalCount': netentr.c:800:8: warning: 'atp' may be used uninitialized in this function [-Wmaybe-uninitialized] if (atp == ENTREZ_BACK_eval_count) ^ netentr.c:782:16: note: 'atp' was declared here AsnTypePtr atp; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" netlib.c netlib.c: In function 'BoolExprAsnWrite': netlib.c:307:16: warning: unused variable 'n' [-Wunused-variable] static int n = 0; ^ netlib.c: At top level: netlib.c:96:16: warning: 'loaded' defined but not used [-Wunused-variable] static Boolean loaded = FALSE; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" objneten.c objneten.c: In function 'EntrezNeighborTextAsnRead': objneten.c:2938:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c: In function 'ChildLinkAsnRead': objneten.c:3148:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c: In function 'EntrezHierarchyAsnRead': objneten.c:3442:15: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c: In function 'EntrezBlastreqAsnRead': objneten.c:3705:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c:3704:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objneten.c: In function 'EntrezExtraInfoAsnRead': objneten.c:3911:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c:3910:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objneten.c: In function 'ClusterArticlesAsnRead': objneten.c:4262:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c:4261:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objneten.c: In function 'ClusterRespAsnRead': objneten.c:4455:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c: In function 'DateConstraintsAsnRead': objneten.c:4622:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c: In function 'DateVectorAsnRead': objneten.c:4785:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c:4784:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objneten.c: In function 'GetByFidAsnRead': objneten.c:4963:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c:4962:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objneten.c: In function 'GetFeatIdsAsnRead': objneten.c:5133:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objneten.c:5132:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ rm -f libnetentr.a ar cru libnetentr.a netentr.o netlib.o objneten.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libnetentr.a ../lib ranlib ../lib/libnetentr.a ./ln-if-absent accentr.c Naccentr.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" -D_NETENT_ Naccentr.c Naccentr.c:357:93: warning: missing braces around initializer [-Wmissing-braces] Uint1 AdaptiveDocSumMatrix[MAX_CHUNK_IN_ADAPTIVE_MATRIX+1][MAX_SECS_IN_ADAPTIVE_MATRIX+1] = { ^ Naccentr.c:357:93: note: (near initialization for 'AdaptiveDocSumMatrix') Naccentr.c: In function 'EntrezDocSumListGet': Naccentr.c:1409:14: warning: variable 'actual' set but not used [-Wunused-but-set-variable] Int2 actual; ^ rm -f libncbiNacc.a ar cru libncbiNacc.a Naccentr.o accutils.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libncbiNacc.a ../lib ranlib ../lib/libncbiNacc.a ./ln-if-absent accentr.c Caccentr.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" -D_NET_AND_CD_ Caccentr.c Caccentr.c:357:93: warning: missing braces around initializer [-Wmissing-braces] Uint1 AdaptiveDocSumMatrix[MAX_CHUNK_IN_ADAPTIVE_MATRIX+1][MAX_SECS_IN_ADAPTIVE_MATRIX+1] = { ^ Caccentr.c:357:93: note: (near initialization for 'AdaptiveDocSumMatrix') Caccentr.c: In function 'EntrezDocSumListGet': Caccentr.c:1409:14: warning: variable 'actual' set but not used [-Wunused-but-set-variable] Int2 actual; ^ rm -f libncbiCacc.a ar cru libncbiCacc.a Caccentr.o accutils.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libncbiCacc.a ../lib ranlib ../lib/libncbiCacc.a gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" netcnfg.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" trmlst.c trmlst.c: In function 'FetchFromTermList': trmlst.c:1048:16: warning: variable 'numRead' set but not used [-Wunused-but-set-variable] Int2 numRead; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" docsum.c docsum.c: In function 'ImportDocSumForm': docsum.c:2298:21: warning: unused variable 'sephead' [-Wunused-variable] SeqEntryPtr sephead = NULL; ^ docsum.c:2296:21: warning: unused variable 'is_na' [-Wunused-variable] Boolean is_na = TRUE; ^ docsum.c:2290:21: warning: unused variable 'choice' [-Wunused-variable] Uint1 choice = 0; ^ docsum.c: In function 'SaveDocsumProject': docsum.c:3042:16: warning: variable 'sfp' set but not used [-Wunused-but-set-variable] SummFormPtr sfp; ^ docsum.c: At top level: docsum.c:439:15: warning: 'checkmark' defined but not used [-Wunused-variable] static Uint1 checkmark [] = { ^ docsum.c: In function 'LaunchStructureViewer': docsum.c:4192:3: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ docsum.c: In function 'FetchLocalBioseq': docsum.c:1223:6: warning: 'str' may be used uninitialized in this function [-Wmaybe-uninitialized] if (str == NULL) return failed; ^ rm -f libvibnet.a ar cru libvibnet.a netcnfg.o trmlst.o docsum.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libvibnet.a ../lib ranlib ../lib/libvibnet.a gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" objtax1.c objtax1.c: In function 'Taxon1ReqFree': objtax1.c:49:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objtax1.c: In function 'Taxon1ReqAsnRead': objtax1.c:96:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objtax1.c: In function 'Taxon1InfoAsnRead': objtax1.c:467:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax1.c:466:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objtax1.c: In function 'Taxon1ErrorAsnRead': objtax1.c:1067:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax1.c:1066:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objtax1.c: In function 'Taxon1NameAsnRead': objtax1.c:1232:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax1.c:1231:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objtax1.c: In function 'Taxon1DataAsnRead': objtax1.c:1418:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax1.c:1417:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objtax1.c: In function 'Taxon2DataAsnRead': objtax1.c:1606:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objtax1.c: In function 'Taxon1ReqAsnRead': objtax1.c:265:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objtax1.c: In function 'Taxon1RespAsnRead': objtax1.c:868:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" taxutil.c taxutil.c: In function 'taxname_match': taxutil.c:66:24: warning: unused variable 'taxstr' [-Wunused-variable] CharPtr taxstr = NULL; ^ taxutil.c: In function 'get_lineage': taxutil.c:140:28: warning: 'onp' may be used uninitialized in this function [-Wmaybe-uninitialized] return Nlm_StringSave(onp->lineage); ^ taxutil.c: In function 'get_gcode': taxutil.c:160:23: warning: 'onp' may be used uninitialized in this function [-Wmaybe-uninitialized] gclp->genomic = onp->gcode; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" -c -o tc2dproc.o -DTAXSERVICE tc2proc.c tc2proc.c: In function 'getIdByOrgRef': tc2proc.c:407:17: warning: unused variable 'om_flag' [-Wunused-variable] Boolean om_flag= FALSE; ^ tc2proc.c: In function 'bldLineage': tc2proc.c:1095:10: warning: unused variable 'rank' [-Wunused-variable] Int2 rank= 0; ^ tc2proc.c: In function 'storedTaxId': tc2proc.c:2114:17: warning: unused variable 'object_id' [-Wunused-variable] ObjectIdPtr object_id; ^ tc2proc.c: In function 'tax1e_needUpdate': tc2proc.c:2181:13: warning: unused variable 'hit_name' [-Wunused-variable] CharPtr hit_name; ^ tc2proc.c:2180:13: warning: unused variable 'need_search_name' [-Wunused-variable] Boolean need_search_name= TRUE; ^ tc2proc.c:2179:9: warning: unused variable 'is_species' [-Wunused-variable] int is_species; ^ tc2proc.c:2176:19: warning: unused variable 'res' [-Wunused-variable] Taxon1DataPtr res; ^ tc2proc.c: At top level: tc2proc.c:403:13: warning: 'getIdByOrgRef' defined but not used [-Wunused-function] static Int4 getIdByOrgRef(CharPtr sname, OrgNamePtr orNm) ^ tc2proc.c: In function 'mergeOrgMod': tc2proc.c:1611:22: warning: 'lst' may be used uninitialized in this function [-Wmaybe-uninitialized] lst->next= dst= OrgModNew(); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" -c -o txcdproc.o -DTAXSERVICE txcdproc.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" parttree.c parttree.c: In function 'tax_ptree_addSubtree': parttree.c:392:13: warning: unused variable 'need_remove' [-Wunused-variable] Boolean need_remove= FALSE; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" taxcs.c gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" taxblast.c taxblast.c: In function 'TXBHtmlReportInternal': taxblast.c:1294:37: warning: variable 'linlines' set but not used [-Wunused-but-set-variable] Int2 numtaxa, numorgs, numhits, linlines, longname; ^ taxblast.c: At top level: taxblast.c:1902:13: warning: 'getTotalTaxIdCount' defined but not used [-Wunused-function] static Int4 getTotalTaxIdCount(TreeCursorPtr cursor) ^ taxblast.c: In function 'RDTaxLookupReset': taxblast.c:1985:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ taxblast.c: In function 'TXBGetTargetGi.isra.2': taxblast.c:501:12: warning: 'gi' may be used uninitialized in this function [-Wmaybe-uninitialized] return gi; ^ rm -f libncbitxc2.a ar cru libncbitxc2.a objtax1.o taxutil.o tc2dproc.o txcdproc.o parttree.o taxcs.o taxblast.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libncbitxc2.a ../lib ranlib ../lib/libncbitxc2.a gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" id1gen.c id1gen.c: In function 'ID1serverRequestFree': id1gen.c:49:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ id1gen.c: In function 'ID1serverRequestAsnRead': id1gen.c:90:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ id1gen.c: In function 'ID1serverMaxcomplexAsnRead': id1gen.c:348:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ id1gen.c:347:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ id1gen.c: In function 'ID1SeqHistAsnRead': id1gen.c:530:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ id1gen.c:529:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ id1gen.c: In function 'ID1SeqEntryInfoAsnRead': id1gen.c:979:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ id1gen.c:978:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ id1gen.c: In function 'ID1blobInfoAsnRead': id1gen.c:1147:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ id1gen.c:1146:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ id1gen.c: In function 'ID1serverDebugAsnRead': id1gen.c:1368:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ id1gen.c: In function 'ID1serverBackAsnRead': id1gen.c:811:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ id1gen.c: In function 'ID1serverRequestAsnRead': id1gen.c:186:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" id1arch.c id1arch.c: In function 'ID1ArchSeqEntryGet': id1arch.c:173:7: warning: unused variable 'retval' [-Wunused-variable] Int4 retval = 0; ^ id1arch.c: In function 'ID1ArchGIGet': id1arch.c:486:10: warning: unused variable 'retval' [-Wunused-variable] Int4 retval = 0; ^ id1arch.c: In function 'SeqHistPrintTable': id1arch.c:553:59: warning: '0' flag ignored with precision and '%d' gnu_printf format [-Wformat=] sprintf(repl_date,"%0.2d/%0.2d/%0.4d", ^ id1arch.c:553:59: warning: '0' flag ignored with precision and '%d' gnu_printf format [-Wformat=] id1arch.c:553:59: warning: '0' flag ignored with precision and '%d' gnu_printf format [-Wformat=] id1arch.c:563:36: warning: spurious trailing '%' in format [-Wformat=] fprintf(fp,"%-20d%-20s%",old_gi,repl_date); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" accid1.c accid1.c: In function 's_ID1BioseqFetchFunc': accid1.c:262:9: warning: unused variable 'retcode' [-Wunused-variable] Int2 retcode=0; ^ rm -f libncbiid1.a ar cru libncbiid1.a id1gen.o id1arch.o accid1.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libncbiid1.a ../lib ranlib ../lib/libncbiid1.a gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" objblst3.c objblst3.c: In function 'BlastSearchAsnRead': objblst3.c:91:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:90:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'BlastRequestFree': objblst3.c:287:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objblst3.c: In function 'BlastRequestAsnRead': objblst3.c:337:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'Cutoff2_cutoff2Free': objblst3.c:999:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objblst3.c: In function 'BlastParametersAsnRead': objblst3.c:1027:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c: In function 'Cutoff2_cutoff2AsnRead': objblst3.c:1422:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'Cutoff_cutoffAsnRead': objblst3.c:1788:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'Cutoff_cutoffFree': objblst3.c:1871:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objblst3.c: In function 'BlastMatrixAsnRead': objblst3.c:1936:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c: In function 'BlastDbinfoAsnRead': objblst3.c:2153:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:2152:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'BlastMaskAsnRead': objblst3.c:2357:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c: In function 'BlastKABlkAsnRead': objblst3.c:2517:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:2516:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'BlastErrorAsnRead': objblst3.c:2697:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:2696:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'BlastPhialignAsnRead': objblst3.c:2861:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c: In function 'BlastDbinfoGetAsnRead': objblst3.c:3022:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:3021:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'BlastSeqIdAsnRead': objblst3.c:3187:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:3186:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'BlastSequenceAsnRead': objblst3.c:3364:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:3363:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'BlastPartsAsnRead': objblst3.c:3532:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c: In function 'BlastQueuedAsnRead': objblst3.c:3694:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:3693:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'BlastProgressAsnRead': objblst3.c:3846:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:3845:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'BlastDeflineAsnRead': objblst3.c:4000:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:3999:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'BlastVersionAsnRead': objblst3.c:4168:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:4167:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'MegaBlastHitAsnRead': objblst3.c:4335:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c:4334:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objblst3.c: In function 'MegaBlastResultsAsnRead': objblst3.c:4546:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objblst3.c: In function 'BlastRequestAsnRead': objblst3.c:430:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objblst3.c: In function 'BlastResponseAsnRead': objblst3.c:791:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objblst3.c: In function 'BlastParametersAsnRead': objblst3.c:1474:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objblst3.c:1421:10: note: 'choice' was declared here Uint1 choice; ^ objblst3.c:1840:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objblst3.c:1787:10: note: 'choice' was declared here Uint1 choice; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" netblap3.c netblap3.c: In function 'BlastNetBioseqFetchFunc': netblap3.c:1835:16: warning: variable 'omdp' set but not used [-Wunused-but-set-variable] OMUserDataPtr omdp; ^ netblap3.c: In function 'MegaBlastSeqLocNetCore': netblap3.c:2049:8: warning: variable 'entityID' set but not used [-Wunused-but-set-variable] Uint2 entityID = 0; ^ In file included from ../include/netblap3.h:134:0, from netblap3.c:364: netblap3.c: At top level: ../include/blstspc.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "blstspc.h23"; ^ ../include/blstspc.h:227:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^ ../include/blstspc.h:228:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/blstspc.h:229:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ In file included from ../include/netblap3.h:135:0, from netblap3.c:364: ../include/objblst3.h:180:35: warning: 'Cutoff2_cutoff2Free' declared 'static' but never defined [-Wunused-function] static Cutoff2_cutoff2Ptr LIBCALL Cutoff2_cutoff2Free PROTO ((Cutoff2_cutoff2Ptr )); ^ ../include/objblst3.h:181:35: warning: 'Cutoff2_cutoff2AsnRead' declared 'static' but never defined [-Wunused-function] static Cutoff2_cutoff2Ptr LIBCALL Cutoff2_cutoff2AsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:182:24: warning: 'Cutoff2_cutoff2AsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Cutoff2_cutoff2AsnWrite PROTO (( Cutoff2_cutoff2Ptr , AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:199:33: warning: 'Cutoff_cutoffFree' declared 'static' but never defined [-Wunused-function] static Cutoff_cutoffPtr LIBCALL Cutoff_cutoffFree PROTO ((Cutoff_cutoffPtr )); ^ ../include/objblst3.h:200:33: warning: 'Cutoff_cutoffAsnRead' declared 'static' but never defined [-Wunused-function] static Cutoff_cutoffPtr LIBCALL Cutoff_cutoffAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:201:24: warning: 'Cutoff_cutoffAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Cutoff_cutoffAsnWrite PROTO (( Cutoff_cutoffPtr , AsnIoPtr, AsnTypePtr)); ^ netblap3.c:430:1: warning: 'BlastSetErrorHook' defined but not used [-Wunused-function] BlastSetErrorHook(void) ^ netblap3.c:438:1: warning: 'BlastSetErrorStatus' defined but not used [-Wunused-function] BlastSetErrorStatus(Boolean status) ^ netblap3.c:445:1: warning: 'BlastGetErrorStatus' defined but not used [-Wunused-function] BlastGetErrorStatus(void) ^ netblap3.c:452:1: warning: 'BlastResetOldHook' defined but not used [-Wunused-function] BlastResetOldHook(void) ^ netblap3.c: In function 'BlastNetMatrixToBlastMatrix': netblap3.c:1212:35: warning: 'index2' may be used uninitialized in this function [-Wmaybe-uninitialized] if (index1 != blast_matrix->rows || index2 != blast_matrix->columns) ^ netblap3.c: In function 'TraditionalBlastReportEngine': netblap3.c:2570:11: warning: 'next_seqalign' may be used uninitialized in this function [-Wmaybe-uninitialized] while (seqalign) { ^ rm -f libnetblast.a ar cru libnetblast.a objblst3.o netblap3.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libnetblast.a ../lib ranlib ../lib/libnetblast.a gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" -DNLM_OBJ_INCL=\"mapmla.h\" objmla.c objmla.c: In function 'MlaRequestFree': objmla.c:49:12: warning: variable 'pnt' set but not used [-Wunused-but-set-variable] Pointer pnt; ^ objmla.c: In function 'MlaRequestAsnRead': objmla.c:96:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmla.c: In function 'TitleMsgAsnRead': objmla.c:447:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmla.c:446:12: warning: unused variable 'isError' [-Wunused-variable] Boolean isError = FALSE; ^ objmla.c: In function 'TitleMsgListAsnRead': objmla.c:612:16: warning: variable 'func' set but not used [-Wunused-but-set-variable] AsnReadFunc func; ^ objmla.c: In function 'MlaRequestAsnRead': objmla.c:249:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ objmla.c: In function 'MlaBackAsnRead': objmla.c:902:16: warning: 'choice' may be used uninitialized in this function [-Wmaybe-uninitialized] anp->choice = choice; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" medarch.c medarch.c:710:8: warning: 's_MedArchPubSetEntryGetPmId' defined but not used [-Wunused-function] /*FCN*/s_MedArchPubSetEntryGetPmId ( ^ medarch.c:758:8: warning: 's_MedArchPubSetEntryGetUid' defined but not used [-Wunused-function] /*FCN*/s_MedArchPubSetEntryGetUid ( ^ medarch.c: In function 'MedArchPubSetCreate': medarch.c:1693:9: warning: 'pubSetEAtp' may be used uninitialized in this function [-Wmaybe-uninitialized] MedlineEntryAsnWrite (lastmep, aip, pubSetEAtp); ^ In file included from ../include/ni_types.h:85:0, from ../include/ncbinet.h:84, from medarch.c:122: ../include/asn.h:465:27: warning: 'pubSetAtp' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AsnEndStruct(x,y) AsnCloseStruct(x, y, NULL) ^ medarch.c:1625:16: note: 'pubSetAtp' was declared here AsnTypePtr pubSetAtp; ^ medarch.c:1655:5: warning: 'startAtp' may be used uninitialized in this function [-Wmaybe-uninitialized] AsnWrite (aip, startAtp, NULL); ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" medutil.c rm -f libncbimla.a ar cru libncbimla.a objmla.o medarch.o medutil.o ar: `u' modifier ignored since `D' is the default (see `U') cp -p libncbimla.a ../lib ranlib ../lib/libncbimla.a gcc -o Psequin -I. -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF -UINTERNAL_NCBI_SEQUIN sequin1.c sequin2.c sequin3.c sequin4.c sequin5.c sequin6.c sequin7.c sequin8.c sequin9.c sequin10.c sequinx.c \ -lvibnet -lncbidesk -lblastapi -lnetblast -lncbitool -lncbimla \ -lvibrant -lncbiobj -lncbi sequin1.c: In function 'SQACT_GuessWhatIAm': sequin1.c:4930:76: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if ((Int4)(*cp) < 0 || (Int4)(*cp) >= 256 || ! isprint ((Int4)(*cp)) && ! isspace ((Int4)(*cp))) ^ sequin1.c: In function 'FinishAlignmentRead': sequin1.c:5242:16: warning: variable 'rsult' set but not used [-Wunused-but-set-variable] Boolean rsult; ^ sequin1.c: In function 'DeleteSelectedFeatureOrDescriptor': sequin1.c:8907:19: warning: variable 'itemtype' set but not used [-Wunused-but-set-variable] Uint2 itemtype; ^ sequin1.c:8906:19: warning: variable 'itemID' set but not used [-Wunused-but-set-variable] Uint4 itemID; ^ sequin1.c:8904:19: warning: variable 'entityID' set but not used [-Wunused-but-set-variable] Uint2 entityID; ^ sequin1.c: In function 'WizardTrackerFree': sequin1.c:15645:20: warning: variable 'sep_next' set but not used [-Wunused-but-set-variable] SeqEntryPtr sep, sep_next; ^ sequin1.c: In function 'AddCodingRegionFromWizard': sequin1.c:15714:33: warning: variable 'nsep' set but not used [-Wunused-but-set-variable] SeqEntryPtr old, psep, nsep; ^ sequin1.c: In function 'SetWizardTrackerBaseSrcQuals': sequin1.c:15993:7: warning: enumeration value 'eVirusClass_Unknown' not handled in switch [-Wswitch] switch (wiz->virus_class) { ^ sequin1.c:16040:7: warning: enumeration value 'eCulturedKingdom_Unknown' not handled in switch [-Wswitch] switch (wiz->cultured_kingdom) { ^ sequin1.c: In function 'SetWizardTrackerExtraSrcQuals': sequin1.c:16139:7: warning: enumeration value 'eVirusClass_Unknown' not handled in switch [-Wswitch] switch (wiz->virus_class) { ^ sequin1.c:16164:7: warning: enumeration value 'eCulturedKingdom_Unknown' not handled in switch [-Wswitch] switch (wiz->cultured_kingdom) { ^ sequin1.c: In function 'AddWizardFeatureCallback': sequin1.c:16491:3: warning: enumeration value 'eVirusFeat_None' not handled in switch [-Wswitch] switch (wiz->virus_feat) { ^ sequin1.c:16491:3: warning: enumeration value 'eVirusFeat_CDS' not handled in switch [-Wswitch] sequin1.c: In function 'HaveUniqueCombinationOfQuals': sequin1.c:17144:15: warning: variable 'num_quals' set but not used [-Wunused-but-set-variable] Int4 num_quals; ^ sequin1.c: In function 'VirusQualsOk': sequin1.c:20712:5: warning: enumeration value 'eVirusClass_Unknown' not handled in switch [-Wswitch] switch (wiz->virus_class) { ^ sequin1.c: In function 'CulturedSamplesOk': sequin1.c:20817:5: warning: enumeration value 'eCulturedKingdom_Unknown' not handled in switch [-Wswitch] switch (wiz->cultured_kingdom) { ^ sequin1.c: In function 'CheckFeatureQualsUniqueness': sequin1.c:22418:8: warning: variable 'num_rows' set but not used [-Wunused-but-set-variable] Int4 num_rows, row_num; ^ sequin1.c: In function 'WizardFeatureQualsOk': sequin1.c:22509:11: warning: variable 'num_features' set but not used [-Wunused-but-set-variable] Int4 num_features; ^ sequin1.c: In function 'TabTableToMultiModTabTable': sequin1.c:22877:16: warning: unused variable 'bsp' [-Wunused-variable] BioseqPtr bsp = NULL; ^ sequin1.c: In function 'MultiModTableToTabTable': sequin1.c:22956:21: warning: variable 'fq' set but not used [-Wunused-but-set-variable] WizardFeatQualPtr fq; ^ sequin1.c: In function 'ShowAllFeatureQualSequences': sequin1.c:23513:15: warning: variable 'show_all' set but not used [-Wunused-but-set-variable] Boolean show_all = TRUE; ^ sequin1.c: In function 'TabTableLineFromFeature': sequin1.c:24459:14: warning: unused variable 'vals' [-Wunused-variable] ValNodePtr vals = NULL, q_vnp; ^ sequin1.c: In function 'PregenerateFeatures': sequin1.c:24509:22: warning: unused variable 'problems' [-Wunused-variable] CharPtr PNTR problems = NULL; ^ sequin1.c: In function 'CollectWizardSetType': sequin1.c:25700:3: warning: enumeration value 'eWizardType_TSA' not handled in switch [-Wswitch] switch (wiz->wizard_type) { ^ sequin1.c:25700:3: warning: enumeration value 'eWizardType_Microsatellite' not handled in switch [-Wswitch] sequin1.c: In function 'SequencingMethodToDialog': sequin1.c:26182:27: warning: variable 'info' set but not used [-Wunused-but-set-variable] SequencingMethodInfoPtr info; ^ sequin1.c: In function 'CollectWizardSourceType': sequin1.c:26625:5: warning: enumeration value 'eWizardType_TSA' not handled in switch [-Wswitch] switch (wiz->wizard_type) { ^ sequin1.c:26625:5: warning: enumeration value 'eWizardType_Microsatellite' not handled in switch [-Wswitch] sequin1.c:26625:5: warning: enumeration value 'eWizardType_DLoop' not handled in switch [-Wswitch] sequin1.c: In function 'HaveWizardSourceType': sequin1.c:26658:3: warning: enumeration value 'eWizardType_UnculturedSamples' not handled in switch [-Wswitch] switch (wiz->wizard_type) { ^ sequin1.c:26658:3: warning: enumeration value 'eWizardType_TSA' not handled in switch [-Wswitch] sequin1.c:26658:3: warning: enumeration value 'eWizardType_Microsatellite' not handled in switch [-Wswitch] sequin1.c:26658:3: warning: enumeration value 'eWizardType_DLoop' not handled in switch [-Wswitch] sequin1.c: In function 'WizardSourceTypeForm': sequin1.c:26720:3: warning: enumeration value 'eWizardType_UnculturedSamples' not handled in switch [-Wswitch] switch (wiz->wizard_type) { ^ sequin1.c:26720:3: warning: enumeration value 'eWizardType_TSA' not handled in switch [-Wswitch] sequin1.c:26720:3: warning: enumeration value 'eWizardType_Microsatellite' not handled in switch [-Wswitch] sequin1.c:26720:3: warning: enumeration value 'eWizardType_DLoop' not handled in switch [-Wswitch] sequin1.c: In function 'PopulateAAPopup': sequin1.c:27748:20: warning: variable 'first' set but not used [-Wunused-but-set-variable] Uint1 first; ^ sequin1.c: In function 'CountAmbiProc': sequin1.c:29129:11: warning: unused variable 'normal' [-Wunused-variable] Int4 normal = 0; ^ sequin1.c: In function 'SetFastaText': sequin1.c:29949:15: warning: unused variable 'intro' [-Wunused-variable] CharPtr intro = NULL; ^ sequin1.c: In function 'WizardFASTAFwd': sequin1.c:30290:3: warning: enumeration value 'eWizardType_UnculturedSamples' not handled in switch [-Wswitch] switch (frm->wiz->wizard_type) { ^ sequin1.c:30290:3: warning: enumeration value 'eWizardType_Viruses' not handled in switch [-Wswitch] sequin1.c:30290:3: warning: enumeration value 'eWizardType_CulturedSamples' not handled in switch [-Wswitch] sequin1.c:30290:3: warning: enumeration value 'eWizardType_IGS' not handled in switch [-Wswitch] sequin1.c:30290:3: warning: enumeration value 'eWizardType_Microsatellite' not handled in switch [-Wswitch] In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/accutils.h:119, from sequin1.c:81: sequin1.c: At top level: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/accutils.h:119, from sequin1.c:81: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/accutils.h:119, from sequin1.c:81: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from ../include/accutils.h:119, from sequin1.c:81: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from ../include/actutils.h:105, from sequin1.c:87: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/netblap3.h:134:0, from ../include/ingenwin.h:62, from sequin1.c:92: ../include/blstspc.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "blstspc.h23"; ^ ../include/blstspc.h:227:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^ ../include/blstspc.h:228:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/blstspc.h:229:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ In file included from ../include/netblap3.h:135:0, from ../include/ingenwin.h:62, from sequin1.c:92: ../include/objblst3.h:180:35: warning: 'Cutoff2_cutoff2Free' declared 'static' but never defined [-Wunused-function] static Cutoff2_cutoff2Ptr LIBCALL Cutoff2_cutoff2Free PROTO ((Cutoff2_cutoff2Ptr )); ^ ../include/objblst3.h:181:35: warning: 'Cutoff2_cutoff2AsnRead' declared 'static' but never defined [-Wunused-function] static Cutoff2_cutoff2Ptr LIBCALL Cutoff2_cutoff2AsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:182:24: warning: 'Cutoff2_cutoff2AsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Cutoff2_cutoff2AsnWrite PROTO (( Cutoff2_cutoff2Ptr , AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:199:33: warning: 'Cutoff_cutoffFree' declared 'static' but never defined [-Wunused-function] static Cutoff_cutoffPtr LIBCALL Cutoff_cutoffFree PROTO ((Cutoff_cutoffPtr )); ^ ../include/objblst3.h:200:33: warning: 'Cutoff_cutoffAsnRead' declared 'static' but never defined [-Wunused-function] static Cutoff_cutoffPtr LIBCALL Cutoff_cutoffAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:201:24: warning: 'Cutoff_cutoffAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Cutoff_cutoffAsnWrite PROTO (( Cutoff_cutoffPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/tax3api.h:51:0, from sequin1.c:95: ../include/objtax3.h:183:31: warning: 'Value_valueFree' declared 'static' but never defined [-Wunused-function] static Value_valuePtr LIBCALL Value_valueFree PROTO ((Value_valuePtr )); ^ ../include/objtax3.h:184:31: warning: 'Value_valueAsnRead' declared 'static' but never defined [-Wunused-function] static Value_valuePtr LIBCALL Value_valueAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objtax3.h:185:24: warning: 'Value_valueAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Value_valueAsnWrite PROTO (( Value_valuePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from sequin1.c:119:0: ../include/objmime.h:145:29: warning: 'Data_dataFree' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataFree PROTO ((Data_dataPtr )); ^ ../include/objmime.h:146:29: warning: 'Data_dataAsnRead' declared 'static' but never defined [-Wunused-function] static Data_dataPtr LIBCALL Data_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:147:24: warning: 'Data_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Data_dataAsnWrite PROTO (( Data_dataPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:285:47: warning: 'SeqAlignData_seq_align_dataFree' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataFree PROTO ((SeqAlignData_seq_align_dataPtr )); ^ ../include/objmime.h:286:47: warning: 'SeqAlignData_seq_align_dataAsnRead' declared 'static' but never defined [-Wunused-function] static SeqAlignData_seq_align_dataPtr LIBCALL SeqAlignData_seq_align_dataAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmime.h:287:24: warning: 'SeqAlignData_seq_align_dataAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL SeqAlignData_seq_align_dataAsnWrite PROTO (( SeqAlignData_seq_align_dataPtr , AsnIoPtr, AsnTypePtr)); ^ sequin1.c:384:13: warning: 'SetSequinAppParamTF' defined but not used [-Wunused-function] static void SetSequinAppParamTF (CharPtr section, CharPtr type, Boolean value) ^ sequin1.c:633:13: warning: 'ReplaceString' defined but not used [-Wunused-function] static void ReplaceString (CharPtr PNTR target, CharPtr newstr) ^ sequin1.c:2291:13: warning: 'StyleManagerProc' defined but not used [-Wunused-function] static void StyleManagerProc (IteM i) ^ sequin1.c:7087:16: warning: 'LookupJournalFuncNew' defined but not used [-Wunused-function] static Boolean LookupJournalFuncNew (CharPtr title, size_t maxsize, Int1Ptr jtaType, ValNodePtr PNTR all_titlesP) ^ sequin1.c:7671:13: warning: 'FindAlu' defined but not used [-Wunused-function] static void FindAlu (IteM i) ^ sequin1.c:7897:13: warning: 'DefaultMessageProc' defined but not used [-Wunused-function] static void DefaultMessageProc (ForM f, Int2 mssg) ^ sequin1.c:7910:13: warning: 'PreferencesProc' defined but not used [-Wunused-function] static void PreferencesProc (IteM i) ^ sequin1.c:9054:13: warning: 'TermSelectionFormMessage' defined but not used [-Wunused-function] static void TermSelectionFormMessage (ForM f, Int2 mssg) ^ sequin1.c:9074:13: warning: 'DocumentSummaryFormMessage' defined but not used [-Wunused-function] static void DocumentSummaryFormMessage (ForM f, Int2 mssg) ^ sequin1.c:10827:13: warning: 'ObjMgrReport' defined but not used [-Wunused-function] static void ObjMgrReport (IteM i) ^ sequin1.c:17190:16: warning: 'DoAllSequencesHaveAnExtraQual' defined but not used [-Wunused-function] static Boolean DoAllSequencesHaveAnExtraQual (SeqEntryPtr sep, ValNodePtr extra_src_quals) ^ sequin1.c:17260:13: warning: 'SeqEntryToModTabTable' defined but not used [-Wunused-function] static void SeqEntryToModTabTable (SeqEntryPtr sep, DialoG d, CharPtr mod_name) ^ sequin1.c:17295:13: warning: 'ModTableToSeqEntryList' defined but not used [-Wunused-function] static void ModTableToSeqEntryList (SeqEntryPtr sep, DialoG d, CharPtr mod_name) ^ sequin1.c:17327:13: warning: 'ClearModifierValues' defined but not used [-Wunused-function] static void ClearModifierValues (SeqEntryPtr sep, DialoG d, CharPtr mod_name) ^ sequin1.c:18855:16: warning: 'RNAAnnotationWindow' defined but not used [-Wunused-function] static Boolean RNAAnnotationWindow(WizardTrackerPtr wiz) ^ sequin1.c:26805:16: warning: 'WizardCommentForm' defined but not used [-Wunused-function] static Boolean WizardCommentForm (WizardTrackerPtr wiz) ^ sequin1.c:18087:16: warning: 'JumpToMainSubmission' defined but not used [-Wunused-function] static Boolean JumpToMainSubmission (WizardTrackerPtr wiz) ^ sequin1.c:18188:13: warning: 'GroupChoiceFromName' defined but not used [-Wunused-function] static Int2 GroupChoiceFromName (CharPtr rna_name, CharPtr PNTR standard_names) ^ sequin1.c:18662:16: warning: 'MultOrganelleFeat' defined but not used [-Wunused-function] static Boolean MultOrganelleFeat (WizardTrackerPtr wiz) ^ sequin1.c:23481:16: warning: 'EqualIgnoreWhiteSpacePunctAndCaps' defined but not used [-Wunused-function] static Boolean EqualIgnoreWhiteSpacePunctAndCaps (CharPtr a, CharPtr b) ^ sequin1.c:24583:16: warning: 'GetLocStart' defined but not used [-Wunused-function] static CharPtr GetLocStart (SeqFeatPtr sfp) ^ sequin1.c:24596:16: warning: 'GetLocStop' defined but not used [-Wunused-function] static CharPtr GetLocStop (SeqFeatPtr sfp) ^ sequin1.c:24609:13: warning: 'ApplyLocStart' defined but not used [-Wunused-function] static void ApplyLocStart (SeqFeatPtr sfp, CharPtr val) ^ sequin1.c:24625:13: warning: 'ApplyLocStop' defined but not used [-Wunused-function] static void ApplyLocStop (SeqFeatPtr sfp, CharPtr val) ^ sequin1.c:24732:16: warning: 'IsAllATGC' defined but not used [-Wunused-function] static Boolean IsAllATGC (CharPtr val) ^ sequin1.c:25269:13: warning: 'SaveVirusFeatureTableChoice' defined but not used [-Wunused-function] static void SaveVirusFeatureTableChoice (Pointer data, WizardTrackerPtr wiz) ^ sequin1.c:25867:16: warning: 'WizardStructuredCommentForm' defined but not used [-Wunused-function] static Boolean WizardStructuredCommentForm ^ sequin1.c: In function 'LaunchedGoogleEarth': sequin1.c:1525:11: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ sequin1.c: In function 'Entrez2QueryProc': sequin1.c:9728:3: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system ("entrez2 &"); ^ sequin1.c: In function 'SubtoolDoneFuncEx': sequin1.c:2021:35: warning: 'bfp' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqMgrClearFeatureIndexes (bfp->input_entityID, NULL); ^ In file included from ../include/vibrant.h:133:0, from ../include/dlogutil.h:48, from sequin.h:85, from sequin1.c:56: sequin1.c: In function 'BioseqViewFormMenus': ../include/vibforms.h:522:25: warning: 'mssgupd_idx' may be used uninitialized in this function [-Wmaybe-uninitialized] #define SetFormMenuItem Nlm_SetFormMenuItem ^ sequin1.c:8349:27: note: 'mssgupd_idx' was declared here Int2 mssgupd, mssgupd_idx; ^ sequin2.c: In function 'ValidateModifierTableSequenceIDs': sequin2.c:2845:16: warning: variable 'deleted_rows' set but not used [-Wunused-but-set-variable] Int4 deleted_rows; ^ sequin2.c: In function 'ImportFastaDialog': sequin2.c:4568:17: warning: variable 'sep' set but not used [-Wunused-but-set-variable] SeqEntryPtr sep, new_sep_list, new_sep, test_sep; ^ sequin2.c: In function 'ExportOneRawSequence': sequin2.c:4830:15: warning: variable 'buffer' set but not used [-Wunused-but-set-variable] Char buffer [EXPORT_PAGE_WIDTH + 1]; ^ sequin2.c: In function 'ExportOneDeltaBioseq': sequin2.c:4929:15: warning: variable 'buffer' set but not used [-Wunused-but-set-variable] Char buffer [EXPORT_PAGE_WIDTH + 1]; ^ sequin2.c: In function 'FindBioseqWithValue': sequin2.c:7883:17: warning: variable 'bsp' set but not used [-Wunused-but-set-variable] BioseqPtr bsp = NULL; ^ sequin2.c: In function 'CollectNucleotideProteinAssociations': sequin2.c:9250:73: warning: variable 'p_msg' set but not used [-Wunused-but-set-variable] GrouP h, title_grp, all_gene_grp, all_prot_grp, k, c, p_msg; ^ sequin2.c: In function 'GetModNameStartFromEqLoc': sequin2.c:11839:11: warning: variable 'match_quote' set but not used [-Wunused-but-set-variable] Char match_quote; ^ sequin2.c: In function 'GetValueFromTitle': sequin2.c:12403:15: warning: variable 'is_nontext' set but not used [-Wunused-but-set-variable] Boolean is_nontext; ^ sequin2.c: In function 'PrepareSourceAssistantTableData': sequin2.c:13654:36: warning: variable 'num_columns' set but not used [-Wunused-but-set-variable] Int4 column_width, num_columns = 0; ^ sequin2.c: In function 'SetOrganismText': sequin2.c:13856:30: warning: variable 'changed_val' set but not used [-Wunused-but-set-variable] Boolean changed_val = FALSE; ^ sequin2.c: In function 'ApplyRowListToIDAndTitleEdit': sequin2.c:15507:32: warning: variable 'next_org' set but not used [-Wunused-but-set-variable] CharPtr org_loc, org_end, next_org; ^ sequin2.c: In function 'EditOrgModColumn': sequin2.c:16418:26: warning: variable 'row_list' set but not used [-Wunused-but-set-variable] ValNodePtr row_list = NULL; ^ sequin2.c: In function 'ApplyOrgModColumn': sequin2.c:17267:11: warning: variable 'is_nontext' set but not used [-Wunused-but-set-variable] Boolean is_nontext; ^ sequin2.c: In function 'PrepareSequenceAssistantTableData': sequin2.c:18241:36: warning: variable 'num_columns' set but not used [-Wunused-but-set-variable] Int4 column_width, num_columns = 0; ^ sequin2.c: In function 'UpdateIdAndTitleEditDialog': sequin2.c:19658:50: warning: variable 'has_space' set but not used [-Wunused-but-set-variable] Boolean has_dups, has_missing, has_bracket, has_space, has_unrec_mods = FALSE; ^ sequin2.c: In function 'SetIDAndTitleEditDialogErrorColumn': sequin2.c:19808:74: warning: variable 'has_space' set but not used [-Wunused-but-set-variable] Boolean has_dups, has_missing, has_bracket, has_unrec_mods = FALSE, has_space; ^ sequin2.c: In function 'GetDiffDlgCoord': sequin2.c:20978:19: warning: variable 'start_col' set but not used [-Wunused-but-set-variable] Int4 start_row, start_col; ^ sequin2.c:20978:8: warning: variable 'start_row' set but not used [-Wunused-but-set-variable] Int4 start_row, start_col; ^ sequin2.c: In function 'DownloadAndDisplay': sequin2.c:26788:17: warning: variable 'dbname' set but not used [-Wunused-but-set-variable] CharPtr dbname; ^ sequin2.c: In function 'DownloadProc': sequin2.c:26956:17: warning: variable 'dbname' set but not used [-Wunused-but-set-variable] CharPtr dbname; ^ sequin2.c: In function 'LoadSecondaryAccessionNumbersPlusHistFromFile': sequin2.c:28210:17: warning: variable 'need_seqid' set but not used [-Wunused-but-set-variable] Boolean need_seqid; ^ sequin2.c: In function 'RemoveEmptyGenomeProjectIDCallback': sequin2.c:28350:13: warning: suggest parentheses around '&&' within '||' [-Wparentheses] && StringCmp (oip->str, "ProjectID") == 0 || StringCmp (oip->str, "ParentID") == 0) { ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from ../include/aliparse.h:15, from sequin2.c:66: sequin2.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ sequin2.c:3920:1: warning: 'ReadOneSegSet' defined but not used [-Wunused-function] ReadOneSegSet ^ sequin2.c:8182:20: warning: 'FindSeqEntryWithTranscriptID' defined but not used [-Wunused-function] static SeqEntryPtr FindSeqEntryWithTranscriptID (SeqEntryPtr sep, CharPtr transcript_id) ^ sequin2.c:10754:17: warning: 'GetSeqIdFromSeqEntryPtr' defined but not used [-Wunused-function] static SeqIdPtr GetSeqIdFromSeqEntryPtr (SeqEntryPtr sep) ^ sequin2.c:24973:1: warning: 'SequenceAssistantValidateSegments' defined but not used [-Wunused-function] SequenceAssistantValidateSegments ^ sequin2.c:26384:13: warning: 'GetRawBsps' defined but not used [-Wunused-function] static void GetRawBsps (BioseqPtr bsp, Pointer userdata) ^ sequin2.c: In function 'InsertMostUsedFeatureValNodes': sequin2.c:28480:22: warning: 'new_item' may be used uninitialized in this function [-Wmaybe-uninitialized] new_item->next = old_list->next; ^ sequin3.c: In function 'FarToNearProc': sequin3.c:941:12: warning: variable 'olddelta' set but not used [-Wunused-but-set-variable] Pointer olddelta; ^ sequin3.c: In function 'FixLocus': sequin3.c:1404:15: warning: variable 'embl_code' set but not used [-Wunused-but-set-variable] CharPtr ptr, embl_code; ^ sequin3.c: In function 'RemoveGeneXrefsOnBioseqs': sequin3.c:2667:22: warning: variable 'count' set but not used [-Wunused-but-set-variable] Int2 count; ^ sequin3.c: In function 'MakeCDS': sequin3.c:6938:27: warning: variable 'nsep' set but not used [-Wunused-but-set-variable] SeqEntryPtr psep, nsep, old, topsep; ^ sequin3.c: In function 'ConvertOneCDSToMiscFeat': sequin3.c:9351:26: warning: suggest parentheses around '&&' within '||' [-Wparentheses] || must_have_stops && !HasInternalStops (sfp)) ^ sequin3.c: In function 'SuppressGenesOnFeatures': sequin3.c:11193:20: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ sequin3.c: In function 'CheckForExistingMolInfo': sequin3.c:12866:17: warning: variable 'bsp' set but not used [-Wunused-but-set-variable] BioseqPtr bsp; ^ sequin3.c: In function 'UniqueAndCountValNodeCS': sequin3.c:13830:17: warning: variable 'curr' set but not used [-Wunused-but-set-variable] ValNodePtr curr; ^ sequin3.c: In function 'AddBlastTag': sequin3.c:18797:24: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] align_type = (Uint1) (Int4) gcp->userdata; ^ sequin3.c: In function 'CommonAddBlastToSeqAnnot': sequin3.c:18822:60: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] GatherItem (sel->entityID, sel->itemID, sel->itemtype, (Pointer) (Int4) align_type, AddBlastTag); ^ sequin3.c: In function 'RemoveNthCDS': sequin3.c:21998:17: warning: variable 'segCount' set but not used [-Wunused-but-set-variable] Int4 segCount; ^ sequin3.c: In function 'InstantiateGapFeatCallback': sequin3.c:23218:15: warning: variable 'fuzz' set but not used [-Wunused-but-set-variable] IntFuzzPtr fuzz; ^ In file included from ../include/tax3api.h:51:0, from sequin3.c:71: sequin3.c: At top level: ../include/objtax3.h:183:31: warning: 'Value_valueFree' declared 'static' but never defined [-Wunused-function] static Value_valuePtr LIBCALL Value_valueFree PROTO ((Value_valuePtr )); ^ ../include/objtax3.h:184:31: warning: 'Value_valueAsnRead' declared 'static' but never defined [-Wunused-function] static Value_valuePtr LIBCALL Value_valueAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objtax3.h:185:24: warning: 'Value_valueAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Value_valueAsnWrite PROTO (( Value_valuePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from sequin3.c:73: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ sequin3.c:2382:13: warning: 'JustTaxonFixup' defined but not used [-Wunused-function] static void JustTaxonFixup (IteM i) ^ sequin3.c:2548:13: warning: 'NewRemoveDuplicateFeatsGenes' defined but not used [-Wunused-function] static void NewRemoveDuplicateFeatsGenes (IteM i) ^ sequin3.c:4349:13: warning: 'CorrectAlignmentsAfterNToGapConversion' defined but not used [-Wunused-function] static void CorrectAlignmentsAfterNToGapConversion (SeqEntryPtr sep, Uint2 entityID) ^ sequin3.c:4381:13: warning: 'RawSeqToDeltaSeq' defined but not used [-Wunused-function] static void RawSeqToDeltaSeq (IteM i) ^ sequin3.c:4395:13: warning: 'RawSeqToDeltaSeqUnknownLengthGaps' defined but not used [-Wunused-function] static void RawSeqToDeltaSeqUnknownLengthGaps (IteM i) ^ sequin3.c:4412:13: warning: 'RawSeqToDeltaSeqUnknown100LengthGaps' defined but not used [-Wunused-function] static void RawSeqToDeltaSeqUnknown100LengthGaps (IteM i) ^ sequin3.c:6006:13: warning: 'EnableFeatureToGeneControlsPopup' defined but not used [-Wunused-function] static void EnableFeatureToGeneControlsPopup (PopuP p) ^ sequin3.c:6014:13: warning: 'EnableFeatureToGeneControlsText' defined but not used [-Wunused-function] static void EnableFeatureToGeneControlsText (TexT t) ^ sequin3.c:8121:13: warning: 'MultiTransformProc' defined but not used [-Wunused-function] static void MultiTransformProc (IteM i, Uint1 targettype) ^ sequin3.c:12594:13: warning: 'NewMolInfoFieldsApply' defined but not used [-Wunused-function] static void NewMolInfoFieldsApply (IteM i) ^ sequin3.c:12650:13: warning: 'RibosomalRNAToGenomicDNAMenuItem' defined but not used [-Wunused-function] static void RibosomalRNAToGenomicDNAMenuItem (IteM i) ^ sequin3.c:14618:13: warning: 'PrepareTaxListProc' defined but not used [-Wunused-function] static void PrepareTaxListProc (IteM i) ^ sequin3.c:17573:13: warning: 'DoGeneReset' defined but not used [-Wunused-function] static void DoGeneReset (IteM i) ^ sequin3.c:18047:1: warning: 'TruncProtsAtStopsExEx' defined but not used [-Wunused-function] TruncProtsAtStopsExEx ^ sequin3.c:23365:13: warning: 'AddAllDbxrefsMenuItem' defined but not used [-Wunused-function] static void AddAllDbxrefsMenuItem (IteM i) ^ sequin3.c:23410:13: warning: 'NewAligmentViewer' defined but not used [-Wunused-function] static void NewAligmentViewer (IteM i) ^ sequin3.c:23543:13: warning: 'TestTax3A' defined but not used [-Wunused-function] static void TestTax3A (IteM i) ^ sequin3.c:23549:13: warning: 'TestTax3B' defined but not used [-Wunused-function] static void TestTax3B (IteM i) ^ sequin3.c:23908:13: warning: 'ModernizePCRs' defined but not used [-Wunused-function] static void ModernizePCRs (IteM i) ^ sequin3.c:23935:13: warning: 'ModernizeRNAs' defined but not used [-Wunused-function] static void ModernizeRNAs (IteM i) ^ sequin3.c:23962:13: warning: 'ModernizeGenes' defined but not used [-Wunused-function] static void ModernizeGenes (IteM i) ^ sequin3.c:24389:13: warning: 'WriteAccessionsCallback' defined but not used [-Wunused-function] static void WriteAccessionsCallback (BioseqPtr bsp, Pointer data) ^ sequin3.c:24720:13: warning: 'TestSegregateByList' defined but not used [-Wunused-function] static void TestSegregateByList (IteM i) ^ sequin4.c: In function 'SplitSegmentedFeatsOnOneSet': sequin4.c:1692:20: warning: variable 'set_sep' set but not used [-Wunused-but-set-variable] SeqEntryPtr sep, set_sep; ^ sequin4.c: In function 'RemoveOneSegSet': sequin4.c:2363:30: warning: variable 'seg_bssp' set but not used [-Wunused-but-set-variable] BioseqSetPtr seg_nuc_prot, seg_bssp; ^ sequin4.c: In function 'NewUpdateSeqAlign': sequin4.c:3418:20: warning: variable 'bssp' set but not used [-Wunused-but-set-variable] BioseqSetPtr bssp; ^ sequin4.c: In function 'ImportAlignmentForSeqHistInterval': sequin4.c:3613:21: warning: unused variable 'bssp' [-Wunused-variable] BioseqSetPtr bssp = NULL; ^ sequin4.c:3600:21: warning: unused variable 'salp' [-Wunused-variable] SeqAlignPtr salp=NULL, ^ sequin4.c: In function 'GenerateSeqAlignFromSeqEntryMasterOption': sequin4.c:5300:21: warning: unused variable 'bsp' [-Wunused-variable] BioseqPtr bsp = NULL; ^ sequin4.c: In function 'LaunchOrfViewer': sequin4.c:7681:9: warning: variable 'qu' set but not used [-Wunused-but-set-variable] ButtoN qu, b1; ^ sequin4.c: In function 'MRnaFromCdsCallback': sequin4.c:8579:17: warning: variable 'entityID' set but not used [-Wunused-but-set-variable] Uint2 entityID; ^ sequin4.c: In function 'FindNonACGT': sequin4.c:10240:21: warning: variable 'len' set but not used [-Wunused-but-set-variable] Int4 len; ^ sequin4.c: In function 'ConsolidateOrganismNotesProc': sequin4.c:11481:21: warning: variable 'note_mod' set but not used [-Wunused-but-set-variable] OrgModPtr mod, note_mod; ^ sequin4.c:11480:21: warning: variable 'note_ssp' set but not used [-Wunused-but-set-variable] SubSourcePtr ssp, note_ssp; ^ sequin4.c: In function 'GetPubStatus': sequin4.c:13310:14: warning: variable 'csp' set but not used [-Wunused-but-set-variable] CitSubPtr csp; ^ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from sequin4.c:55: sequin4.c: At top level: ../include/asnprt.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^ ../include/asnprt.h:59:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^ ../include/asnprt.h:60:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnprt.h:61:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from sequin4.c:72: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ sequin4.c:16360:25: warning: 'FeatToDeltaSeq' defined but not used [-Wunused-function] static Int2 LIBCALLBACK FeatToDeltaSeq (Pointer data) ^ sequin4.c:3513:18: warning: 'FindBioseqForSeqHist' defined but not used [-Wunused-function] static BioseqPtr FindBioseqForSeqHist (SeqAlignPtr salp) ^ sequin4.c:7172:13: warning: 'AddOrfListToDoc' defined but not used [-Wunused-function] static void AddOrfListToDoc(DoC doc, ValNodePtr list) ^ sequin4.c:12398:13: warning: 'PubConstraintClearText' defined but not used [-Wunused-function] static void PubConstraintClearText (PubConstraintPtr pcp) ^ sequin4.c:16818:13: warning: 'CleanupTruncateByProtAlignForm' defined but not used [-Wunused-function] static void CleanupTruncateByProtAlignForm (GraphiC g, VoidPtr data) ^ sequin4.c: In function 'SplitSegmentedFeats': sequin4.c:1700:27: warning: 'new_frame' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 len_modulo, new_frame; ^ sequin4.c: In function 'ExplodeGroup.isra.82': sequin4.c:5933:9: warning: 'nucbsp' may be used uninitialized in this function [-Wmaybe-uninitialized] SetExplodedProtein (orig_prot, nucprot_bssp, nucbsp, sfp, prot_id_str_prefix, cum_offset); ^ sequin5.c: In function 'GeneExtendFunc': sequin5.c:262:18: warning: variable 'grp' set but not used [-Wunused-but-set-variable] GeneRefPtr grp; ^ sequin5.c: In function 'RemoveGBIDsProc': sequin5.c:1562:18: warning: variable 'nextid' set but not used [-Wunused-but-set-variable] SeqIdPtr nextid, sip; ^ sequin5.c: In function 'RemoveGBProtIDsProc': sequin5.c:1612:18: warning: variable 'nextid' set but not used [-Wunused-but-set-variable] SeqIdPtr nextid, sip; ^ sequin5.c: In function 'RemoveGIProc': sequin5.c:1663:18: warning: variable 'nextid' set but not used [-Wunused-but-set-variable] SeqIdPtr nextid, sip; ^ sequin5.c: In function 'SetmRNAFieldString': sequin5.c:6823:17: warning: variable 'field_choice' set but not used [-Wunused-but-set-variable] Int4 field_choice; ^ sequin5.c: In function 'GetCDSGeneProtField': sequin5.c:7508:11: warning: variable 'field_choice' set but not used [-Wunused-but-set-variable] Int4 field_choice; ^ sequin5.c: In function 'GetRNAFieldString': sequin5.c:7903:21: warning: variable 'field_choice' set but not used [-Wunused-but-set-variable] Int4 field_choice; ^ sequin5.c:7897:14: warning: variable 'rrp' set but not used [-Wunused-but-set-variable] RnaRefPtr rrp; ^ sequin5.c: In function 'SetRNAFieldString': sequin5.c:8138:17: warning: variable 'rrp' set but not used [-Wunused-but-set-variable] RnaRefPtr rrp; ^ sequin5.c: In function 'BioseqConstrainedFeaturesCallback': sequin5.c:11568:21: warning: variable 'cop' set but not used [-Wunused-but-set-variable] ConstraintOpPtr cop; ^ sequin5.c: In function 'SampleDialogCopy': sequin5.c:13820:53: warning: variable 'last_col' set but not used [-Wunused-but-set-variable] Int2 start_col = 0, end_col = 0, first_col, last_col; ^ sequin5.c:13820:42: warning: variable 'first_col' set but not used [-Wunused-but-set-variable] Int2 start_col = 0, end_col = 0, first_col, last_col; ^ sequin5.c: In function 'TestFeatureFieldChoice': sequin5.c:14341:31: warning: variable 'dlg' set but not used [-Wunused-but-set-variable] FeatureFieldChoiceDialogPtr dlg; ^ sequin5.c: In function 'CreateClickableListForSourceFeats': sequin5.c:15126:27: warning: variable 'insertion_seq_txt' set but not used [-Wunused-but-set-variable] CharPtr transposon_txt, insertion_seq_txt, note_txt; ^ sequin5.c:15126:11: warning: variable 'transposon_txt' set but not used [-Wunused-but-set-variable] CharPtr transposon_txt, insertion_seq_txt, note_txt; ^ sequin5.c: In function 'CDSToMiscFeatConvertFunc': sequin5.c:15286:24: warning: variable 'rval' set but not used [-Wunused-but-set-variable] Boolean rval = FALSE; ^ sequin5.c: In function 'GetRegionOpts': sequin5.c:15424:25: warning: unused variable 'rval' [-Wunused-variable] Boolean rval = FALSE; ^ sequin5.c: In function 'NewConvertFeaturesByList': sequin5.c:15594:14: warning: unused variable 'only_pseudo' [-Wunused-variable] Boolean only_pseudo = FALSE; ^ sequin5.c: In function 'FeatureRemoveOrConvertAction': sequin5.c:15860:25: warning: variable 'sfp' set but not used [-Wunused-but-set-variable] SeqFeatPtr sfp; ^ sequin5.c: In function 'CDSGeneProtAECRDialog': sequin5.c:18829:25: warning: variable 'sep' set but not used [-Wunused-but-set-variable] SeqEntryPtr sep; ^ sequin5.c: In function 'CDSGeneProtConvert': sequin5.c:19196:18: warning: unused variable 'str_dst' [-Wunused-variable] CharPtr str_dst = NULL; ^ sequin5.c: In function 'CDSGeneProtParse': sequin5.c:19406:18: warning: variable 'avd' set but not used [-Wunused-but-set-variable] ApplyValueData avd; ^ sequin5.c: In function 'RNAQualListDialog': sequin5.c:21868:22: warning: variable 'sep' set but not used [-Wunused-but-set-variable] SeqEntryPtr sep; ^ sequin5.c: In function 'GetRNAFeatureList': sequin5.c:22057:14: warning: variable 'matches' set but not used [-Wunused-but-set-variable] Boolean matches; ^ sequin5.c: In function 'RNAQualConvertSwapParseList': sequin5.c:22189:26: warning: variable 'avd' set but not used [-Wunused-but-set-variable] ApplyValueData avd; ^ sequin5.c: In function 'RNAQualEditRemoveList': sequin5.c:22285:20: warning: unused variable 'rval' [-Wunused-variable] Boolean rval = TRUE; ^ sequin5.c: In function 'GetGBQualSampleName': sequin5.c:22998:14: warning: variable 'num_feature_choices' set but not used [-Wunused-but-set-variable] Int4 num_feature_choices; ^ sequin5.c: In function 'ConvertGeneLocusTagToOldLocusTagCallback': sequin5.c:23233:28: warning: variable 'mp' set but not used [-Wunused-but-set-variable] LocusTagToOldLocusTagPtr mp; ^ sequin5.c: In function 'GetCombinedCDSLocationCallback': sequin5.c:23550:21: warning: unused variable 'fcontext' [-Wunused-variable] SeqMgrFeatContext fcontext; ^ sequin5.c: In function 'NewSegregateBioseqSet': sequin5.c:26583:22: warning: variable 'p' set but not used [-Wunused-but-set-variable] PrompT p, p2; ^ sequin5.c: In function 'CompareBulkRows': sequin5.c:28054:8: warning: variable 'col' set but not used [-Wunused-but-set-variable] Int4 col; ^ sequin5.c: In function 'ResortBulkEditorRows': sequin5.c:28321:20: warning: unused variable 'matches' [-Wunused-variable] ValNodePtr matches = NULL, vnp; ^ sequin5.c:28318:26: warning: unused variable 'last_inserted' [-Wunused-variable] Int4 row_num, sub_num, last_inserted = 0, comp, col; ^ sequin5.c: In function 'UpdateBulkEdDisplay': sequin5.c:29402:17: warning: unused variable 'text_len' [-Wunused-variable] Int4 i, text_len = 0, sub_num; ^ sequin5.c: In function 'AddColumnToRowList': sequin5.c:30137:11: warning: unused variable 'm' [-Wunused-variable] Int4 i, m = 0, f = 0, num_columns = 1; ^ sequin5.c: In function 'ApplyBulkEditCommon': sequin5.c:30562:23: warning: unused variable 'need_redraw' [-Wunused-variable] Boolean need_redraw = FALSE; ^ sequin5.c: In function 'CopyAllFieldsFromList': sequin5.c:30917:8: warning: unused variable 'num_full' [-Wunused-variable] Int4 num_full = 0; ^ sequin5.c: In function 'BulkEditorObjectList': sequin5.c:32879:22: warning: unused variable 'subtype' [-Wunused-variable] Uint1 subtype = 0; ^ sequin5.c: In function 'BulkEditor': sequin5.c:32937:22: warning: variable 'field_list' set but not used [-Wunused-but-set-variable] BulkEdFieldPtr field_list = NULL; ^ sequin5.c: In function 'GetSpecificHostCorrectionCategory': sequin5.c:33691:22: warning: unused variable 'fmt' [-Wunused-variable] CharPtr fmt = "Unable to suggest correction for '%s'"; ^ In file included from ../include/netblap3.h:134:0, from sequin5.c:53: sequin5.c: At top level: ../include/blstspc.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "blstspc.h23"; ^ ../include/blstspc.h:227:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^ ../include/blstspc.h:228:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/blstspc.h:229:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ In file included from ../include/tax3api.h:51:0, from sequin5.c:78: ../include/objtax3.h:183:31: warning: 'Value_valueFree' declared 'static' but never defined [-Wunused-function] static Value_valuePtr LIBCALL Value_valueFree PROTO ((Value_valuePtr )); ^ ../include/objtax3.h:184:31: warning: 'Value_valueAsnRead' declared 'static' but never defined [-Wunused-function] static Value_valuePtr LIBCALL Value_valueAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objtax3.h:185:24: warning: 'Value_valueAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Value_valueAsnWrite PROTO (( Value_valuePtr , AsnIoPtr, AsnTypePtr)); ^ sequin5.c:13071:25: warning: 'ParseFieldSrcFree' defined but not used [-Wunused-function] static ParseFieldSrcPtr ParseFieldSrcFree (ParseFieldSrcPtr pfsp) ^ sequin5.c:21552:23: warning: 'AECRRNAQualFree' defined but not used [-Wunused-function] static AECRRNAQualPtr AECRRNAQualFree (AECRRNAQualPtr ap) ^ sequin5.c:27713:13: warning: 'FreeBulkEditorValuesList' defined but not used [-Wunused-function] static void FreeBulkEditorValuesList (ValNodePtr PNTR values_list, Int4 num_rows, BulkEdFieldPtr field_list) ^ sequin5.c:28245:13: warning: 'FlatCopyRows' defined but not used [-Wunused-function] static Int4 FlatCopyRows (BulkEditorRowPtr new_rows, BulkEditorRowPtr orig_rows, BulkEdFieldPtr field_list) ^ sequin5.c:28749:28: warning: 'OneFieldBulkEditNew' defined but not used [-Wunused-function] static OneFieldBulkEditPtr OneFieldBulkEditNew (void) ^ sequin5.c:29002:28: warning: 'TwoFieldBulkEditNew' defined but not used [-Wunused-function] static TwoFieldBulkEditPtr TwoFieldBulkEditNew (void) ^ sequin5.c:31224:15: warning: 'BulkNucLocationDialog' defined but not used [-Wunused-function] static DialoG BulkNucLocationDialog (GrouP g, CharPtr name, SeqEntryPtr sep) ^ sequin5.c:31390:16: warning: 'BulkReleaseTrueFalse' defined but not used [-Wunused-function] static Pointer BulkReleaseTrueFalse (Pointer p) ^ sequin5.c:31401:13: warning: 'BulkSetPseudo' defined but not used [-Wunused-function] static void BulkSetPseudo (Pointer target, Pointer val) ^ sequin5.c:31412:16: warning: 'BulkGetPseudo' defined but not used [-Wunused-function] static Pointer BulkGetPseudo (Pointer data) ^ sequin5.c:31877:23: warning: 'GetBulkEditorFieldListForFeature' defined but not used [-Wunused-function] static BulkEdFieldPtr GetBulkEditorFieldListForFeature (SeqFeatPtr sfp) ^ sequin5.c:32179:16: warning: 'BulkSrcGetOrgModDescTF' defined but not used [-Wunused-function] static Pointer BulkSrcGetOrgModDescTF (Uint1 data_choice, Pointer data, Uint2 mod_type) ^ sequin5.c:32200:13: warning: 'BulkSrcSetOrgModDescTF' defined but not used [-Wunused-function] static void BulkSrcSetOrgModDescTF (Pointer target, Pointer data, Uint2 mod_type) ^ sequin5.c: In function 'ResortBulkEditorRows': sequin5.c:28381:6: warning: 'smallest_pos' may be used uninitialized in this function [-Wmaybe-uninitialized] if (smallest_pos < row_num - 1) { ^ sequin5.c: In function 'ConvertDescriptorFieldCallback': sequin5.c:6059:18: warning: 'dst_text' may be used uninitialized in this function [-Wmaybe-uninitialized] avd.new_text = dst_text; ^ In file included from ../include/vibrant.h:130:0, from ../include/dlogutil.h:48, from sequin.h:85, from sequin5.c:47: sequin5.c: In function 'ApplyEditConvertRemoveCombo.constprop': ../include/vibdefns.h:505:22: warning: 'm' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AlignObjects Nlm_AlignObjects ^ sequin5.c:17828:42: note: 'm' was declared here GrouP h, g1, k, n, m; ^ sequin6.c: In function 'CleanupDeleteByTextConvertForm': sequin6.c:1489:19: warning: variable 'cfp' set but not used [-Wunused-but-set-variable] ConvertFormPtr cfp; ^ sequin6.c: In function 'RemoveOrgModText': sequin6.c:3680:35: warning: variable 'next_mod' set but not used [-Wunused-but-set-variable] OrgModPtr mod, prev_mod = NULL, next_mod; ^ sequin6.c: In function 'GapLocationsFromNs': sequin6.c:5229:15: warning: variable 'seq_ext' set but not used [-Wunused-but-set-variable] ValNodePtr seq_ext; ^ sequin6.c:5228:15: warning: variable 'len' set but not used [-Wunused-but-set-variable] Int4 len; ^ sequin6.c: In function 'RemoveTerminalNsFromLocation': sequin6.c:5772:21: warning: unused variable 'seq_offset' [-Wunused-variable] Int4 seq_offset = 0, start, stop; ^ sequin6.c: In function 'ApplyBioFeatToList': sequin6.c:6890:23: warning: variable 'oldscope' set but not used [-Wunused-but-set-variable] SeqEntryPtr nsep, oldscope; ^ sequin6.c: In function 'CopyContactToAuthors': sequin6.c:8820:16: warning: unused variable 'list' [-Wunused-variable] ValNodePtr list = NULL; ^ sequin6.c: In function 'AddCommentsToList': sequin6.c:14010:22: warning: unused variable 'comment_len' [-Wunused-variable] Int4 comment_len = 0, num_segments = 0; ^ sequin6.c: In function 'RNAWordsFromString': sequin6.c:14124:32: warning: variable 'last_pos' set but not used [-Wunused-but-set-variable] CharPtr last_hit = NULL, last_pos = NULL; ^ sequin6.c:14124:15: warning: variable 'last_hit' set but not used [-Wunused-but-set-variable] CharPtr last_hit = NULL, last_pos = NULL; ^ sequin6.c: In function 'FeatureEditorActionGroup': sequin6.c:15192:15: warning: variable 'sep' set but not used [-Wunused-but-set-variable] SeqEntryPtr sep; ^ sequin6.c: In function 'DoPartialFeatureProc': sequin6.c:15455:16: warning: variable 'dash_at_end' set but not used [-Wunused-but-set-variable] Boolean dash_at_end = FALSE; ^ sequin6.c: In function 'FeatureEditorDoOneAction': sequin6.c:16047:19: warning: unused variable 'act' [-Wunused-variable] AECRActionPtr act = NULL; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from ../include/actutils.h:105, from sequin6.c:60: sequin6.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/vibrant.h:133:0, from ../include/dlogutil.h:48, from sequin.h:85, from sequin6.c:45: sequin6.c:85:20: warning: 'publication_field_alist' defined but not used [-Wunused-variable] static ENUM_ALIST (publication_field_alist) ^ ../include/vibforms.h:61:45: note: in definition of macro 'ENUM_ALIST' #define ENUM_ALIST(name) Nlm_EnumFieldAssoc name[] = { ^ sequin6.c:123:19: warning: 'cds_short_field_alist' defined but not used [-Wunused-variable] static ENUM_ALIST(cds_short_field_alist) ^ ../include/vibforms.h:61:45: note: in definition of macro 'ENUM_ALIST' #define ENUM_ALIST(name) Nlm_EnumFieldAssoc name[] = { ^ sequin6.c:154:19: warning: 'rnax_short_field_alist' defined but not used [-Wunused-variable] static ENUM_ALIST(rnax_short_field_alist) ^ ../include/vibforms.h:61:45: note: in definition of macro 'ENUM_ALIST' #define ENUM_ALIST(name) Nlm_EnumFieldAssoc name[] = { ^ sequin6.c:225:13: warning: 'PopulateParseQualPopup' defined but not used [-Wunused-function] static void PopulateParseQualPopup (PopuP p) ^ sequin6.c:650:16: warning: 'TrimOffEndQuotes' defined but not used [-Wunused-function] static Boolean TrimOffEndQuotes (CharPtr trimString, ^ sequin6.c:7713:13: warning: 'SetContactNameFromString' defined but not used [-Wunused-function] static void SetContactNameFromString (SubmitFormPtr sbfp, CharPtr txt) ^ sequin6.c:15251:13: warning: 'DoPseudoFeatureProc' defined but not used [-Wunused-function] static void DoPseudoFeatureProc (SeqFeatPtr sfp, Pointer userdata, FilterSetPtr fsp) ^ In file included from ../include/vibrant.h:130:0, from ../include/dlogutil.h:48, from sequin.h:85, from sequin6.c:45: sequin6.c: In function 'CreateFieldSubfieldDlg.constprop': ../include/vibdefns.h:505:22: warning: 'g2' may be used uninitialized in this function [-Wmaybe-uninitialized] #define AlignObjects Nlm_AlignObjects ^ sequin6.c:496:29: note: 'g2' was declared here GrouP p, g, g2; ^ sequin7.c: In function 'GeneExtendFunc': sequin7.c:962:18: warning: variable 'grp' set but not used [-Wunused-but-set-variable] GeneRefPtr grp; ^ sequin7.c: In function 'FinishConvertingToCDS': sequin7.c:2770:17: warning: variable 'nsep' set but not used [-Wunused-but-set-variable] SeqEntryPtr nsep; ^ sequin7.c: In function 'SetBestFrame': sequin7.c:5532:26: warning: variable 'seq_str2' set but not used [-Wunused-but-set-variable] CharPtr seq_str1, seq_str2; ^ sequin7.c:5532:16: warning: variable 'seq_str1' set but not used [-Wunused-but-set-variable] CharPtr seq_str1, seq_str2; ^ sequin7.c: In function 'FixFeatureIntervalSeqLoc': sequin7.c:7057:17: warning: variable 'tmpsip' set but not used [-Wunused-but-set-variable] SeqIdPtr tmpsip; ^ sequin7.c: In function 'RNABlastOptionNew': sequin7.c:7595:17: warning: variable 'rval' set but not used [-Wunused-but-set-variable] Int2 rval; ^ sequin7.c: In function 'GetSubListForRNAStrandCorrection': sequin7.c:7875:27: warning: variable 'found_id' set but not used [-Wunused-but-set-variable] Boolean found_id; ^ sequin7.c: In function 'ShowClickableItemListEx': sequin7.c:10120:28: warning: variable 'sep' set but not used [-Wunused-but-set-variable] SeqEntryPtr sep; ^ sequin7.c: In function 'ChooseFeaturesForConversion': sequin7.c:10261:28: warning: variable 'sep' set but not used [-Wunused-but-set-variable] SeqEntryPtr sep; ^ sequin7.c: In function 'GetTableOptions': sequin7.c:14440:30: warning: variable 'sep' set but not used [-Wunused-but-set-variable] SeqEntryPtr sep; ^ sequin7.c: In function 'RemoveCDSandmRNAForGene': sequin7.c:14723:27: warning: variable 'prev_xref' set but not used [-Wunused-but-set-variable] SeqFeatXrefPtr xref, prev_xref, next_xref; ^ sequin7.c: In function 'CombineToCreatePseudoGene': sequin7.c:14806:48: warning: suggest parentheses around '&&' within '||' [-Wparentheses] || best_left == fcontext.left && best_right < fcontext.right) { ^ sequin7.c: In function 'TrimTaxFix': sequin7.c:16291:46: warning: suggest parentheses around '&&' within '||' [-Wparentheses] || word_break - t->suggested_fix == 10 && StringNICmp (t->suggested_fix, "uncultured ", 11) == 0) { ^ sequin7.c: In function 'FindBestNTrimSites': sequin7.c:17134:21: warning: unused variable 'trim_list' [-Wunused-variable] ValNodePtr trim_list = NULL; ^ sequin7.c: In function 'BarcodeBlastOptionNew': sequin7.c:17377:17: warning: variable 'rval' set but not used [-Wunused-but-set-variable] Int2 rval; ^ sequin7.c: At top level: sequin7.c:47:14: warning: 'time_of_compilation' defined but not used [-Wunused-variable] static char *time_of_compilation = BUILD_TIME; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from sequin7.c:77: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/tax3api.h:51:0, from sequin7.c:80: ../include/objtax3.h:183:31: warning: 'Value_valueFree' declared 'static' but never defined [-Wunused-function] static Value_valuePtr LIBCALL Value_valueFree PROTO ((Value_valuePtr )); ^ ../include/objtax3.h:184:31: warning: 'Value_valueAsnRead' declared 'static' but never defined [-Wunused-function] static Value_valuePtr LIBCALL Value_valueAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objtax3.h:185:24: warning: 'Value_valueAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Value_valueAsnWrite PROTO (( Value_valuePtr , AsnIoPtr, AsnTypePtr)); ^ sequin7.c:5095:13: warning: 'RemoveMultipleTitles' defined but not used [-Wunused-function] static void RemoveMultipleTitles (SeqEntryPtr sep, Pointer mydata, Int4 index, Int2 indent) ^ sequin7.c:7179:16: warning: 'DoesBioseqMatchStringConstraint' defined but not used [-Wunused-function] static Boolean DoesBioseqMatchStringConstraint (BioseqPtr bsp, StringConstraintXPtr scp) ^ sequin7.c:12855:13: warning: 'RemoveBarcodeKeywordsFromLowTrace' defined but not used [-Wunused-function] static void RemoveBarcodeKeywordsFromLowTrace (ButtoN b) ^ sequin7.c:14969:13: warning: 'FindBadLatLonSourceFeat' defined but not used [-Wunused-function] static void FindBadLatLonSourceFeat (SeqFeatPtr sfp, Pointer userdata) ^ sequin7.c:16484:25: warning: 'NTrimIntervalFree' defined but not used [-Wunused-function] static NTrimIntervalPtr NTrimIntervalFree (NTrimIntervalPtr n) ^ sequin7.c: In function 'GetSubListForRNAStrandCorrection': sequin7.c:7940:3: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ sequin7.c: In function 'CombineToCreatePseudoGene': sequin7.c:14573:9: warning: 'int_strand' may be used uninitialized in this function [-Wmaybe-uninitialized] && ((strand == Seq_strand_minus && fcontext.strand == Seq_strand_minus) ^ sequin7.c:14774:21: note: 'int_strand' was declared here Uint1 int_strand; ^ sequin7.c:14806:48: warning: 'best_right' may be used uninitialized in this function [-Wmaybe-uninitialized] || best_left == fcontext.left && best_right < fcontext.right) { ^ sequin7.c:14806:18: warning: 'best_left' may be used uninitialized in this function [-Wmaybe-uninitialized] || best_left == fcontext.left && best_right < fcontext.right) { ^ sequin8.c: In function 'PopulateAAPopup': sequin8.c:1531:20: warning: variable 'first' set but not used [-Wunused-but-set-variable] Uint1 first; ^ sequin8.c: In function 'UserObjectPtrToUnverifiedDialog': sequin8.c:4313:28: warning: unused variable 'status' [-Wunused-variable] Int2 status = 0; ^ sequin8.c: In function 'SelectBestRepeatsFromList': sequin8.c:8316:18: warning: variable 'best_len' set but not used [-Wunused-but-set-variable] Int4 best_len; ^ sequin8.c:8311:18: warning: variable 'strand2' set but not used [-Wunused-but-set-variable] Uint1 strand1, strand2; ^ sequin8.c:8311:9: warning: variable 'strand1' set but not used [-Wunused-but-set-variable] Uint1 strand1, strand2; ^ sequin8.c: In function 'ExamineAln': sequin8.c:8832:8: warning: variable 'len' set but not used [-Wunused-but-set-variable] Int4 len, num_aln = 0; ^ sequin8.c: In function 'GetWindowForReportType': sequin8.c:15341:3: warning: enumeration value 'eReportTypeTSA' not handled in switch [-Wswitch] switch (report_type) { ^ sequin8.c: In function 'SetWindowForReportType': sequin8.c:15372:3: warning: enumeration value 'eReportTypeTSA' not handled in switch [-Wswitch] switch (report_type) { ^ sequin8.c: In function 'GetReportConfigName': sequin8.c:15390:3: warning: enumeration value 'eReportTypeTSA' not handled in switch [-Wswitch] switch (report_type) { ^ sequin8.c: In function 'ScrollToDiscrepancyItem': sequin8.c:16161:17: warning: variable 'special_flag' set but not used [-Wunused-but-set-variable] Boolean special_flag = FALSE; ^ sequin8.c: In function 'GetReportEditButtonProc': sequin8.c:16944:3: warning: enumeration value 'eReportTypeTSA' not handled in switch [-Wswitch] switch (report_type) { ^ sequin8.c: In function 'GetReportName': sequin8.c:16968:3: warning: enumeration value 'eReportTypeTSA' not handled in switch [-Wswitch] switch (report_type) { ^ sequin8.c: In function 'SortVnpBymRNAPos': sequin8.c:19000:22: warning: variable 'mrna2' set but not used [-Wunused-but-set-variable] SeqFeatPtr mrna1, mrna2; ^ sequin8.c:19000:15: warning: variable 'mrna1' set but not used [-Wunused-but-set-variable] SeqFeatPtr mrna1, mrna2; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from sequin8.c:57: sequin8.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/tax3api.h:51:0, from sequin8.c:63: ../include/objtax3.h:183:31: warning: 'Value_valueFree' declared 'static' but never defined [-Wunused-function] static Value_valuePtr LIBCALL Value_valueFree PROTO ((Value_valuePtr )); ^ ../include/objtax3.h:184:31: warning: 'Value_valueAsnRead' declared 'static' but never defined [-Wunused-function] static Value_valuePtr LIBCALL Value_valueAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objtax3.h:185:24: warning: 'Value_valueAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Value_valueAsnWrite PROTO (( Value_valuePtr , AsnIoPtr, AsnTypePtr)); ^ sequin8.c:452:13: warning: 'ExtendOnePartialFeatureToEndOrGap' defined but not used [-Wunused-function] static void ExtendOnePartialFeatureToEndOrGap (SeqFeatPtr sfp, Pointer userdata) ^ sequin8.c:664:13: warning: 'FixReadingFrame' defined but not used [-Wunused-function] static void FixReadingFrame ( ^ sequin8.c:1890:18: warning: 'SqnGetBioseqGivenSeqLoc' defined but not used [-Wunused-function] static BioseqPtr SqnGetBioseqGivenSeqLoc (SeqLocPtr slp, Uint2 entityID) ^ sequin8.c:6725:16: warning: 'CKA_ValidateSeqAlign' defined but not used [-Wunused-function] static Boolean CKA_ValidateSeqAlign(SeqAlignPtr sap, CKA_AccPtr acc_head, Int4 bioseqlen, ValNodePtr PNTR errors) ^ sequin8.c:6931:13: warning: 'CKA_ShowAln' defined but not used [-Wunused-function] static void CKA_ShowAln(SeqAlignPtr sap, CKA_AccPtr acc_head) ^ sequin8.c:7259:16: warning: 'DoesRowContainPoint' defined but not used [-Wunused-function] static Boolean DoesRowContainPoint (SeqAlignRowPtr row, Int4 point) ^ sequin8.c:7711:16: warning: 'DoesFirstRepeatContainAllOtherRepeats' defined but not used [-Wunused-function] static Boolean DoesFirstRepeatContainAllOtherRepeats (ValNodePtr start, ValNodePtr stop) ^ sequin8.c:8745:20: warning: 'GetNewBlastTPAHistAlignPiece' defined but not used [-Wunused-function] static SeqAlignPtr GetNewBlastTPAHistAlignPiece (BioseqPtr bsp1, BioseqPtr bsp2) ^ sequin8.c:8768:20: warning: 'GetOldBlastTPAHistAlignPiece' defined but not used [-Wunused-function] static SeqAlignPtr GetOldBlastTPAHistAlignPiece (BioseqPtr bsp1, BioseqPtr bsp2) ^ sequin8.c:8830:13: warning: 'ExamineAln' defined but not used [-Wunused-function] static void ExamineAln (SeqAlignPtr sap) ^ sequin8.c:13113:13: warning: 'ShowAssemblyAlignment' defined but not used [-Wunused-function] static void ShowAssemblyAlignment (SeqAlignPtr salp) ^ sequin8.c:15651:13: warning: 'VisitFeaturesInViewedBioseqs' defined but not used [-Wunused-function] static void VisitFeaturesInViewedBioseqs (Pointer userdata, VisitFeaturesFunc callback) ^ sequin8.c:19897:13: warning: 'TrimCDSFortRNAOverlap' defined but not used [-Wunused-function] static void TrimCDSFortRNAOverlap (ValNodePtr item_list) ^ sequin8.c:20204:19: warning: 'DivideClickableItemListByEntityID' defined but not used [-Wunused-function] static ValNodePtr DivideClickableItemListByEntityID (ValNodePtr clickable_list) ^ sequin9.c: In function 'DoVecScreens': sequin9.c:633:19: warning: variable 'hits' set but not used [-Wunused-but-set-variable] Int2 hits; ^ sequin9.c: In function 'AcceptArgumentFormProc': sequin9.c:1468:18: warning: variable 'choice' set but not used [-Wunused-but-set-variable] Int2 choice; ^ sequin9.c: In function 'ExtendBothEnds': sequin9.c:4777:17: warning: variable 'oldbsp' set but not used [-Wunused-but-set-variable] BioseqPtr oldbsp; ^ sequin9.c: In function 'Extend5Prime': sequin9.c:4845:17: warning: variable 'oldbsp' set but not used [-Wunused-but-set-variable] BioseqPtr oldbsp; ^ sequin9.c: In function 'Extend3Prime': sequin9.c:4905:17: warning: variable 'oldbsp' set but not used [-Wunused-but-set-variable] BioseqPtr oldbsp; ^ sequin9.c: In function 'FixProteinString': sequin9.c:5116:16: warning: variable 'start' set but not used [-Wunused-but-set-variable] Int4 start, stop, new_stop, prot_len; ^ sequin9.c: In function 'ShiftStopForLengthChange': sequin9.c:5193:13: warning: variable 'start' set but not used [-Wunused-but-set-variable] Int4 start, stop, new_stop; ^ sequin9.c: In function 'ExtendProtein5': sequin9.c:5386:23: warning: variable 'new_stop' set but not used [-Wunused-but-set-variable] Int4 stop, new_stop; ^ sequin9.c: In function 'PrepareUpdateAlignmentForProtein': sequin9.c:5914:17: warning: variable 'changed_frame' set but not used [-Wunused-but-set-variable] Boolean changed_frame; ^ sequin9.c: In function 'DrawAlignDiffs': sequin9.c:7508:20: warning: variable 'len2' set but not used [-Wunused-but-set-variable] Int4 len1, len2, i; ^ sequin9.c:7508:14: warning: variable 'len1' set but not used [-Wunused-but-set-variable] Int4 len1, len2, i; ^ sequin9.c: In function 'MakeAlignDetails': sequin9.c:7643:12: warning: variable 'aln_length' set but not used [-Wunused-but-set-variable] Int4 aln_length; ^ sequin9.c: In function 'MakeAlignSequence': sequin9.c:7692:56: warning: variable 'to' set but not used [-Wunused-but-set-variable] Int4 aln_length, len, lens, start, stop, from, to, i, j; ^ sequin9.c:7692:50: warning: variable 'from' set but not used [-Wunused-but-set-variable] Int4 aln_length, len, lens, start, stop, from, to, i, j; ^ sequin9.c: In function 'DrawUpdateAlignmentDiffs': sequin9.c:13384:20: warning: variable 'len2' set but not used [-Wunused-but-set-variable] Int4 len1, len2, i; ^ sequin9.c:13384:14: warning: variable 'len1' set but not used [-Wunused-but-set-variable] Int4 len1, len2, i; ^ sequin9.c: In function 'MakeAlignmentDetailsPicture': sequin9.c:13469:12: warning: variable 'aln_length' set but not used [-Wunused-but-set-variable] Int4 aln_length; ^ sequin9.c: In function 'MakeUpdateAlignmentSequenceString': sequin9.c:13551:44: warning: variable 'to' set but not used [-Wunused-but-set-variable] Int4 len, lens, start, stop, from, to, i, j; ^ sequin9.c:13551:38: warning: variable 'from' set but not used [-Wunused-but-set-variable] Int4 len, lens, start, stop, from, to, i, j; ^ sequin9.c: In function 'UpdatePairToUpdateTitlesDialog': sequin9.c:14092:33: warning: large integer implicitly truncated to unsigned type [-Woverflow] PRINTID_REPORT, sizeof (id_txt) - 50); ^ sequin9.c: In function 'SetPreviewSequenceSelectionByPosition': sequin9.c:15725:46: warning: variable 'curr_scroll' set but not used [-Wunused-but-set-variable] Int4 prevrow, curr_scroll, max_scroll; ^ sequin9.c: In function 'DoTestUpdateOneSequence': sequin9.c:16781:30: warning: variable 'update_bsp' set but not used [-Wunused-but-set-variable] BioseqPtr update_bsp = NULL; ^ sequin9.c:16780:30: warning: variable 'update_entityID' set but not used [-Wunused-but-set-variable] Uint2 update_entityID = 0; ^ sequin9.c: In function 'UpdateAllSequences': sequin9.c:17071:30: warning: unused variable 'update_entityID' [-Wunused-variable] Uint2 update_entityID = 0; ^ sequin9.c:17070:30: warning: unused variable 'update_bsp' [-Wunused-variable] BioseqPtr update_bsp = NULL; ^ sequin9.c: In function 'CleanupUpdateMultiSequence': sequin9.c:17390:30: warning: unused variable 'entityIDList' [-Wunused-variable] ValNodePtr entityIDList = NULL; ^ sequin9.c: In function 'UpdateSequenceViaDownload': sequin9.c:18717:15: warning: variable 'is_na' set but not used [-Wunused-but-set-variable] Boolean is_na; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from sequin9.c:47: sequin9.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from sequin9.c:50: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from sequin9.c:50: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from sequin9.c:50: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from sequin9.c:50: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/sqnutils.h:51:0, from ../include/alignmgr2.h:111, from ../include/actutils.h:105, from sequin9.c:56: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ sequin9.c:215:13: warning: 'TruncateCDS' declared 'static' but never defined [-Wunused-function] static void TruncateCDS (SeqFeatPtr sfp, Uint1 frame, BioseqPtr pbsp); ^ sequin9.c:1405:16: warning: 'StrSaveNoNullEncodeSpaces' defined but not used [-Wunused-function] static CharPtr StrSaveNoNullEncodeSpaces (CharPtr from) ^ sequin9.c:17033:29: warning: 'FeatureUpdateNew' defined but not used [-Wunused-function] static FeatureUpdateInfoPtr FeatureUpdateNew (BioseqPtr orig_bsp, BioseqPtr update_bsp) ^ sequin9.c: In function 'TruncateSeqGraphValues': sequin9.c:3131:14: warning: 'fmax' may be used uninitialized in this function [-Wmaybe-uninitialized] if (((FloatHiPtr)new_values)[newpos] > fmax) { ^ sequin9.c:3134:14: warning: 'fmin' may be used uninitialized in this function [-Wmaybe-uninitialized] if (((FloatHiPtr)new_values)[newpos] < fmin) { ^ In file included from ../include/vibrant.h:130:0, from ../include/entrez.h:48, from sequin9.c:49: sequin9.c: In function 'UnmatchedSequenceDialog': ../include/vibdefns.h:439:20: warning: 'b' may be used uninitialized in this function [-Wmaybe-uninitialized] #define ObjectRect Nlm_ObjectRect ^ sequin9.c:15924:30: note: 'b' was declared here ButtoN b; ^ sequin9.c: In function 'PrepareUpdateAlignmentForProtein': sequin9.c:5855:56: warning: 'gene_sfp' may be used uninitialized in this function [-Wmaybe-uninitialized] new_slp = SeqLocMerge (bsp, sfp->location, gene_sfp->location, TRUE, FALSE, FALSE); ^ sequin9.c:5920:17: note: 'gene_sfp' was declared here SeqFeatPtr gene_sfp; ^ sequin10.c: In function 'ApplyTableQuals': sequin10.c:4530:26: warning: variable 'fqtd' set but not used [-Wunused-but-set-variable] FeatureQualTableData fqtd; ^ sequin10.c: In function 'EraseAllFieldsWhenBlank': sequin10.c:5591:19: warning: unused variable 'columns' [-Wunused-variable] ValNodePtr columns = NULL; ^ sequin10.c: In function 'ExternalSourceQualifierTableReader': sequin10.c:6515:22: warning: variable 'any_valid' set but not used [-Wunused-but-set-variable] Boolean any_valid = FALSE; ^ sequin10.c: In function 'LoadFeatureFieldTable': sequin10.c:8816:24: warning: variable 'sep' set but not used [-Wunused-but-set-variable] SeqEntryPtr sep; ^ sequin10.c: In function 'OrgModListsMatch': sequin10.c:10557:14: warning: variable 'found' set but not used [-Wunused-but-set-variable] Boolean found; ^ sequin10.c: In function 'SubtypeListsMatch': sequin10.c:10750:14: warning: variable 'found' set but not used [-Wunused-but-set-variable] Boolean found; ^ sequin10.c: In function 'RetranscribemRNA': sequin10.c:12121:21: warning: variable 'sep' set but not used [-Wunused-but-set-variable] SeqEntryPtr sep; ^ sequin10.c: In function 'TrimSequencesByAlignment': sequin10.c:12516:25: warning: variable 'b' set but not used [-Wunused-but-set-variable] ButtoN b; ^ sequin10.c: In function 'AddOneFeatureBetween': sequin10.c:12907:14: warning: variable 'seqfeattype' set but not used [-Wunused-but-set-variable] Int4 seqfeattype; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from sequin10.c:63: sequin10.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/tax3api.h:51:0, from sequin10.c:68: ../include/objtax3.h:183:31: warning: 'Value_valueFree' declared 'static' but never defined [-Wunused-function] static Value_valuePtr LIBCALL Value_valueFree PROTO ((Value_valuePtr )); ^ ../include/objtax3.h:184:31: warning: 'Value_valueAsnRead' declared 'static' but never defined [-Wunused-function] static Value_valuePtr LIBCALL Value_valueAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objtax3.h:185:24: warning: 'Value_valueAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Value_valueAsnWrite PROTO (( Value_valuePtr , AsnIoPtr, AsnTypePtr)); ^ sequin10.c:1452:19: warning: 'OrgModTableColumnListFree' defined but not used [-Wunused-function] static ValNodePtr OrgModTableColumnListFree (ValNodePtr vnp) ^ sequin10.c:3013:19: warning: 'FreeTableData' defined but not used [-Wunused-function] static ValNodePtr FreeTableData (ValNodePtr lines) ^ sequin10.c:8884:16: warning: 'GetRevSectionSequence' defined but not used [-Wunused-function] static Pointer GetRevSectionSequence (Uint1 data_choice, Pointer data, Pointer metadata) ^ sequin10.c:8902:16: warning: 'GetRevSectionInterval' defined but not used [-Wunused-function] static Pointer GetRevSectionInterval (Uint1 data_choice, Pointer data, Pointer metadata) ^ sequin10.c: In function 'CreateOneProteinId': sequin10.c:15363:5: warning: 'sip_local' may be used uninitialized in this function [-Wmaybe-uninitialized] ReplaceSeqIdWithSeqId (sip_local, sip, sep); ^ In file included from ../include/vibrant.h:130:0, from ../include/dlogutil.h:48, from sequin.h:85, from sequin10.c:45: sequin10.c: In function 'AutoDefBaseFormCommon': ../include/vibdefns.h:297:18: warning: 'k' may be used uninitialized in this function [-Wmaybe-uninitialized] #define CheckBox Nlm_CheckBox ^ sequin10.c:716:24: note: 'k' was declared here GrouP p, g1, s1, s2, k, k2; ^ : Psequin gcc -o sbtedit -I. -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF -UINTERNAL_NCBI_SEQUIN sbtedit.c \ -lncbidesk -lncbitool -lvibrant -lncbiobj -lncbi sbtedit.c: In function 'LookupTaxonomyFunc': sbtedit.c:607:15: warning: variable 'rsult' set but not used [-Wunused-but-set-variable] Int4 rsult; ^ sbtedit.c: At top level: sbtedit.c:48:14: warning: 'date_of_compilation' defined but not used [-Wunused-variable] static char *date_of_compilation = BUILD_DATE; ^ sbtedit.c:49:14: warning: 'time_of_compilation' defined but not used [-Wunused-variable] static char *time_of_compilation = BUILD_TIME; ^ : sbtedit gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" udvmain.c udvmain.c: In function 'Nlm_Main': udvmain.c:232:8: warning: unused variable 'rcL' [-Wunused-variable] RecT rcL; ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from udvmain.c:81: udvmain.c: At top level: ../include/objmmdb1.h:206:57: warning: 'VersionOfDatabase_version_of_databaseFree' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseFree PROTO ((VersionOfDatabase_version_of_databasePtr )); ^ In file included from ../include/strimprt.h:72:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from udvmain.c:81: ../include/objmmdb1.h:207:57: warning: 'VersionOfDatabase_version_of_databaseAsnRead' declared 'static' but never defined [-Wunused-function] static VersionOfDatabase_version_of_databasePtr LIBCALL VersionOfDatabase_version_of_databaseAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb1.h:208:24: warning: 'VersionOfDatabase_version_of_databaseAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL VersionOfDatabase_version_of_databaseAsnWrite PROTO (( VersionOfDatabase_version_of_databasePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:73:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from udvmain.c:81: ../include/objmmdb2.h:151:43: warning: 'Coordinates_coordinatesFree' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesFree PROTO ((Coordinates_coordinatesPtr )); ^ ../include/objmmdb2.h:152:43: warning: 'Coordinates_coordinatesAsnRead' declared 'static' but never defined [-Wunused-function] static Coordinates_coordinatesPtr LIBCALL Coordinates_coordinatesAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:153:24: warning: 'Coordinates_coordinatesAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Coordinates_coordinatesAsnWrite PROTO (( Coordinates_coordinatesPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:247:35: warning: 'Surface_surfaceFree' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceFree PROTO ((Surface_surfacePtr )); ^ ../include/objmmdb2.h:248:35: warning: 'Surface_surfaceAsnRead' declared 'static' but never defined [-Wunused-function] static Surface_surfacePtr LIBCALL Surface_surfaceAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb2.h:249:24: warning: 'Surface_surfaceAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Surface_surfaceAsnWrite PROTO (( Surface_surfacePtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/strimprt.h:74:0, from ../include/mmdbapi1.h:234, from ../include/accentr.h:143, from udvmain.c:81: ../include/objmmdb3.h:287:37: warning: 'Location_locationFree' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationFree PROTO ((Location_locationPtr )); ^ ../include/objmmdb3.h:288:37: warning: 'Location_locationAsnRead' declared 'static' but never defined [-Wunused-function] static Location_locationPtr LIBCALL Location_locationAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:289:24: warning: 'Location_locationAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Location_locationAsnWrite PROTO (( Location_locationPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:310:37: warning: 'Property_propertyFree' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyFree PROTO ((Property_propertyPtr )); ^ ../include/objmmdb3.h:311:37: warning: 'Property_propertyAsnRead' declared 'static' but never defined [-Wunused-function] static Property_propertyPtr LIBCALL Property_propertyAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:312:24: warning: 'Property_propertyAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Property_propertyAsnWrite PROTO (( Property_propertyPtr , AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:419:33: warning: 'Region_regionFree' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionFree PROTO ((Region_regionPtr )); ^ ../include/objmmdb3.h:420:33: warning: 'Region_regionAsnRead' declared 'static' but never defined [-Wunused-function] static Region_regionPtr LIBCALL Region_regionAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objmmdb3.h:421:24: warning: 'Region_regionAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Region_regionAsnWrite PROTO (( Region_regionPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -o udv -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF udvmain.o -lvibnet -lncbidesk \ -lncbiNacc -lnetentr -lvibrant -lncbiobj -lncbi gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" ddvmain.c ddvmain.c:147:13: warning: 'DDV_myargs' initialized and declared 'extern' extern Args DDV_myargs[NUMARGS] = { ^ ddvmain.c:267:16: warning: 'DDV_UseNetwork' defined but not used [-Wunused-function] static Boolean DDV_UseNetwork(void) ^ ddvmain.c: In function 'Nlm_Main': ddvmain.c:441:5: warning: 'UseNetwork' may be used uninitialized in this function [-Wmaybe-uninitialized] if (UseNetwork && EntrezIsInited()) EntrezBioseqFetchDisable(); ^ gcc -o ddv -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF ddvmain.o -lvibnet -lncbidesk -lddvlib \ -lncbiNacc -lnetentr -lvibrant -lncbiobj -lncbi gcc -g -o blastcl3 -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF -DBLAST_CS_API blastall.c \ -lblastapi -lblast -lnetblast -lncbitool -lncbiobj -lncbi blastall.c: In function 'Main_old': blastall.c:1812:26: warning: variable 'nuc_concat' set but not used [-Wunused-but-set-variable] Boolean concat_done, nuc_concat; ^ blastall.c:1800:23: warning: variable 'handle_results' set but not used [-Wunused-but-set-variable] int (LIBCALLBACK *handle_results)(VoidPtr srch); ^ blastall.c:1795:20: warning: unused variable 'index' [-Wunused-variable] Int4 num_bsps, index; ^ blastall.c:1794:42: warning: unused variable 'seqalignp' [-Wunused-variable] SeqAlignPtr sap, next_seqalign, PNTR seqalignp; ^ blastall.c: In function 'Nlm_Main': blastall.c:2963:13: warning: unused variable 'use_new_engine' [-Wunused-variable] Boolean use_new_engine=FALSE; ^ In file included from ../include/sqnutils.h:51:0, from blastall.c:727: blastall.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from blastall.c:733:0: ../include/objblst3.h:180:35: warning: 'Cutoff2_cutoff2Free' declared 'static' but never defined [-Wunused-function] static Cutoff2_cutoff2Ptr LIBCALL Cutoff2_cutoff2Free PROTO ((Cutoff2_cutoff2Ptr )); ^ ../include/objblst3.h:181:35: warning: 'Cutoff2_cutoff2AsnRead' declared 'static' but never defined [-Wunused-function] static Cutoff2_cutoff2Ptr LIBCALL Cutoff2_cutoff2AsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:182:24: warning: 'Cutoff2_cutoff2AsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Cutoff2_cutoff2AsnWrite PROTO (( Cutoff2_cutoff2Ptr , AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:199:33: warning: 'Cutoff_cutoffFree' declared 'static' but never defined [-Wunused-function] static Cutoff_cutoffPtr LIBCALL Cutoff_cutoffFree PROTO ((Cutoff_cutoffPtr )); ^ ../include/objblst3.h:200:33: warning: 'Cutoff_cutoffAsnRead' declared 'static' but never defined [-Wunused-function] static Cutoff_cutoffPtr LIBCALL Cutoff_cutoffAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objblst3.h:201:24: warning: 'Cutoff_cutoffAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Cutoff_cutoffAsnWrite PROTO (( Cutoff_cutoffPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/netblap3.h:134:0, from blastall.c:734: ../include/blstspc.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "blstspc.h23"; ^ ../include/blstspc.h:227:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^ ../include/blstspc.h:228:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/blstspc.h:229:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ blastall.c:2931:1: warning: 'readdb_use_new_blast' defined but not used [-Wunused-function] readdb_use_new_blast(char* dbname) ^ blastall.c: In function 'Main_old': blastall.c:2410:74: warning: 'fake_bsp_arr' may be used uninitialized in this function [-Wmaybe-uninitialized] curr_bsp = (num_queries>0) ? *(fake_bsp_arr + bsp_iter) : query_bsp; ^ blastall.c:2715:40: warning: 'seq_annot_arr' may be used uninitialized in this function [-Wmaybe-uninitialized] *(seq_annot_arr + sap_iter) = seqannot; ^ blastall.c:2723:84: warning: 'sap_array' may be used uninitialized in this function [-Wmaybe-uninitialized] curr_seqalign = (num_queries > 0) ? *(sap_array + sap_iter) : seqalign; ^ blastall.c:2618:18: warning: 'next_seqalign' may be used uninitialized in this function [-Wmaybe-uninitialized] while (seqalign) { ^ blastall.c:2895:12: warning: 'err_ticket' may be used uninitialized in this function [-Wmaybe-uninitialized] BlastDeleteUserErrorString(err_ticket); ^ blastall.c:2812:18: warning: 'xml_aip' may be used uninitialized in this function [-Wmaybe-uninitialized] BXMLPrintOutput(xml_aip, NULL, options, blast_program, ^ gcc -g -o taxblast -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF taxblast_main.c \ -lblastapi -lblast -lnetblast -lncbiid1 -lncbitxc2 -lncbitool \ -lncbiobj -lncbi -lm gcc -g -o idfetch -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF idfetch.c -lncbiid1 -lncbiobj -lncbi idfetch.c: In function 'Nlm_Main': idfetch.c:354:46: warning: variable 'any_type' set but not used [-Wunused-but-set-variable] found_colon = FALSE, dna_type = FALSE, any_type = FALSE; ^ idfetch.c:354:28: warning: variable 'dna_type' set but not used [-Wunused-but-set-variable] found_colon = FALSE, dna_type = FALSE, any_type = FALSE; ^ idfetch.c: In function 'IdFetch_func': idfetch.c:828:13: warning: missing braces around initializer [-Wmissing-braces] SeqId si={SEQID_GI,0,0}; ^ idfetch.c:828:13: note: (near initialization for 'si') idfetch.c:835:10: warning: variable 'group_segs' set but not used [-Wunused-but-set-variable] Uint1 group_segs; ^ idfetch.c: In function 'BEGetUidsFromQuery': idfetch.c:1089:14: warning: unused variable 'e2rp' [-Wunused-variable] E2ReplyPtr e2rp; ^ idfetch.c: In function 'IdFetch_func': idfetch.c:937:5: warning: 'gi_state' may be used uninitialized in this function [-Wmaybe-uninitialized] id_print_gi_state(gi_state,buf,sizeof(buf)); ^ idfetch.c: In function 'Nlm_Main': idfetch.c:497:13: warning: 'type_int' may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 tgi = TryGetGi( type_int, tacc, NULL, 0); ^ idfetch.c:500:4: warning: 'sip' may be used uninitialized in this function [-Wmaybe-uninitialized] SeqIdPrint(sip, tbuf, PRINTID_FASTA_SHORT); ^ gcc -o bl2seq -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF bl2seq.c -lblastapi -lblast -lncbitool \ -lncbiid1 -lncbiobj -lncbi bl2seq.c: In function 'BioseqFromAccession': bl2seq.c:331:10: warning: unused variable 'dummy_ptr' [-Wunused-variable] char* dummy_ptr = NULL; ^ bl2seq.c:330:10: warning: unused variable 'defline' [-Wunused-variable] char* defline = NULL; ^ bl2seq.c:329:10: warning: unused variable 'buf' [-Wunused-variable] Uint1 buf[512]; ^ bl2seq.c:328:17: warning: unused variable 'buf_length' [-Wunused-variable] Int2 retval, buf_length=512; ^ bl2seq.c:328:9: warning: unused variable 'retval' [-Wunused-variable] Int2 retval, buf_length=512; ^ bl2seq.c:327:15: warning: unused variable 'spp' [-Wunused-variable] SeqPortPtr spp; ^ bl2seq.c:322:24: warning: unused variable 'number' [-Wunused-variable] Int4 version=0, gi, number; ^ bl2seq.c: In function 'Main_new': bl2seq.c:803:21: warning: unused variable 'seqalign' [-Wunused-variable] SeqAlignPtr seqalign=NULL; ^ In file included from ../include/sqnutils.h:51:0, from bl2seq.c:305: bl2seq.c: At top level: ../include/objentgene.h:176:33: warning: 'Method_methodFree' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^ ../include/objentgene.h:177:33: warning: 'Method_methodAsnRead' declared 'static' but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objentgene.h:178:24: warning: 'Method_methodAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -g -o asn2gb -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF asn2gb.c -lncbitool -lncbiobj -lncbi asn2gb.c:967:13: warning: 'FreeUnpubAffil' defined but not used [-Wunused-function] static void FreeUnpubAffil ( ^ asn2gb.c:1290:13: warning: 'CheckOrder' defined but not used [-Wunused-function] static void CheckOrder ( ^ asn2gb.c: In function 'HandleMultipleRecords': asn2gb.c:1739:3: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ asn2gb.c: In function 'CompareFlatFiles': asn2gb.c:1184:5: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ asn2gb.c:1191:5: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ asn2gb.c:1216:5: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ asn2gb.c:1242:7: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ asn2gb.c:1245:7: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ asn2gb.c:1250:7: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ asn2gb.c:1253:7: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ asn2gb.c: In function 'ReportDiffs': asn2gb.c:1071:5: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ asn2gb.c:1074:5: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ asn2gb.c:1077:5: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ asn2gb.c:1080:5: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ asn2gb.c:1083:5: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ asn2gb.c:1096:5: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ asn2gb.c: In function 'Nlm_Main': asn2gb.c:1824:11: warning: 'entityID' may be used uninitialized in this function [-Wmaybe-uninitialized] sfp = SeqMgrGetDesiredFeature (entityID, 0, itemID, 0, NULL, NULL); ^ asn2gb.c:1774:15: note: 'entityID' was declared here Uint2 entityID; ^ gcc -o tbl2asn -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF tbl2asn.c -lncbitool -lncbiobj -lncbi tbl2asn.c: In function 'ProcessOneAnnot': tbl2asn.c:2533:15: warning: variable 'sep' set but not used [-Wunused-but-set-variable] SeqEntryPtr sep; ^ tbl2asn.c: In function 'MakeOneRnaTitle': tbl2asn.c:5127:22: warning: variable 'cds' set but not used [-Wunused-but-set-variable] SeqFeatPtr cds; ^ tbl2asn.c: In function 'FindSingleNucleotideOrNucProtSetInBioseqInSet': tbl2asn.c:6936:30: warning: variable 'single_result' set but not used [-Wunused-but-set-variable] SeqEntryPtr single = NULL, single_result; ^ In file included from ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from ../include/aliparse.h:15, from tbl2asn.c:69: tbl2asn.c: At top level: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from ../include/tax3api.h:51:0, from tbl2asn.c:72: ../include/objtax3.h:183:31: warning: 'Value_valueFree' declared 'static' but never defined [-Wunused-function] static Value_valuePtr LIBCALL Value_valueFree PROTO ((Value_valuePtr )); ^ ../include/objtax3.h:184:31: warning: 'Value_valueAsnRead' declared 'static' but never defined [-Wunused-function] static Value_valuePtr LIBCALL Value_valueAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objtax3.h:185:24: warning: 'Value_valueAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Value_valueAsnWrite PROTO (( Value_valuePtr , AsnIoPtr, AsnTypePtr)); ^ tbl2asn.c:2621:16: warning: 'ExceptionExplainsMismatch' defined but not used [-Wunused-function] static Boolean ExceptionExplainsMismatch (CharPtr except_text) ^ tbl2asn.c: In function 'DBLinkFieldsConflict': tbl2asn.c:2143:40: warning: 'i' may be used uninitialized in this function [-Wmaybe-uninitialized] } else if (CompareBioProjects (cpp2[i], field1->data.ptrvalue) == 0) { ^ tbl2asn.c:2096:18: note: 'i' was declared here Int4 i; ^ gcc -g -o gene2xml -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF gene2xml.c -lncbiobj -lncbi gene2xml.c: In function 'ProcessOneRecord': gene2xml.c:364:9: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ gcc -g -o entrez2 -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF entrez2.c -lncbidesk \ -lncbiobj -lvibrant -lncbi entrez2.c: In function 'Nlm_Main': entrez2.c:866:12: warning: variable 'server' set but not used [-Wunused-but-set-variable] CharPtr server = "www.ncbi.nlm.nih.gov"; ^ entrez2.c:864:12: warning: variable 'port' set but not used [-Wunused-but-set-variable] Uint2 port = 2441; ^ entrez2.c:863:12: warning: variable 'path' set but not used [-Wunused-but-set-variable] CharPtr path = "/entrez/utils/entrez2server.fcgi"; ^ entrez2.c: At top level: entrez2.c:724:13: warning: 'AboutProc' defined but not used [-Wunused-function] static void AboutProc (IteM i) ^ : entrez2 gcc -g -o gbseqget -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF gbseqget.c -lncbiobj -lncbi gcc -g -o asn2all -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF asn2all.c ncbithr.o -lncbiobj -lncbi \ -lpthread asn2all.c: In function 'DoLockFarComponents': asn2all.c:67:27: warning: variable 'stop_time' set but not used [-Wunused-but-set-variable] time_t start_time, stop_time; ^ asn2all.c:67:15: warning: variable 'start_time' set but not used [-Wunused-but-set-variable] time_t start_time, stop_time; ^ gcc -o asn2asn -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF asn2asn.c -lncbiobj -lncbi gcc -g -o asn2fsa -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF asn2fsa.c ncbithr.o \ -lncbitool -lncbiobj -lncbi -lpthread asn2fsa.c: In function 'AddBspToList': asn2fsa.c:216:15: warning: variable 'vnp' set but not used [-Wunused-but-set-variable] ValNodePtr vnp; ^ asn2fsa.c: In function 'DoLockFarComponents': asn2fsa.c:406:27: warning: variable 'stop_time' set but not used [-Wunused-but-set-variable] time_t start_time, stop_time; ^ asn2fsa.c:406:15: warning: variable 'start_time' set but not used [-Wunused-but-set-variable] time_t start_time, stop_time; ^ gcc -g -o asndisc -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF asndisc.c ncbithr.o -lncbiid1 \ -lncbitool -lncbiobj -lncbi -lpthread asndisc.c: In function 'ProcessMultipleRecord': asndisc.c:728:19: warning: variable 'memory_usage' set but not used [-Wunused-but-set-variable] Boolean memory_usage = FALSE; ^ asndisc.c:726:19: warning: variable 'detailed_report' set but not used [-Wunused-but-set-variable] Boolean detailed_report = FALSE; ^ asndisc.c:722:19: warning: variable 'subcit' set but not used [-Wunused-but-set-variable] SeqDescrPtr subcit = NULL; ^ gcc -o asnmacro -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF asnmacro.c -lblastapi -lblast -lncbitool \ -lncbiobj -lncbi In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from ../include/actutils.h:105, from asnmacro.c:54: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ In file included from asnmacro.c:57:0: ../include/asnmacro.h:12:15: warning: 'asnfilename' defined but not used [-Wunused-variable] static char * asnfilename = "asnmacro.h11"; ^ ../include/asnmacro.h:1325:23: warning: 'avn' defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^ ../include/asnmacro.h:1326:19: warning: 'at' defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^ ../include/asnmacro.h:1327:21: warning: 'amp' defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^ asnmacro.c:147:20: warning: 'GlobalAlign2Seq' defined but not used [-Wunused-function] static SeqAlignPtr GlobalAlign2Seq (BioseqPtr bsp1, BioseqPtr bsp2, BoolPtr revcomp) ^ asnmacro.c: In function 'AsnIoFromOutputStream': asnmacro.c:233:14: warning: 'aip' may be used uninitialized in this function [-Wmaybe-uninitialized] AsnIoPtr aip; ^ gcc -g -o asnval -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF asnval.c ncbithr.o -lncbiobj -lncbi \ -lpthread asnval.c: In function 'DoLockFarComponents': asnval.c:556:27: warning: variable 'stop_time' set but not used [-Wunused-but-set-variable] time_t start_time, stop_time; ^ asnval.c:556:15: warning: variable 'start_time' set but not used [-Wunused-but-set-variable] time_t start_time, stop_time; ^ asnval.c: In function 'ReportBadTaxID': asnval.c:1049:20: warning: zero-length gnu_printf format string [-Wformat-zero-length] sprintf (buf1, ""); ^ asnval.c:1058:20: warning: zero-length gnu_printf format string [-Wformat-zero-length] sprintf (buf2, ""); ^ gcc -o cleanasn -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF cleanasn.c -lncbitool -lncbiobj -lncbi cleanasn.c: In function 'JournalIsPresent': cleanasn.c:8001:14: warning: variable 'is_issn' set but not used [-Wunused-but-set-variable] Boolean is_issn = FALSE; ^ cleanasn.c: In function 'RemoveGIProc': cleanasn.c:8305:18: warning: variable 'nextid' set but not used [-Wunused-but-set-variable] SeqIdPtr nextid, sip; ^ cleanasn.c: At top level: cleanasn.c:3854:13: warning: 'NormalizeSegSetTitle' defined but not used [-Wunused-function] static void NormalizeSegSetTitle ( ^ cleanasn.c:3905:13: warning: 'CountParts' defined but not used [-Wunused-function] static void CountParts ( ^ cleanasn.c:4063:13: warning: 'PrintPartsTitle' defined but not used [-Wunused-function] static void PrintPartsTitle ( ^ cleanasn.c:4076:13: warning: 'PrintSegSeqTitleBefore' defined but not used [-Wunused-function] static void PrintSegSeqTitleBefore ( ^ cleanasn.c:4096:13: warning: 'PrintSegSeqTitleAfter' defined but not used [-Wunused-function] static void PrintSegSeqTitleAfter ( ^ cleanasn.c:4116:13: warning: 'FindOneCds' defined but not used [-Wunused-function] static void FindOneCds ( ^ cleanasn.c:6613:19: warning: 'DuplicateStringList' defined but not used [-Wunused-function] static ValNodePtr DuplicateStringList ( ^ cleanasn.c:7647:13: warning: 'DoUnpublishedReport' defined but not used [-Wunused-function] static void DoUnpublishedReport ( ^ cleanasn.c:9911:16: warning: 'PvtStrToLong' defined but not used [-Wunused-function] static Boolean PvtStrToLong (CharPtr str, Int4Ptr longval) ^ cleanasn.c:9952:13: warning: 'AccessionToGi' defined but not used [-Wunused-function] static Int4 AccessionToGi (CharPtr string) ^ cleanasn.c: In function 'ReportAsnDiffs': cleanasn.c:2914:3: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ cleanasn.c: In function 'DoGBFFReport': cleanasn.c:5978:5: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ cleanasn.c:5981:5: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ cleanasn.c:6007:5: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ cleanasn.c:6036:5: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ cleanasn.c:6094:5: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ cleanasn.c:6097:5: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ cleanasn.c: In function 'DoValidatorReport': cleanasn.c:6153:3: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ cleanasn.c:6156:3: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ cleanasn.c:6184:3: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ cleanasn.c: In function 'CppBasicCleanup': cleanasn.c:8686:3: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ cleanasn.c:8690:3: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ cleanasn.c:8716:7: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ cleanasn.c:8718:7: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ cleanasn.c:8720:7: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ cleanasn.c:8722:7: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ cleanasn.c:8724:7: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ cleanasn.c:8734:3: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^ cleanasn.c: In function 'RemoveFeatEvInf': cleanasn.c:585:9: warning: 'nextqual' may be used uninitialized in this function [-Wmaybe-uninitialized] while (gbq != NULL) { ^ gcc -g -o insdseqget -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF insdseqget.c -lncbiobj -lncbi gcc -g -o nps2gps -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF nps2gps.c -lncbitool -lncbiobj -lncbi nps2gps.c: In function 'LclMakeOneRnaTitle': nps2gps.c:417:22: warning: variable 'cds' set but not used [-Wunused-but-set-variable] SeqFeatPtr cds; ^ nps2gps.c: In function 'LoopThroughCDSs': nps2gps.c:910:22: warning: variable 'count' set but not used [-Wunused-but-set-variable] Int2 count; ^ nps2gps.c: At top level: nps2gps.c:584:17: warning: 'MakeIdFromLocusTag' defined but not used [-Wunused-function] static SeqIdPtr MakeIdFromLocusTag ( ^ gcc -o spidey -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF spideymain.c -lncbiid1 -lncbitool \ -lncbiobj -lncbi In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from ../include/spidey.h:103, from spideymain.c:80: ../include/objalignloc.h:80:27: warning: 'Loc_locFree' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^ ../include/objalignloc.h:81:27: warning: 'Loc_locAsnRead' declared 'static' but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^ ../include/objalignloc.h:82:24: warning: 'Loc_locAsnWrite' declared 'static' but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^ gcc -g -o trna2sap -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF trna2sap.c -lncbiobj -lncbi trna2sap.c: In function 'ProcessOneRecord': trna2sap.c:290:28: warning: unused variable 'entityID' [-Wunused-variable] Uint2 datatype, entityID = 0; ^ trna2sap.c: In function 'Nlm_Main': trna2sap.c:460:12: warning: variable 'tsp' set but not used [-Wunused-but-set-variable] T2SPtr tsp; ^ gcc -g -o trna2tbl -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF trna2tbl.c trna2tbl.c: In function 'RunTrnaScan': trna2tbl.c:142:13: warning: unused variable 'str' [-Wunused-variable] Char str [80]; ^ trna2tbl.c:139:13: warning: unused variable 'speed' [-Wunused-variable] CharPtr speed; ^ trna2tbl.c:127:13: warning: unused variable 'cmmd' [-Wunused-variable] Char cmmd [256]; ^ trna2tbl.c: At top level: trna2tbl.c:232:1: warning: return type defaults to 'int' [-Wimplicit-int] main (int argc, char *argv[]) ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" cn3dmain.c cn3dmain.c: In function 'OpenMimeFile': cn3dmain.c:237:5: warning: "/*" within comment [-Wcomment] /* the Web browsers on other platforms get upset if you delete the file, */ ^ cn3dmain.c: In function 'NetConfigureProc': cn3dmain.c:267:13: warning: unused variable 'netCurrentlyOn' [-Wunused-variable] Boolean netCurrentlyOn = FALSE; ^ cn3dmain.c: In function 'Cn3D_PrintImage': cn3dmain.c:288:10: warning: variable 'pmldVec' set but not used [-Wunused-but-set-variable] PMLD pmldVec = NULL; ^ cn3dmain.c:284:11: warning: unused variable 'pdnmlFirst' [-Wunused-variable] PDNML pdnmlFirst = NULL; ^ cn3dmain.c: In function 'Nlm_Main': cn3dmain.c:334:13: warning: unused variable 'netCurrentlyOn' [-Wunused-variable] Boolean netCurrentlyOn = FALSE; ^ cn3dmain.c: At top level: cn3dmain.c:246:25: warning: 'seqedprocs' defined but not used [-Wunused-variable] static SeqEditViewProcs seqedprocs; ^ gcc -c -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" -D_FORTIFY_SOURCE=2 -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF netentcf.c -o netentcf gcc -o Cn3D -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Dec 10 2015"' -DBUILD_TIME='"06:19:59"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF cn3dmain.o -lvibnet -lncbicn3dOGL -lncbidesk \ -lddvlib -lncbimmdb -lncbiNacc -lnetentr \ -lvibrantOGL -lncbiobj -lncbi make[2]: Leaving directory '/«PKGBUILDDIR»/build' make[1]: Leaving directory '/«PKGBUILDDIR»' dh_auto_build -Nlibncbi6 -Nlibncbi6-dev -Nlibncbi6-dbg -Nncbi-tools-bin -Nncbi-tools-x11 -Nblast2 -Nlibvibrant6b -Nlibvibrant6-dev -Nlibvibrant6b-dbg dh_auto_test fakeroot debian/rules binary dh binary dh_testroot dh_prep debian/rules override_dh_auto_install-arch make[1]: Entering directory '/«PKGBUILDDIR»' install -d debian/tmp/usr/lib/x86_64-linux-gnu install -m 644 lib/* shlib/*.so.6.1.20120620 debian/tmp/usr/lib/x86_64-linux-gnu for x in ncbiacc ncbiCacc netentr; do \ rm -f debian/tmp/usr/lib/x86_64-linux-gnu/lib$x.so.6.1.20120620 && \ ln -s libncbiNacc.so.6 \ debian/tmp/usr/lib/x86_64-linux-gnu/lib$x.so.6 && \ ln -s libncbiNacc.so debian/tmp/usr/lib/x86_64-linux-gnu/lib$x.so; \ done for x in ncbicn3d vibrant; do \ rm -f debian/tmp/usr/lib/x86_64-linux-gnu/lib$x.so.6.1.20120620 && \ ln -s lib${x}OGL.so.6 \ debian/tmp/usr/lib/x86_64-linux-gnu/lib$x.so.6 && \ ln -s lib${x}OGL.so debian/tmp/usr/lib/x86_64-linux-gnu/lib$x.so; \ done rm -f debian/tmp/usr/lib/x86_64-linux-gnu/libregexp.* cd debian/tmp/usr/lib/x86_64-linux-gnu && \ for f in *.so.6.1.20120620; do \ base=`basename $f .so.6.1.20120620` && \ ln -s $f $base.so.6 && \ ln -s $f $base.so; \ done install -d debian/tmp/usr/include/ncbi cp -LRp include/* debian/tmp/usr/include/ncbi cd debian/tmp/usr/include/ncbi && \ rm -f FSpCompat.h FullPath.h More*.h Optimization*.h pcre*.h find debian/tmp/usr/include -type f | xargs chmod 644 install -d debian/tmp/usr/bin install `find build -type f -perm /111 -print` debian/tmp/usr/bin rm -f debian/tmp/usr/bin/*test* rm -f debian/tmp/usr/bin/*demo* rm -f debian/tmp/usr/bin/dosimple rm -f debian/tmp/usr/bin/ncbisort rm -f debian/tmp/usr/bin/cdscan rm -f debian/tmp/usr/bin/entrcmd rm -f debian/tmp/usr/bin/blast.REAL mv debian/tmp/usr/bin/Cn3D debian/tmp/usr/bin/Cn3D-3.0 mv debian/tmp/usr/bin/blast debian/tmp/usr/bin/blast2 make[1]: Leaving directory '/«PKGBUILDDIR»' debian/rules override_dh_auto_install-indep make[1]: Entering directory '/«PKGBUILDDIR»' convert link/mswin/asntool.ico debian/asntool.xpm icotool -x -w 32 -b 32 -o - link/mswin/ncbilogo.ico | \ convert png:- debian/ncbilogo.xpm install -d debian/ncbi-data/etc/ncbi install -m 644 debian/.*rc debian/ncbi-data/etc/ncbi install -d debian/ncbi-data/usr/bin install debian/vibrate debian/ncbi-data/usr/bin install -d debian/ncbi-data/usr/share/ncbi/data install -m 644 data/* debian/ncbi-data/usr/share/ncbi/data install -d debian/ncbi-rrna-data/usr/share/ncbi/data mv debian/ncbi-data/usr/share/ncbi/data/*_[b29]*.n?? \ debian/ncbi-rrna-data/usr/share/ncbi/data/ install -d debian/ncbi-data/usr/share/pixmaps install -m 644 debian/asntool.xpm debian/ncbilogo.xpm debian/ncbi-data/usr/share/pixmaps for w in 16 32 48 256; do \ d=${w}x${w} && \ install -d debian/ncbi-data/usr/share/icons/hicolor/$d && \ icotool -x -w $w -b 32 -o debian/ncbi-data/usr/share/icons/hicolor/$d/ncbilogo.png link/mswin/ncbilogo.ico \ || exit 1 ; \ done make[1]: Leaving directory '/«PKGBUILDDIR»' dh_install debian/rules override_dh_installdocs-arch make[1]: Entering directory '/«PKGBUILDDIR»' dh_installdocs install -m 644 config/README \ debian/libncbi6/usr/share/doc/libncbi6/README.config install -m 644 network/nsclilib/readme \ debian/libncbi6/usr/share/doc/libncbi6/README.net-cfg install -m 644 doc/fa2htgs/README \ debian/ncbi-tools-bin/usr/share/doc/ncbi-tools-bin/README.fa2htgs install -m 644 sequin/README \ debian/ncbi-tools-x11/usr/share/doc/ncbi-tools-x11/README.sequin make[1]: Leaving directory '/«PKGBUILDDIR»' dh_installdocs -Nlibncbi6 -Nlibncbi6-dev -Nlibncbi6-dbg -Nncbi-tools-bin -Nncbi-tools-x11 -Nblast2 -Nlibvibrant6b -Nlibvibrant6-dev -Nlibvibrant6b-dbg debian/rules override_dh_installchangelogs make[1]: Entering directory '/«PKGBUILDDIR»' dh_installchangelogs -k README make[1]: Leaving directory '/«PKGBUILDDIR»' dh_installexamples debian/rules override_dh_installman make[1]: Entering directory '/«PKGBUILDDIR»' dh_link # otherwise runs too late to influence debian/installman chmod +x debian/installman debian/installman blast2 debian/installman blast2 blast debian/installman ncbi-tools-bin debian/installman ncbi-tools-x11 debian/installman ncbi-data dh_installman make[1]: Leaving directory '/«PKGBUILDDIR»' debian/rules override_dh_installmenu-arch make[1]: Entering directory '/«PKGBUILDDIR»' chmod +x debian/makemenu debian/makemenu debian/ncbi-tools-x11.install debian/makemenu -v debian/ncbi-tools-bin.install debian/makemenu -v debian/blast2.install dh_installmenu make[1]: Leaving directory '/«PKGBUILDDIR»' dh_installmime dh_lintian dh_icons dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms debian/rules override_dh_strip-arch make[1]: Entering directory '/«PKGBUILDDIR»' dh_strip -plibncbi6 --dbg-package=libncbi6-dbg dh_strip debug symbol extraction: enabling -a due to Build-Debug-Symbols: yes in /CurrentlyBuilding dh_strip debug symbol extraction: all non-arch-all packages for this build platform amd64: libncbi6 libncbi6-dev libncbi6-dbg ncbi-tools-bin ncbi-tools-x11 blast2 libvibrant6b libvibrant6-dev libvibrant6b-dbg dh_strip debug symbol extraction: not adding gnu debuglinks since --dbg-package is given dh_strip debug symbol extraction: packages to act on: libncbi6 dh_strip debug symbol extraction: ignored packages: Using buildid for compat level >= 9 we have -dbg package(s), not installing anything into ddeb find: `/«PKGBUILDDIR»/debian/libncbi6-dbgsym': No such file or directory dpkg-gencontrol: warning: -is is deprecated; it is without effect dpkg-gencontrol: warning: -ip is deprecated; it is without effect dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe /usr/bin/pkg_create_dbgsym: deferring build of .ddeb to dh_gencontrol dh_strip -plibvibrant6b --dbg-package=libvibrant6b-dbg dh_strip debug symbol extraction: enabling -a due to Build-Debug-Symbols: yes in /CurrentlyBuilding dh_strip debug symbol extraction: all non-arch-all packages for this build platform amd64: libncbi6 libncbi6-dev libncbi6-dbg ncbi-tools-bin ncbi-tools-x11 blast2 libvibrant6b libvibrant6-dev libvibrant6b-dbg dh_strip debug symbol extraction: not adding gnu debuglinks since --dbg-package is given dh_strip debug symbol extraction: packages to act on: libvibrant6b dh_strip debug symbol extraction: ignored packages: Using buildid for compat level >= 9 we have -dbg package(s), not installing anything into ddeb find: `/«PKGBUILDDIR»/debian/libvibrant6b-dbgsym': No such file or directory dpkg-gencontrol: warning: -is is deprecated; it is without effect dpkg-gencontrol: warning: -ip is deprecated; it is without effect dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe /usr/bin/pkg_create_dbgsym: deferring build of .ddeb to dh_gencontrol dh_strip -Nlibncbi6 -Nlibvibrant6b dh_strip debug symbol extraction: enabling -a due to Build-Debug-Symbols: yes in /CurrentlyBuilding dh_strip debug symbol extraction: all non-arch-all packages for this build platform amd64: libncbi6 libncbi6-dev libncbi6-dbg ncbi-tools-bin ncbi-tools-x11 blast2 libvibrant6b libvibrant6-dev libvibrant6b-dbg dh_strip debug symbol extraction: packages to act on: libncbi6 libncbi6-dev libncbi6-dbg ncbi-tools-bin ncbi-tools-x11 blast2 libvibrant6b libvibrant6-dev libvibrant6b-dbg dh_strip debug symbol extraction: ignored packages: libvibrant6b libncbi6 Using buildid for compat level >= 9 libncbi6-dev has no unstripped objects, ignoring find: `/«PKGBUILDDIR»/debian/libncbi6-dev-dbgsym': No such file or directory dpkg-gencontrol: warning: -is is deprecated; it is without effect dpkg-gencontrol: warning: -ip is deprecated; it is without effect dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe /usr/bin/pkg_create_dbgsym: deferring build of .ddeb to dh_gencontrol Using buildid for compat level >= 9 we have -dbg package(s), not installing anything into ddeb find: `/«PKGBUILDDIR»/debian/ncbi-tools-bin-dbgsym': No such file or directory dpkg-gencontrol: warning: -is is deprecated; it is without effect dpkg-gencontrol: warning: -ip is deprecated; it is without effect dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe /usr/bin/pkg_create_dbgsym: deferring build of .ddeb to dh_gencontrol Using buildid for compat level >= 9 we have -dbg package(s), not installing anything into ddeb find: `/«PKGBUILDDIR»/debian/ncbi-tools-x11-dbgsym': No such file or directory dpkg-gencontrol: warning: -is is deprecated; it is without effect dpkg-gencontrol: warning: -ip is deprecated; it is without effect dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe /usr/bin/pkg_create_dbgsym: deferring build of .ddeb to dh_gencontrol Using buildid for compat level >= 9 we have -dbg package(s), not installing anything into ddeb find: `/«PKGBUILDDIR»/debian/blast2-dbgsym': No such file or directory dpkg-gencontrol: warning: -is is deprecated; it is without effect dpkg-gencontrol: warning: -ip is deprecated; it is without effect dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe /usr/bin/pkg_create_dbgsym: deferring build of .ddeb to dh_gencontrol Using buildid for compat level >= 9 libvibrant6-dev has no unstripped objects, ignoring find: `/«PKGBUILDDIR»/debian/libvibrant6-dev-dbgsym': No such file or directory dpkg-gencontrol: warning: -is is deprecated; it is without effect dpkg-gencontrol: warning: -ip is deprecated; it is without effect dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe /usr/bin/pkg_create_dbgsym: deferring build of .ddeb to dh_gencontrol make[1]: Leaving directory '/«PKGBUILDDIR»' dh_strip -Nlibncbi6 -Nlibncbi6-dev -Nlibncbi6-dbg -Nncbi-tools-bin -Nncbi-tools-x11 -Nblast2 -Nlibvibrant6b -Nlibvibrant6-dev -Nlibvibrant6b-dbg dh_strip debug symbol extraction: enabling -a due to Build-Debug-Symbols: yes in /CurrentlyBuilding dh_strip debug symbol extraction: all non-arch-all packages for this build platform amd64: libncbi6 libncbi6-dev libncbi6-dbg ncbi-tools-bin ncbi-tools-x11 blast2 libvibrant6b libvibrant6-dev libvibrant6b-dbg dh_strip debug symbol extraction: packages to act on: libncbi6 libncbi6-dev libncbi6-dbg ncbi-tools-bin ncbi-tools-x11 blast2 libvibrant6b libvibrant6-dev libvibrant6b-dbg dh_strip debug symbol extraction: ignored packages: libvibrant6b-dbg libvibrant6-dev libvibrant6b blast2 ncbi-tools-x11 ncbi-tools-bin libncbi6-dbg libncbi6-dev libncbi6 dh_makeshlibs dh_shlibdeps dh_installdeb debian/rules override_dh_gencontrol-arch make[1]: Entering directory '/«PKGBUILDDIR»' dh_gencontrol -pblast2 -- -v1:2.2.26.20120620-10 dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe dh_gencontrol debug symbol wrapper: all non-arch-all packages for this build platform amd64: libncbi6 libncbi6-dev libncbi6-dbg ncbi-tools-bin ncbi-tools-x11 blast2 libvibrant6b libvibrant6-dev libvibrant6b-dbg dh_gencontrol debug symbol wrapper: packages to act on: blast2 dh_gencontrol debug symbol wrapper: ignored packages: dh_gencontrol debug symbol wrapper: processing package blast2 (pkgdir debian/blast2, ddeb package dir debian/blast2-dbgsym) dh_gencontrol debug symbol wrapper: building blast2-dbgsym_2.2.26.20120620-10_amd64.ddeb dpkg-deb: building package 'blast2-dbgsym' in '../blast2-dbgsym_2.2.26.20120620-10_amd64.ddeb'. dh_gencontrol debug symbol wrapper: dpkg-distaddfile blast2-dbgsym_2.2.26.20120620-10_amd64.ddeb science extra dpkg-distaddfile: warning: File::FcntlLock not available; using flock which is not NFS-safe dh_gencontrol -Nblast2 dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe dh_gencontrol debug symbol wrapper: all non-arch-all packages for this build platform amd64: libncbi6 libncbi6-dev libncbi6-dbg ncbi-tools-bin ncbi-tools-x11 blast2 libvibrant6b libvibrant6-dev libvibrant6b-dbg dh_gencontrol debug symbol wrapper: packages to act on: libncbi6 libncbi6-dev libncbi6-dbg ncbi-tools-bin ncbi-tools-x11 blast2 libvibrant6b libvibrant6-dev libvibrant6b-dbg dh_gencontrol debug symbol wrapper: ignored packages: blast2 dh_gencontrol debug symbol wrapper: processing package libncbi6 (pkgdir debian/libncbi6, ddeb package dir debian/libncbi6-dbgsym) dh_gencontrol debug symbol wrapper: building libncbi6-dbgsym_6.1.20120620-10_amd64.ddeb dpkg-deb: building package 'libncbi6-dbgsym' in '../libncbi6-dbgsym_6.1.20120620-10_amd64.ddeb'. dh_gencontrol debug symbol wrapper: dpkg-distaddfile libncbi6-dbgsym_6.1.20120620-10_amd64.ddeb libs extra dpkg-distaddfile: warning: File::FcntlLock not available; using flock which is not NFS-safe dh_gencontrol debug symbol wrapper: processing package libncbi6-dev (pkgdir debian/libncbi6-dev, ddeb package dir debian/libncbi6-dev-dbgsym) dh_gencontrol debug symbol wrapper: building libncbi6-dev-dbgsym_6.1.20120620-10_amd64.ddeb dpkg-deb: building package 'libncbi6-dev-dbgsym' in '../libncbi6-dev-dbgsym_6.1.20120620-10_amd64.ddeb'. dh_gencontrol debug symbol wrapper: dpkg-distaddfile libncbi6-dev-dbgsym_6.1.20120620-10_amd64.ddeb libdevel extra dpkg-distaddfile: warning: File::FcntlLock not available; using flock which is not NFS-safe dh_gencontrol debug symbol wrapper: processing package ncbi-tools-bin (pkgdir debian/ncbi-tools-bin, ddeb package dir debian/ncbi-tools-bin-dbgsym) dh_gencontrol debug symbol wrapper: building ncbi-tools-bin-dbgsym_6.1.20120620-10_amd64.ddeb dpkg-deb: building package 'ncbi-tools-bin-dbgsym' in '../ncbi-tools-bin-dbgsym_6.1.20120620-10_amd64.ddeb'. dh_gencontrol debug symbol wrapper: dpkg-distaddfile ncbi-tools-bin-dbgsym_6.1.20120620-10_amd64.ddeb science extra dpkg-distaddfile: warning: File::FcntlLock not available; using flock which is not NFS-safe dh_gencontrol debug symbol wrapper: processing package ncbi-tools-x11 (pkgdir debian/ncbi-tools-x11, ddeb package dir debian/ncbi-tools-x11-dbgsym) dh_gencontrol debug symbol wrapper: building ncbi-tools-x11-dbgsym_6.1.20120620-10_amd64.ddeb dpkg-deb: building package 'ncbi-tools-x11-dbgsym' in '../ncbi-tools-x11-dbgsym_6.1.20120620-10_amd64.ddeb'. dh_gencontrol debug symbol wrapper: dpkg-distaddfile ncbi-tools-x11-dbgsym_6.1.20120620-10_amd64.ddeb science extra dpkg-distaddfile: warning: File::FcntlLock not available; using flock which is not NFS-safe dh_gencontrol debug symbol wrapper: processing package libvibrant6b (pkgdir debian/libvibrant6b, ddeb package dir debian/libvibrant6b-dbgsym) dh_gencontrol debug symbol wrapper: building libvibrant6b-dbgsym_6.1.20120620-10_amd64.ddeb dpkg-deb: building package 'libvibrant6b-dbgsym' in '../libvibrant6b-dbgsym_6.1.20120620-10_amd64.ddeb'. dh_gencontrol debug symbol wrapper: dpkg-distaddfile libvibrant6b-dbgsym_6.1.20120620-10_amd64.ddeb libs extra dpkg-distaddfile: warning: File::FcntlLock not available; using flock which is not NFS-safe dh_gencontrol debug symbol wrapper: processing package libvibrant6-dev (pkgdir debian/libvibrant6-dev, ddeb package dir debian/libvibrant6-dev-dbgsym) dh_gencontrol debug symbol wrapper: building libvibrant6-dev-dbgsym_6.1.20120620-10_amd64.ddeb dpkg-deb: building package 'libvibrant6-dev-dbgsym' in '../libvibrant6-dev-dbgsym_6.1.20120620-10_amd64.ddeb'. dh_gencontrol debug symbol wrapper: dpkg-distaddfile libvibrant6-dev-dbgsym_6.1.20120620-10_amd64.ddeb libdevel extra dpkg-distaddfile: warning: File::FcntlLock not available; using flock which is not NFS-safe make[1]: Leaving directory '/«PKGBUILDDIR»' dh_gencontrol -Nlibncbi6 -Nlibncbi6-dev -Nlibncbi6-dbg -Nncbi-tools-bin -Nncbi-tools-x11 -Nblast2 -Nlibvibrant6b -Nlibvibrant6-dev -Nlibvibrant6b-dbg dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe dh_gencontrol debug symbol wrapper: all non-arch-all packages for this build platform amd64: libncbi6 libncbi6-dev libncbi6-dbg ncbi-tools-bin ncbi-tools-x11 blast2 libvibrant6b libvibrant6-dev libvibrant6b-dbg dh_gencontrol debug symbol wrapper: packages to act on: libncbi6 libncbi6-dev libncbi6-dbg ncbi-tools-bin ncbi-tools-x11 blast2 libvibrant6b libvibrant6-dev libvibrant6b-dbg dh_gencontrol debug symbol wrapper: ignored packages: libvibrant6b-dbg libvibrant6-dev libvibrant6b blast2 ncbi-tools-x11 ncbi-tools-bin libncbi6-dbg libncbi6-dev libncbi6 dh_md5sums debian/rules override_dh_builddeb make[1]: Entering directory '/«PKGBUILDDIR»' dh_builddeb -pncbi-rrna-data -- -Zxz -z7 -Sextreme INFO: pkgstriptranslations version 125 pkgstriptranslations: processing ncbi-rrna-data (in debian/ncbi-rrna-data); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/ncbi-rrna-data/DEBIAN/control, package ncbi-rrna-data, directory debian/ncbi-rrna-data .. removing usr/share/doc/ncbi-rrna-data/changelog.gz DEBUG: wait ncbi-rrna-data 1:ncbi-rrna-data Searching for duplicated docs in dependency ncbi-data... symlinking changelog.Debian.gz in ncbi-rrna-data to file in ncbi-data DEBUG: clear ncbi-rrna-data 1:ncbi-rrna-data DEBUG: done ncbi-rrna-data pkgstripfiles: Running PNG optimization (using 4 cpus) for package ncbi-rrna-data ... pkgstripfiles: No PNG files. dpkg-deb: building package 'ncbi-rrna-data' in '../ncbi-rrna-data_6.1.20120620-10_all.deb'. dh_builddeb -Nncbi-rrna-data INFO: pkgstriptranslations version 125 INFO: pkgstriptranslations version 125 INFO: pkgstriptranslations version 125 INFO: pkgstriptranslations version 125 pkgstriptranslations: processing libncbi6-dbg (in debian/libncbi6-dbg); do_strip: , oemstrip: pkgstriptranslations: processing ncbi-data (in debian/ncbi-data); do_strip: , oemstrip: pkgstriptranslations: processing libncbi6 (in debian/libncbi6); do_strip: , oemstrip: pkgstriptranslations: processing libncbi6-dev (in debian/libncbi6-dev); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/ncbi-data/DEBIAN/control, package ncbi-data, directory debian/ncbi-data .. removing usr/share/doc/ncbi-data/changelog.gz pkgstripfiles: processing control file: debian/libncbi6-dev/DEBIAN/control, package libncbi6-dev, directory debian/libncbi6-dev DEBUG: wait ncbi-data 4:ncbi-data pkgstripfiles: processing control file: debian/libncbi6-dbg/DEBIAN/control, package libncbi6-dbg, directory debian/libncbi6-dbg INFO: pkgstripfiles: waiting for lock (ncbi-data) ... .. removing usr/share/doc/libncbi6-dev/changelog.gz .. removing usr/share/doc/libncbi6-dbg/changelog.gz DEBUG: wait libncbi6-dbg 3:libncbi6-dbg DEBUG: wait libncbi6-dev 2:libncbi6-dev INFO: pkgstripfiles: waiting for lock (libncbi6-dbg) ... INFO: pkgstripfiles: waiting for lock (libncbi6-dev) ... pkgstripfiles: processing control file: debian/libncbi6/DEBIAN/control, package libncbi6, directory debian/libncbi6 .. removing usr/share/doc/libncbi6/changelog.gz DEBUG: wait libncbi6 1:libncbi6 Skipping arch: any to arch: all dependency to ncbi-data DEBUG: clear libncbi6 1:libncbi6 DEBUG: done libncbi6 pkgstripfiles: Truncating usr/share/doc/libncbi6/changelog.Debian.gz to topmost ten records pkgstripfiles: Running PNG optimization (using 4 cpus) for package libncbi6 ... pkgstripfiles: No PNG files. dpkg-deb: building package 'libncbi6' in '../libncbi6_6.1.20120620-10_amd64.deb'. DEBUG: loop ncbi-data 3:ncbi-data INFO: pkgstripfiles: waiting for lock (ncbi-data) ... DEBUG: loop libncbi6-dbg 2:libncbi6-dbg INFO: pkgstripfiles: waiting for lock (libncbi6-dbg) ... DEBUG: loop libncbi6-dev 1:libncbi6-dev Searching for duplicated docs in dependency libncbi6... symlinking changelog.Debian.gz in libncbi6-dev to file in libncbi6 DEBUG: clear libncbi6-dev 1:libncbi6-dev DEBUG: done libncbi6-dev pkgstripfiles: Running PNG optimization (using 4 cpus) for package libncbi6-dev ... pkgstripfiles: No PNG files. dpkg-deb: building package 'libncbi6-dev' in '../libncbi6-dev_6.1.20120620-10_amd64.deb'. DEBUG: loop ncbi-data 2:ncbi-data INFO: pkgstripfiles: waiting for lock (ncbi-data) ... DEBUG: loop libncbi6-dbg 1:libncbi6-dbg Searching for duplicated docs in dependency libncbi6... symlinking changelog.Debian.gz in libncbi6-dbg to file in libncbi6 DEBUG: clear libncbi6-dbg 1:libncbi6-dbg DEBUG: done libncbi6-dbg pkgstripfiles: Running PNG optimization (using 4 cpus) for package libncbi6-dbg ... pkgstripfiles: No PNG files. dpkg-deb: building package 'libncbi6-dbg' in '../libncbi6-dbg_6.1.20120620-10_amd64.deb'. DEBUG: loop ncbi-data 1:ncbi-data DEBUG: clear ncbi-data 1:ncbi-data DEBUG: done ncbi-data pkgstripfiles: Truncating usr/share/doc/ncbi-data/changelog.Debian.gz to topmost ten records pkgstripfiles: Running PNG optimization (using 4 cpus) for package ncbi-data ... oooo pkgstripfiles: PNG optimization (4/4) for package ncbi-data took 3 s dpkg-deb: building package 'ncbi-data' in '../ncbi-data_6.1.20120620-10_all.deb'. INFO: pkgstriptranslations version 125 pkgstriptranslations: processing ncbi-tools-bin (in debian/ncbi-tools-bin); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/ncbi-tools-bin/DEBIAN/control, package ncbi-tools-bin, directory debian/ncbi-tools-bin .. removing usr/share/doc/ncbi-tools-bin/changelog.gz DEBUG: wait ncbi-tools-bin 1:ncbi-tools-bin Searching for duplicated docs in dependency libncbi6... symlinking changelog.Debian.gz in ncbi-tools-bin to file in libncbi6 Searching for duplicated docs in dependency libncbi6... DEBUG: clear ncbi-tools-bin 1:ncbi-tools-bin DEBUG: done ncbi-tools-bin pkgstripfiles: Running PNG optimization (using 4 cpus) for package ncbi-tools-bin ... pkgstripfiles: No PNG files. dpkg-deb: building package 'ncbi-tools-bin' in '../ncbi-tools-bin_6.1.20120620-10_amd64.deb'. INFO: pkgstriptranslations version 125 INFO: pkgstriptranslations version 125 pkgstriptranslations: processing ncbi-tools-x11 (in debian/ncbi-tools-x11); do_strip: , oemstrip: debian/ncbi-tools-x11/usr/share/applications/Psequin.desktop: does not have gettext domain, not stripping debian/ncbi-tools-x11/usr/share/applications/udv.desktop: does not have gettext domain, not stripping debian/ncbi-tools-x11/usr/share/applications/sbtedit.desktop: does not have gettext domain, not stripping debian/ncbi-tools-x11/usr/share/applications/ddv.desktop: does not have gettext domain, not stripping debian/ncbi-tools-x11/usr/share/applications/entrez2.desktop: does not have gettext domain, not stripping debian/ncbi-tools-x11/usr/share/applications/Cn3D-3.0.desktop: does not have gettext domain, not stripping pkgstriptranslations: processing blast2 (in debian/blast2); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/ncbi-tools-x11/DEBIAN/control, package ncbi-tools-x11, directory debian/ncbi-tools-x11 .. removing usr/share/doc/ncbi-tools-x11/changelog.gz DEBUG: wait ncbi-tools-x11 1:ncbi-tools-x11 Searching for duplicated docs in dependency libncbi6... symlinking changelog.Debian.gz in ncbi-tools-x11 to file in libncbi6 Searching for duplicated docs in dependency libncbi6... Searching for duplicated docs in dependency libvibrant6b... Searching for duplicated docs in dependency libvibrant6b... DEBUG: clear ncbi-tools-x11 1:ncbi-tools-x11 DEBUG: done ncbi-tools-x11 pkgstripfiles: Running PNG optimization (using 4 cpus) for package ncbi-tools-x11 ... pkgstripfiles: processing control file: debian/blast2/DEBIAN/control, package blast2, directory debian/blast2 .. removing usr/share/doc/blast2/changelog.gz DEBUG: wait blast2 1:blast2 Searching for duplicated docs in dependency libncbi6... symlinking changelog.Debian.gz in blast2 to file in libncbi6 Searching for duplicated docs in dependency libncbi6... DEBUG: clear blast2 1:blast2 DEBUG: done blast2 pkgstripfiles: Running PNG optimization (using 4 cpus) for package blast2 ... pkgstripfiles: No PNG files. dpkg-deb: building package 'blast2' in '../blast2_2.2.26.20120620-10_amd64.deb'. INFO: pkgstriptranslations version 125 pkgstriptranslations: processing libvibrant6b (in debian/libvibrant6b); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " opkgstripfiles: processing control file: debian/libvibrant6b/DEBIAN/control, package libvibrant6b, directory debian/libvibrant6b .. removing usr/share/doc/libvibrant6b/changelog.gz DEBUG: wait libvibrant6b 1:libvibrant6b Searching for duplicated docs in dependency libncbi6... symlinking changelog.Debian.gz in libvibrant6b to file in libncbi6 Searching for duplicated docs in dependency libncbi6... DEBUG: clear libvibrant6b 1:libvibrant6b DEBUG: done libvibrant6b pkgstripfiles: Running PNG optimization (using 4 cpus) for package libvibrant6b ... pkgstripfiles: No PNG files. dpkg-deb: building package 'libvibrant6b' in '../libvibrant6b_6.1.20120620-10_amd64.deb'. INFO: pkgstriptranslations version 125 pkgstriptranslations: processing libvibrant6-dev (in debian/libvibrant6-dev); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/libvibrant6-dev/DEBIAN/control, package libvibrant6-dev, directory debian/libvibrant6-dev .. removing usr/share/doc/libvibrant6-dev/changelog.gz DEBUG: wait libvibrant6-dev 1:libvibrant6-dev Searching for duplicated docs in dependency libncbi6-dev... symlinking changelog.Debian.gz in libvibrant6-dev to file in libncbi6 Searching for duplicated docs in dependency libvibrant6b... DEBUG: clear libvibrant6-dev 1:libvibrant6-dev DEBUG: done libvibrant6-dev INFO: pkgstriptranslations version 125 pkgstripfiles: Running PNG optimization (using 4 cpus) for package libvibrant6-dev ... pkgstripfiles: No PNG files. dpkg-deb: building package 'libvibrant6-dev' in '../libvibrant6-dev_6.1.20120620-10_amd64.deb'. pkgstriptranslations: processing libvibrant6b-dbg (in debian/libvibrant6b-dbg); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/libvibrant6b-dbg/DEBIAN/control, package libvibrant6b-dbg, directory debian/libvibrant6b-dbg .. removing usr/share/doc/libvibrant6b-dbg/changelog.gz DEBUG: wait libvibrant6b-dbg 1:libvibrant6b-dbg Searching for duplicated docs in dependency libvibrant6b... symlinking changelog.Debian.gz in libvibrant6b-dbg to file in libncbi6 DEBUG: clear libvibrant6b-dbg 1:libvibrant6b-dbg DEBUG: done libvibrant6b-dbg pkgstripfiles: Running PNG optimization (using 4 cpus) for package libvibrant6b-dbg ... pkgstripfiles: No PNG files. dpkg-deb: building package 'libvibrant6b-dbg' in '../libvibrant6b-dbg_6.1.20120620-10_amd64.deb'. oooooooooooooooooooooooo pkgstripfiles: PNG optimization (25/25) for package ncbi-tools-x11 took 108 s dpkg-deb: building package 'ncbi-tools-x11' in '../ncbi-tools-x11_6.1.20120620-10_amd64.deb'. make[1]: Leaving directory '/«PKGBUILDDIR»' dpkg-genchanges -b -mLaunchpad Build Daemon >../ncbi-tools6_6.1.20120620-10_amd64.changes dpkg-genchanges: binary-only upload (no source code included) dpkg-source --after-build ncbi-tools6-6.1.20120620 dpkg-buildpackage: binary-only upload (no source included) ──────────────────────────────────────────────────────────────────────────────── Build finished at 20151210-1134 Finished ──────── I: Built successfully ┌──────────────────────────────────────────────────────────────────────────────┐ │ Post Build Chroot │ └──────────────────────────────────────────────────────────────────────────────┘ ┌──────────────────────────────────────────────────────────────────────────────┐ │ Changes │ └──────────────────────────────────────────────────────────────────────────────┘ ncbi-tools6_6.1.20120620-10_amd64.changes: ────────────────────────────────────────── Format: 1.8 Date: Thu, 10 Dec 2015 01:19:59 -0500 Source: ncbi-tools6 Binary: libncbi6 libncbi6-dev libncbi6-dbg ncbi-data ncbi-rrna-data ncbi-tools-bin ncbi-tools-x11 blast2 libvibrant6b libvibrant6-dev libvibrant6b-dbg Architecture: amd64 all Version: 6.1.20120620-10 Distribution: xenial-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Aaron M. Ucko Description: blast2 - Basic Local Alignment Search Tool libncbi6 - NCBI libraries for biology applications libncbi6-dbg - NCBI libraries for biology applications (debugging symbols) libncbi6-dev - NCBI libraries for biology applications (development files) libvibrant6-dev - NCBI libraries for graphic biology applications (development file libvibrant6b - NCBI libraries for graphic biology applications libvibrant6b-dbg - NCBI libraries for graphic biology applications (debugging symbol ncbi-data - Platform-independent data for the NCBI toolkit ncbi-rrna-data - large rRNA BLAST databases distributed with the NCBI toolkit ncbi-tools-bin - NCBI libraries for biology applications (text-based utilities) ncbi-tools-x11 - NCBI libraries for biology applications (X-based utilities) Changes: ncbi-tools6 (6.1.20120620-10) unstable; urgency=medium . * debian/rules: chmod +x private scripts in the targets that use them. (Doing so in override_dh_auto_build-arch broke indep-only builds.) Checksums-Sha1: 25e2cf4134a11158e7aa32bd5a7669e86cad1767 1000 blast2-dbgsym_2.2.26.20120620-10_amd64.ddeb 21ffa095f1c7805906696ef2fa4b5ad2274f743f 519606 blast2_2.2.26.20120620-10_amd64.deb 2ec737da022a0c9ec072eda1f74987836f66e7c4 8337866 libncbi6-dbg_6.1.20120620-10_amd64.deb 186bf6a7c7e1f58a3528240326b04699f3fd02d3 934 libncbi6-dbgsym_6.1.20120620-10_amd64.ddeb e1c57ee0fbd7cd6dc3259845187cefc02e3bdbea 874 libncbi6-dev-dbgsym_6.1.20120620-10_amd64.ddeb 6eb93d6ed17501e23ad2780b942062f1b5315b7f 4966414 libncbi6-dev_6.1.20120620-10_amd64.deb a0fbc45eae2e9e6f2c36b3f9c4075f8d7bfb1854 3668212 libncbi6_6.1.20120620-10_amd64.deb 0f052ba457171959f9844401b301fd1f6edb01a3 868 libvibrant6-dev-dbgsym_6.1.20120620-10_amd64.ddeb 221beb3957c7764e0b844836c7d41b035a6d4faa 1508516 libvibrant6-dev_6.1.20120620-10_amd64.deb cdca560b482cb9df009eb09e36fcb062a23c47f4 3337310 libvibrant6b-dbg_6.1.20120620-10_amd64.deb 29b209323f7a36f6ed8c713311169c2d2abc66ee 906 libvibrant6b-dbgsym_6.1.20120620-10_amd64.ddeb 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3cb7edbaf1f2091173877c1db7f1df045df56f4fe9dc69d362654969fbcdc266 934 libncbi6-dbgsym_6.1.20120620-10_amd64.ddeb be115cd0e9472b2674fc014f184475f5f90bf25f1a888161f1cfa277f3bce91f 874 libncbi6-dev-dbgsym_6.1.20120620-10_amd64.ddeb 3ff6abd231d55ee84fda00167ebc130736472164e8f9d85994005211ee839ec1 4966414 libncbi6-dev_6.1.20120620-10_amd64.deb 4945ebb42852949b76735336acbdd5079e98b4074e17b32328983ed32fb7ffc8 3668212 libncbi6_6.1.20120620-10_amd64.deb 1b5dd3f0139e62159d6977808faee58260876ca06c20d3289e27fa23ae71615c 868 libvibrant6-dev-dbgsym_6.1.20120620-10_amd64.ddeb 228d0622cd88ed50c9a87d701731e4662210827c7b1db0134151bca63c32a07c 1508516 libvibrant6-dev_6.1.20120620-10_amd64.deb becc19d5b4bf3dce9061eadf0f99ca52092234beacc956fb0ef7d06cb1e9e331 3337310 libvibrant6b-dbg_6.1.20120620-10_amd64.deb 098deef5fb276fe5e88cb54ca5acac0becc9ab1478dd6eb54c8b97bda1b77f34 906 libvibrant6b-dbgsym_6.1.20120620-10_amd64.ddeb 694cb9d4d049a80b9c113c12c6dc50101fb48565a3e752b02e6e7b523f49e2b0 1220972 libvibrant6b_6.1.20120620-10_amd64.deb a2c6c275040f31f8425b1b1e0d12212e942ade96a91c042e9724055b934d766c 3259616 ncbi-data_6.1.20120620-10_all.deb 971518a67d43b1c8e970c4a4703e33a9ff25d331ba18c85e9df06c03d937c766 16800062 ncbi-rrna-data_6.1.20120620-10_all.deb a72a46e2d390ef9d54d767f14e881c4090c77224ba0f0e08f51a53c883ec3e1c 982 ncbi-tools-bin-dbgsym_6.1.20120620-10_amd64.ddeb 42934d658b4134e59150b070b4bda31fdd843ddd079ae681980e5f60064b4a03 460672 ncbi-tools-bin_6.1.20120620-10_amd64.deb 1fdd6ae8399bf74f21f64861730960ee2bb7fdc6f054cea8850fea7b0edb7fb1 946 ncbi-tools-x11-dbgsym_6.1.20120620-10_amd64.ddeb 785bf585d35615a1c238dd271e88b78d3c27e3cc91cc5e648f0abb83ae719149 1001934 ncbi-tools-x11_6.1.20120620-10_amd64.deb Files: 9412c890b5b4e00518e433c2afd27141 1000 science extra blast2-dbgsym_2.2.26.20120620-10_amd64.ddeb 6f4a4518ff50f8c7d788b7cfb6e659f7 519606 science optional blast2_2.2.26.20120620-10_amd64.deb 37996292c811e6c9a693de822a0d5646 8337866 debug extra libncbi6-dbg_6.1.20120620-10_amd64.deb 0da6d1b74cfdea49eab3d38cd74843d1 934 libs extra libncbi6-dbgsym_6.1.20120620-10_amd64.ddeb b075dfdde260d42f110a73091b3ffbc2 874 libdevel extra libncbi6-dev-dbgsym_6.1.20120620-10_amd64.ddeb f023cb12bd1f1b6788099aa4a4053e92 4966414 libdevel optional libncbi6-dev_6.1.20120620-10_amd64.deb bf789bf152e3f2f9e4d5e45795435cbe 3668212 libs optional libncbi6_6.1.20120620-10_amd64.deb 016ae3daf61dbbc03137ac4e26fd0b0b 868 libdevel extra libvibrant6-dev-dbgsym_6.1.20120620-10_amd64.ddeb 92dc9d97fd8d08b3277d7974176914d9 1508516 libdevel optional libvibrant6-dev_6.1.20120620-10_amd64.deb 057d8909510cda5865dc4b64ba26dc73 3337310 debug extra libvibrant6b-dbg_6.1.20120620-10_amd64.deb 5c64d2686f3fa79b5ac27201787cc446 906 libs extra libvibrant6b-dbgsym_6.1.20120620-10_amd64.ddeb 3534cfe04486d7f6fba3e61429dc818d 1220972 libs optional libvibrant6b_6.1.20120620-10_amd64.deb a2763a9dcf83cce485ba1177838faf8e 3259616 libs optional ncbi-data_6.1.20120620-10_all.deb bb6d3b40c0304281659765c4f24d8e1f 16800062 science optional ncbi-rrna-data_6.1.20120620-10_all.deb b090914d65bf1777aa74f0807251833a 982 science extra ncbi-tools-bin-dbgsym_6.1.20120620-10_amd64.ddeb 773080e68eaca8d622aa471d580f056b 460672 science optional ncbi-tools-bin_6.1.20120620-10_amd64.deb 27f087320a7d9efbe130c1c1786b497c 946 science extra ncbi-tools-x11-dbgsym_6.1.20120620-10_amd64.ddeb 62b0a8ef7eef85db53aa4b1dff555479 1001934 science optional ncbi-tools-x11_6.1.20120620-10_amd64.deb ┌──────────────────────────────────────────────────────────────────────────────┐ │ Package contents │ └──────────────────────────────────────────────────────────────────────────────┘ blast2_2.2.26.20120620-10_amd64.deb ─────────────────────────────────── new debian package, version 2.0. size 519606 bytes: control archive=2313 bytes. 950 bytes, 22 lines control 3037 bytes, 49 lines md5sums 185 bytes, 7 lines * postinst #!/bin/sh 160 bytes, 5 lines * postrm #!/bin/sh Package: blast2 Source: ncbi-tools6 (6.1.20120620-10) Version: 1:2.2.26.20120620-10 Architecture: amd64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 1261 Depends: libncbi6 (<< 6.1.20120620.1), libncbi6 (>= 6.1.20120620), libc6 (>= 2.14) Suggests: libvibrant6b, ncbi-rrna-data, ncbi-tools-bin, ncbi-tools-x11 Conflicts: ncbi-blast Section: science Priority: optional Multi-Arch: foreign Homepage: http://www.ncbi.nih.gov/BLAST/ Description: Basic Local Alignment Search Tool The famous sequence alignment program. This is "official" NCBI version, #2. The blastall executable allows you to give a nucleotide or protein sequence to the program. It is compared against databases and a summary of matches is returned to the user. . Note that databases are not included in Debian; they must be retrieved manually. drwxr-xr-x root/root 0 2015-12-10 11:30 ./ drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/ drwxr-xr-x root/root 0 2015-12-10 11:30 ./usr/bin/ -rwxr-xr-x root/root 28232 2015-12-10 11:30 ./usr/bin/bl2seq -rwxr-xr-x root/root 41736 2015-12-10 11:30 ./usr/bin/blast2 -rwxr-xr-x root/root 62088 2015-12-10 11:30 ./usr/bin/blastall -rwxr-xr-x root/root 49736 2015-12-10 11:30 ./usr/bin/blastall_old -rwxr-xr-x root/root 49672 2015-12-10 11:30 ./usr/bin/blastcl3 -rwxr-xr-x root/root 39816 2015-12-10 11:30 ./usr/bin/blastclust -rwxr-xr-x root/root 53960 2015-12-10 11:30 ./usr/bin/blastpgp -rwxr-xr-x root/root 18632 2015-12-10 11:30 ./usr/bin/copymat -rwxr-xr-x root/root 11080 2015-12-10 11:30 ./usr/bin/fastacmd -rwxr-xr-x root/root 23432 2015-12-10 11:30 ./usr/bin/formatdb -rwxr-xr-x root/root 27272 2015-12-10 11:30 ./usr/bin/formatrpsdb -rwxr-xr-x root/root 36104 2015-12-10 11:30 ./usr/bin/impala -rwxr-xr-x root/root 18824 2015-12-10 11:30 ./usr/bin/makemat -rwxr-xr-x root/root 57864 2015-12-10 11:30 ./usr/bin/megablast -rwxr-xr-x root/root 32136 2015-12-10 11:30 ./usr/bin/rpsblast -rwxr-xr-x root/root 31944 2015-12-10 11:30 ./usr/bin/seedtop -rwxr-xr-x root/root 10376 2015-12-10 11:30 ./usr/bin/taxblast drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/share/ drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/share/doc-base/ -rw-r--r-- root/root 616 2015-12-10 11:15 ./usr/share/doc-base/blast2 drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/share/doc/ drwxr-xr-x root/root 0 2015-12-10 11:32 ./usr/share/doc/blast2/ lrwxrwxrwx root/root 0 2015-12-10 11:29 ./usr/share/doc/blast2/README.gz -> changelog.gz -rw-r--r-- root/root 1829 2004-05-17 15:07 ./usr/share/doc/blast2/bl2seq.html -rw-r--r-- root/root 12158 2010-03-26 14:52 ./usr/share/doc/blast2/blast.html -rw-r--r-- root/root 4898 2009-08-11 14:43 ./usr/share/doc/blast2/blastall.html -rw-r--r-- root/root 8338 2005-08-24 15:20 ./usr/share/doc/blast2/blastclust.html -rw-r--r-- root/root 16243 2008-10-02 16:01 ./usr/share/doc/blast2/blastdb.html -rw-r--r-- root/root 25538 2006-03-02 15:40 ./usr/share/doc/blast2/blastftp.html -rw-r--r-- root/root 23272 2004-07-19 17:20 ./usr/share/doc/blast2/blastpgp.html lrwxrwxrwx root/root 0 2015-12-10 11:32 ./usr/share/doc/blast2/changelog.Debian.gz -> ../libncbi6/changelog.Debian.gz -rw-r--r-- root/root 1623 2015-12-10 11:15 ./usr/share/doc/blast2/copyright drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/share/doc/blast2/examples/ -rw-r--r-- root/root 1885 2009-01-12 18:48 ./usr/share/doc/blast2/examples/web_blast.pl.gz -rw-r--r-- root/root 5664 2007-01-04 17:27 ./usr/share/doc/blast2/fastacmd.html -rw-r--r-- root/root 2379 2004-05-17 15:07 ./usr/share/doc/blast2/filter.html -rw-r--r-- root/root 30660 2006-08-14 14:39 ./usr/share/doc/blast2/formatdb.html -rw-r--r-- root/root 9267 2004-10-12 15:33 ./usr/share/doc/blast2/formatrpsdb.html -rw-r--r-- root/root 30073 2004-10-26 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Depends: libncbi6 (= 6.1.20120620-10) Recommends: gdb Section: debug Priority: extra Multi-Arch: same Homepage: http://www.ncbi.nlm.nih.gov/IEB/ToolBox/ Description: NCBI libraries for biology applications (debugging symbols) This package is useful to provide a backtrace with symbol names in a debugger; this facilitates interpretation of core dumps, and aids in finding logic errors in programs using the libraries in this package (or the libraries themselves). . Non-programmers will likely have little use for this package. See the libncbi6 package for more information. 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files) This package supplies development versions of NCBI's non-graphical C libraries, along with the corresponding header files. drwxr-xr-x root/root 0 2015-12-10 11:30 ./ drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/ drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/include/ drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/include/ncbi/ -rw-r--r-- root/root 6100 2001-05-25 01:42 ./usr/include/ncbi/PubStructAsn.h -rw-r--r-- root/root 2122 2000-01-18 19:42 ./usr/include/ncbi/a2ferr.h -rw-r--r-- root/root 894 1997-08-25 18:04 ./usr/include/ncbi/a2ferrdf.h -rw-r--r-- root/root 7162 1997-08-25 18:04 ./usr/include/ncbi/a2fstruc.h -rw-r--r-- root/root 17078 2000-01-12 20:17 ./usr/include/ncbi/accentr.h -rw-r--r-- root/root 1560 1999-03-16 22:47 ./usr/include/ncbi/accid1.h -rw-r--r-- root/root 6923 1999-04-01 13:56 ./usr/include/ncbi/accutils.h -rw-r--r-- root/root 3913 2008-12-02 16:16 ./usr/include/ncbi/acerdapi.h -rw-r--r-- root/root 11450 2010-08-30 12:39 ./usr/include/ncbi/aceread.h 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production and distribution of GenBank, Entrez, BLAST, and related services by NCBI. 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libvibrant6b (= 6.1.20120620-10) Recommends: gdb Suggests: libncbi6-dbg (= 6.1.20120620-10) Section: debug Priority: extra Multi-Arch: same Homepage: http://www.ncbi.nlm.nih.gov/IEB/ToolBox/ Description: NCBI libraries for graphic biology applications (debugging symbols) This package is useful to provide a backtrace with symbol names in a debugger; this facilitates interpretation of core dumps, and aids in finding logic errors in programs using the libraries in this package (or the libraries themselves). . Non-programmers will likely have little use for this package. See the libvibrant6b package for more information. Build-Ids: 428e44a25cfc6500aa218398979f4bbd23e98074 57066e3212ada325e4dec362b2b16686f0d0eadf 5fb581593bd39ce9461315aa20ab98fd02e0c2bf a7ea36c5aacf1cb0ce2de09e69dd7d95834db6b3 cf10f15642a510e6b3208667704197ca4427eeee drwxr-xr-x root/root 0 2015-12-10 11:30 ./ drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/ drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/lib/ drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/lib/debug/ drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/lib/debug/.build-id/42/ -rw-r--r-- root/root 134144 2015-12-10 11:29 ./usr/lib/debug/.build-id/42/8e44a25cfc6500aa218398979f4bbd23e98074.debug drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/lib/debug/.build-id/57/ -rw-r--r-- root/root 138344 2015-12-10 11:29 ./usr/lib/debug/.build-id/57/066e3212ada325e4dec362b2b16686f0d0eadf.debug drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/lib/debug/.build-id/5f/ -rw-r--r-- root/root 2468152 2015-12-10 11:29 ./usr/lib/debug/.build-id/5f/b581593bd39ce9461315aa20ab98fd02e0c2bf.debug drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/lib/debug/.build-id/a7/ -rw-r--r-- root/root 747320 2015-12-10 11:29 ./usr/lib/debug/.build-id/a7/ea36c5aacf1cb0ce2de09e69dd7d95834db6b3.debug drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/lib/debug/.build-id/cf/ -rw-r--r-- root/root 215640 2015-12-10 11:29 ./usr/lib/debug/.build-id/cf/10f15642a510e6b3208667704197ca4427eeee.debug drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/share/ drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/share/doc/ drwxr-xr-x root/root 0 2015-12-10 11:32 ./usr/share/doc/libvibrant6b-dbg/ lrwxrwxrwx root/root 0 2015-12-10 11:29 ./usr/share/doc/libvibrant6b-dbg/README.gz -> changelog.gz lrwxrwxrwx root/root 0 2015-12-10 11:32 ./usr/share/doc/libvibrant6b-dbg/changelog.Debian.gz -> ../libncbi6/changelog.Debian.gz -rw-r--r-- root/root 1623 2015-12-10 11:15 ./usr/share/doc/libvibrant6b-dbg/copyright libvibrant6b_6.1.20120620-10_amd64.deb ────────────────────────────────────── new debian package, version 2.0. size 1220972 bytes: control archive=17351 bytes. 900 bytes, 18 lines control 582 bytes, 7 lines md5sums 136 bytes, 5 lines shlibs 90901 bytes, 2449 lines symbols 60 bytes, 2 lines triggers Package: libvibrant6b Source: ncbi-tools6 Version: 6.1.20120620-10 Architecture: amd64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 3364 Depends: libncbi6 (<< 6.1.20120620.1), libncbi6 (>= 6.1.20120620), libc6 (>= 2.14), libgl1-mesa-glx | libgl1, libglu1-mesa | libglu1, libpng12-0 (>= 1.2.13-4), libx11-6, libxm4 (>= 2.3.4), libxmu6, libxt6 Conflicts: libvibrant6, libvibrant6a Replaces: libvibrant6, libvibrant6a Section: libs Priority: optional Multi-Arch: same Homepage: http://www.ncbi.nlm.nih.gov/IEB/ToolBox/ Description: NCBI libraries for graphic biology applications This is the library for those who just want to run Vibrant applications. It also includes a wrapper (vibrate) that allows many NCBI applications to provide a GUI for selecting options. drwxr-xr-x root/root 0 2015-12-10 11:30 ./ drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/ drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/lib/ drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/lib/x86_64-linux-gnu/ lrwxrwxrwx root/root 0 2015-12-10 11:29 ./usr/lib/x86_64-linux-gnu/libddvlib.so.6 -> libddvlib.so.6.1.20120620 -rw-r--r-- root/root 108720 2015-12-10 11:29 ./usr/lib/x86_64-linux-gnu/libddvlib.so.6.1.20120620 lrwxrwxrwx root/root 0 2015-12-10 11:29 ./usr/lib/x86_64-linux-gnu/libncbicn3d.so.6 -> libncbicn3dOGL.so.6 lrwxrwxrwx root/root 0 2015-12-10 11:29 ./usr/lib/x86_64-linux-gnu/libncbicn3dOGL.so.6 -> libncbicn3dOGL.so.6.1.20120620 -rw-r--r-- root/root 171952 2015-12-10 11:29 ./usr/lib/x86_64-linux-gnu/libncbicn3dOGL.so.6.1.20120620 lrwxrwxrwx root/root 0 2015-12-10 11:29 ./usr/lib/x86_64-linux-gnu/libncbidesk.so.6 -> libncbidesk.so.6.1.20120620 -rw-r--r-- root/root 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../libncbi6/changelog.Debian.gz -rw-r--r-- root/root 1623 2015-12-10 11:15 ./usr/share/doc/libvibrant6b/copyright drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/share/lintian/ drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 48 2015-12-10 11:15 ./usr/share/lintian/overrides/libvibrant6b ncbi-data_6.1.20120620-10_all.deb ───────────────────────────────── new debian package, version 2.0. size 3259616 bytes: control archive=3187 bytes. 40 bytes, 2 lines conffiles 515 bytes, 14 lines control 6176 bytes, 90 lines md5sums Package: ncbi-data Source: ncbi-tools6 Version: 6.1.20120620-10 Architecture: all Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 23046 Section: libs Priority: optional Multi-Arch: foreign Homepage: http://www.ncbi.nlm.nih.gov/IEB/ToolBox/ Description: Platform-independent data for the NCBI toolkit This package contains support files needed by the NCBI toolkit on all platforms. drwxr-xr-x 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Packaging Team Installed-Size: 131420 Pre-Depends: dpkg (>= 1.15.6) Depends: ncbi-data Recommends: blast2 Replaces: ncbi-data (= 6.1.20081116a-1) Section: science Priority: optional Multi-Arch: foreign Homepage: http://www.ncbi.nlm.nih.gov/IEB/ToolBox/ Description: large rRNA BLAST databases distributed with the NCBI toolkit This package contains some ribosomal RNA BLAST databases distributed as part of the NCBI C Toolkit that are too large and specialized to include in ncbi-data. Specifically, it contains the databases Combined16SrRNA_2-12-2008, LSURef_93.fasta, and SSURef_93.fasta, along with an alias file to facilitate searching all three of them in conjunction with the 16SCore database included in ncbi-data. drwxr-xr-x root/root 0 2015-12-10 11:30 ./ drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/ drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/share/ drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/share/doc/ drwxr-xr-x root/root 0 2015-12-10 11:30 ./usr/share/doc/ncbi-rrna-data/ lrwxrwxrwx root/root 0 2015-12-10 11:29 ./usr/share/doc/ncbi-rrna-data/README.gz -> changelog.gz lrwxrwxrwx root/root 0 2015-12-10 11:30 ./usr/share/doc/ncbi-rrna-data/changelog.Debian.gz -> ../ncbi-data/changelog.Debian.gz -rw-r--r-- root/root 1623 2015-12-10 11:15 ./usr/share/doc/ncbi-rrna-data/copyright drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/share/ncbi/ drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/share/ncbi/data/ -rw-r--r-- root/root 843124 2015-12-10 11:29 ./usr/share/ncbi/data/Combined16SrRNA_2-12-2008.nhr -rw-r--r-- root/root 68264 2015-12-10 11:29 ./usr/share/ncbi/data/Combined16SrRNA_2-12-2008.nin -rw-r--r-- root/root 2156022 2015-12-10 11:29 ./usr/share/ncbi/data/Combined16SrRNA_2-12-2008.nsq -rw-r--r-- root/root 1634928 2015-12-10 11:29 ./usr/share/ncbi/data/LSURef_93.fasta.nhr -rw-r--r-- root/root 121600 2015-12-10 11:29 ./usr/share/ncbi/data/LSURef_93.fasta.nin -rw-r--r-- root/root 7333878 2015-12-10 11:29 ./usr/share/ncbi/data/LSURef_93.fasta.nsq -rw-r--r-- root/root 36461253 2015-12-10 11:29 ./usr/share/ncbi/data/SSURef_93.fasta.nhr -rw-r--r-- root/root 2698592 2015-12-10 11:29 ./usr/share/ncbi/data/SSURef_93.fasta.nin -rw-r--r-- root/root 83206522 2015-12-10 11:29 ./usr/share/ncbi/data/SSURef_93.fasta.nsq -rw-r--r-- root/root 210 2015-12-10 11:29 ./usr/share/ncbi/data/rRNA_blast.nal ncbi-tools-bin_6.1.20120620-10_amd64.deb ──────────────────────────────────────── new debian package, version 2.0. size 460672 bytes: control archive=3279 bytes. 1006 bytes, 21 lines control 5126 bytes, 83 lines md5sums 185 bytes, 7 lines * postinst #!/bin/sh 160 bytes, 5 lines * postrm #!/bin/sh Package: ncbi-tools-bin Source: ncbi-tools6 Version: 6.1.20120620-10 Architecture: amd64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 2108 Depends: libncbi6 (<< 6.1.20120620.1), libncbi6 (>= 6.1.20120620), libc6 (>= 2.14) Suggests: blast2, libvibrant6b, ncbi-tools-x11 Breaks: libncbi6-dev (<< 6.1.20110713-3~) Replaces: libncbi6-dev (<< 6.1.20110713-3~) Section: science Priority: optional Multi-Arch: foreign Homepage: http://www.ncbi.nlm.nih.gov/IEB/ToolBox/ Description: NCBI libraries for biology applications (text-based utilities) This package includes various utilities distributed with the NCBI C SDK, including the development tools asntool and errhdr (formerly of libncbi6-dev). None of the programs in this package require X; you can find the X-based utilities in the ncbi-tools-x11 package. BLAST and related tools are in a separate package (blast2). drwxr-xr-x root/root 0 2015-12-10 11:30 ./ drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/ drwxr-xr-x root/root 0 2015-12-10 11:30 ./usr/bin/ -rwxr-xr-x root/root 52640 2015-12-10 11:30 ./usr/bin/asn2all -rwxr-xr-x root/root 10568 2015-12-10 11:30 ./usr/bin/asn2asn -rwxr-xr-x root/root 20168 2015-12-10 11:30 ./usr/bin/asn2ff -rwxr-xr-x root/root 44624 2015-12-10 11:30 ./usr/bin/asn2fsa -rwxr-xr-x root/root 40352 2015-12-10 11:30 ./usr/bin/asn2gb -rwxr-xr-x root/root 10576 2015-12-10 11:30 ./usr/bin/asn2idx -rwxr-xr-x root/root 10504 2015-12-10 11:30 ./usr/bin/asn2xml -rwxr-xr-x root/root 14344 2015-12-10 11:30 ./usr/bin/asndhuff -rwxr-xr-x root/root 44752 2015-12-10 11:30 ./usr/bin/asndisc -rwxr-xr-x root/root 18960 2015-12-10 11:30 ./usr/bin/asnmacro -rwxr-xr-x root/root 306912 2015-12-10 11:30 ./usr/bin/asntool -rwxr-xr-x root/root 57632 2015-12-10 11:30 ./usr/bin/asnval -rwxr-xr-x root/root 10392 2015-12-10 11:30 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./usr/share/menu/ -rw-r--r-- root/root 6710 2015-12-10 11:29 ./usr/share/menu/ncbi-tools-bin ncbi-tools-x11_6.1.20120620-10_amd64.deb ──────────────────────────────────────── new debian package, version 2.0. size 1001934 bytes: control archive=2370 bytes. 868 bytes, 18 lines control 3910 bytes, 53 lines md5sums 194 bytes, 8 lines * postinst #!/bin/sh 68 bytes, 5 lines * prerm #!/bin/sh Package: ncbi-tools-x11 Source: ncbi-tools6 Version: 6.1.20120620-10 Architecture: amd64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 2762 Depends: libncbi6 (<< 6.1.20120620.1), libncbi6 (>= 6.1.20120620), libvibrant6b (<< 6.1.20120620.1), libvibrant6b (>= 6.1.20120620), libc6 (>= 2.4) Suggests: blast2, ncbi-tools-bin Section: science Priority: optional Multi-Arch: foreign Homepage: http://www.ncbi.nlm.nih.gov/IEB/ToolBox/ Description: NCBI libraries for biology applications (X-based utilities) This package includes some X-based utilities distributed with the NCBI C SDK: Cn3D, Network Entrez, Sequin, ddv, and udv. These programs are not part of ncbi-tools-bin because they depend on several additional library packages. drwxr-xr-x root/root 0 2015-12-10 11:30 ./ drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/ drwxr-xr-x root/root 0 2015-12-10 11:30 ./usr/bin/ -rwxr-xr-x root/root 14200 2015-12-10 11:30 ./usr/bin/Cn3D-3.0 -rwxr-xr-x root/root 2269000 2015-12-10 11:30 ./usr/bin/Psequin -rwxr-xr-x root/root 14344 2015-12-10 11:30 ./usr/bin/ddv lrwxrwxrwx root/root 0 2015-12-10 11:29 ./usr/bin/entrez -> entrez2 -rwxr-xr-x root/root 26488 2015-12-10 11:30 ./usr/bin/entrez2 -rwxr-xr-x root/root 34688 2015-12-10 11:30 ./usr/bin/sbtedit lrwxrwxrwx root/root 0 2015-12-10 11:29 ./usr/bin/sequin -> Psequin -rwxr-xr-x root/root 14216 2015-12-10 11:30 ./usr/bin/udv drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/lib/ drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/lib/mime/ drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/lib/mime/packages/ -rw-r--r-- root/root 158 2015-12-10 11:15 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lrwxrwxrwx root/root 0 2015-12-10 11:29 ./usr/share/doc/ncbi-tools-x11/README.gz -> changelog.gz -rw-r--r-- root/root 2123 2015-12-10 11:29 ./usr/share/doc/ncbi-tools-x11/README.sequin.gz lrwxrwxrwx root/root 0 2015-12-10 11:32 ./usr/share/doc/ncbi-tools-x11/changelog.Debian.gz -> ../libncbi6/changelog.Debian.gz -rw-r--r-- root/root 1623 2015-12-10 11:15 ./usr/share/doc/ncbi-tools-x11/copyright -rw-r--r-- root/root 3658 1999-11-01 22:01 ./usr/share/doc/ncbi-tools-x11/firedialog.gif -rw-r--r-- root/root 8922 2015-12-10 11:15 ./usr/share/doc/ncbi-tools-x11/firewall.html drwxr-xr-x root/root 0 2015-12-10 11:34 ./usr/share/doc/ncbi-tools-x11/images/ -rw-r--r-- root/root 5118 2015-12-10 11:33 ./usr/share/doc/ncbi-tools-x11/images/affil.png -rw-r--r-- root/root 5449 2015-12-10 11:33 ./usr/share/doc/ncbi-tools-x11/images/annot.png -rw-r--r-- root/root 6110 2015-12-10 11:33 ./usr/share/doc/ncbi-tools-x11/images/authors.png -rw-r--r-- root/root 8202 2015-12-10 11:33 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root/root 7836 2015-12-10 11:33 ./usr/share/doc/ncbi-tools-x11/images/nucset.png -rw-r--r-- root/root 7657 2015-12-10 11:34 ./usr/share/doc/ncbi-tools-x11/images/nucsing1.png -rw-r--r-- root/root 7836 2015-12-10 11:33 ./usr/share/doc/ncbi-tools-x11/images/nucsing2.png -rw-r--r-- root/root 7015 2015-12-10 11:34 ./usr/share/doc/ncbi-tools-x11/images/organism.png -rw-r--r-- root/root 5384 2015-12-10 11:33 ./usr/share/doc/ncbi-tools-x11/images/props_pg.png -rw-r--r-- root/root 7727 2015-12-10 11:34 ./usr/share/doc/ncbi-tools-x11/images/protein1.png -rw-r--r-- root/root 8157 2015-12-10 11:33 ./usr/share/doc/ncbi-tools-x11/images/protein2.png -rw-r--r-- root/root 13082 2015-12-10 11:33 ./usr/share/doc/ncbi-tools-x11/images/sequence.png -rw-r--r-- root/root 5595 2015-12-10 11:33 ./usr/share/doc/ncbi-tools-x11/images/submit.png -rw-r--r-- root/root 11013 2015-12-10 11:33 ./usr/share/doc/ncbi-tools-x11/images/update.png -rw-r--r-- root/root 13251 2015-12-10 11:33 ./usr/share/doc/ncbi-tools-x11/images/validate.png -rw-r--r-- root/root 3167 2015-12-10 11:32 ./usr/share/doc/ncbi-tools-x11/images/welcome.png -rw-r--r-- root/root 70153 2009-06-19 19:49 ./usr/share/doc/ncbi-tools-x11/sequin.htm drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/share/lintian/ drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 65 2015-12-10 11:15 ./usr/share/lintian/overrides/ncbi-tools-x11 drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/share/man/ drwxr-xr-x root/root 0 2015-12-10 11:29 ./usr/share/man/man1/ -rw-r--r-- root/root 522 2015-12-10 11:29 ./usr/share/man/man1/Cn3D-3.0.1.gz -rw-r--r-- root/root 1291 2015-12-10 11:29 ./usr/share/man/man1/Psequin.1.gz -rw-r--r-- root/root 398 2015-12-10 11:29 ./usr/share/man/man1/ddv.1.gz lrwxrwxrwx root/root 0 2015-12-10 11:29 ./usr/share/man/man1/entrez.1.gz -> entrez2.1.gz -rw-r--r-- root/root 412 2015-12-10 11:29 ./usr/share/man/man1/entrez2.1.gz -rw-r--r-- root/root 314 2015-12-10 11:29 ./usr/share/man/man1/sbtedit.1.gz lrwxrwxrwx root/root 0 2015-12-10 11:29 ./usr/share/man/man1/sequin.1.gz -> Psequin.1.gz -rw-r--r-- root/root 289 2015-12-10 11:29 ./usr/share/man/man1/udv.1.gz ┌──────────────────────────────────────────────────────────────────────────────┐ │ Post Build │ └──────────────────────────────────────────────────────────────────────────────┘ ┌──────────────────────────────────────────────────────────────────────────────┐ │ Cleanup │ └──────────────────────────────────────────────────────────────────────────────┘ Not removing build depends: as requested Keeping session: ┌──────────────────────────────────────────────────────────────────────────────┐ │ Summary │ └──────────────────────────────────────────────────────────────────────────────┘ Build Architecture: amd64 Build-Space: 1031852 Build-Time: 1132 Distribution: xenial-proposed Host Architecture: amd64 Install-Time: 22 Job: ncbi-tools6_6.1.20120620-10.dsc Machine Architecture: amd64 Package: ncbi-tools6 Package-Time: 1158 Source-Version: 6.1.20120620-10 Space: 1031852 Status: successful Version: 6.1.20120620-10 ──────────────────────────────────────────────────────────────────────────────── Finished at 20151210-1134 Build needed 00:19:18, 1031852k disc space RUN: /usr/share/launchpad-buildd/slavebin/scan-for-processes ['scan-for-processes', 'PACKAGEBUILD-8419884'] Scanning for processes to kill in build /home/buildd/build-PACKAGEBUILD-8419884/chroot-autobuild... RUN: /usr/share/launchpad-buildd/slavebin/umount-chroot ['umount-chroot', 'PACKAGEBUILD-8419884'] Unmounting chroot for build PACKAGEBUILD-8419884... RUN: /usr/share/launchpad-buildd/slavebin/remove-build ['remove-build', 'PACKAGEBUILD-8419884'] Removing build PACKAGEBUILD-8419884