RUN: /usr/share/launchpad-buildd/slavebin/slave-prep ['slave-prep'] Forking launchpad-buildd slave process... Kernel version: Linux z13-015 4.4.0-31-generic #50-Ubuntu SMP Wed Jul 13 00:19:48 UTC 2016 s390x Buildd toolchain package versions: launchpad-buildd_138 python-lpbuildd_138 sbuild_0.67.0-2ubuntu7 dpkg-dev_1.18.4ubuntu1.1 python-debian_0.1.27ubuntu2 qemu-user-static_1:2.5+dfsg-5ubuntu10.2. Syncing the system clock with the buildd NTP service... 13 Aug 11:20:17 ntpdate[8034]: adjust time server 10.211.37.1 offset -0.000061 sec RUN: /usr/share/launchpad-buildd/slavebin/unpack-chroot ['unpack-chroot', 'PACKAGEBUILD-10609601', '/home/buildd/filecache-default/4c2dc15a2bd8eb52aaecab56c2b5c3013e453e5b'] Unpacking chroot for build PACKAGEBUILD-10609601 RUN: /usr/share/launchpad-buildd/slavebin/mount-chroot ['mount-chroot', 'PACKAGEBUILD-10609601'] Mounting chroot for build PACKAGEBUILD-10609601 RUN: /usr/share/launchpad-buildd/slavebin/override-sources-list ['override-sources-list', 'PACKAGEBUILD-10609601', 'deb http://ftpmaster.internal/ubuntu yakkety main universe', 'deb http://ftpmaster.internal/ubuntu yakkety-security main universe', 'deb http://ftpmaster.internal/ubuntu yakkety-updates main universe', 'deb http://ftpmaster.internal/ubuntu yakkety-proposed main universe'] Overriding sources.list in build-PACKAGEBUILD-10609601 RUN: /usr/share/launchpad-buildd/slavebin/update-debian-chroot ['update-debian-chroot', 'PACKAGEBUILD-10609601', 's390x'] Updating debian chroot for build PACKAGEBUILD-10609601 Get:1 http://ftpmaster.internal/ubuntu yakkety InRelease [247 kB] Get:2 http://ftpmaster.internal/ubuntu yakkety-security InRelease [92.2 kB] Get:3 http://ftpmaster.internal/ubuntu yakkety-updates InRelease [92.2 kB] Get:4 http://ftpmaster.internal/ubuntu yakkety-proposed InRelease [95.7 kB] Get:5 http://ftpmaster.internal/ubuntu yakkety/main s390x Packages [1125 kB] Get:6 http://ftpmaster.internal/ubuntu yakkety/main Translation-en [565 kB] Get:7 http://ftpmaster.internal/ubuntu yakkety/universe s390x Packages [7444 kB] Get:8 http://ftpmaster.internal/ubuntu yakkety/universe Translation-en [4493 kB] Get:9 http://ftpmaster.internal/ubuntu yakkety-security/main s390x Packages [64 B] Get:10 http://ftpmaster.internal/ubuntu yakkety-security/main Translation-en [64 B] Get:11 http://ftpmaster.internal/ubuntu yakkety-security/universe s390x Packages [64 B] Get:12 http://ftpmaster.internal/ubuntu yakkety-security/universe Translation-en [64 B] Get:13 http://ftpmaster.internal/ubuntu yakkety-updates/main s390x Packages [64 B] Get:14 http://ftpmaster.internal/ubuntu yakkety-updates/main Translation-en [64 B] Get:15 http://ftpmaster.internal/ubuntu yakkety-updates/universe s390x Packages [64 B] Get:16 http://ftpmaster.internal/ubuntu yakkety-updates/universe Translation-en [64 B] Get:17 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x Packages [120 kB] Get:18 http://ftpmaster.internal/ubuntu yakkety-proposed/main Translation-en [57.1 kB] Get:19 http://ftpmaster.internal/ubuntu yakkety-proposed/universe s390x Packages [608 kB] Get:20 http://ftpmaster.internal/ubuntu yakkety-proposed/universe Translation-en [268 kB] Fetched 15.2 MB in 35s (433 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: libpng12-0 libprocps4 Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: cpp-6 g++-6 gcc-6 libcap-ng0 libgcc-6-dev libpng16-16 libprocps6 libstdc++-6-dev The following packages will be upgraded: apt apt-transport-https base-files bash binutils bsdutils bzip2 cpp cpp-5 dash debconf debianutils dmsetup dpkg dpkg-dev e2fslibs e2fsprogs fakeroot findutils g++ g++-5 gcc gcc-5 gcc-5-base gcc-6-base grep hostname init init-system-helpers libapparmor1 libapt-pkg5.0 libasn1-8-heimdal libatomic1 libaudit-common libaudit1 libblkid1 libbz2-1.0 libc-bin libc-dev-bin libc6 libc6-dev libcap2 libcap2-bin libcc1-0 libcomerr2 libcryptsetup4 libcurl3-gnutls libdb5.3 libdebconfclient0 libdevmapper1.02.1 libdpkg-perl libfakeroot libfdisk1 libgcc-5-dev libgcc1 libgcrypt20 libgdbm3 libgmp10 libgnutls30 libgomp1 libgpg-error0 libgssapi-krb5-2 libgssapi3-heimdal libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhx509-5-heimdal libidn11 libisl15 libitm1 libk5crypto3 libkeyutils1 libkmod2 libkrb5-26-heimdal libkrb5-3 libkrb5support0 libldap-2.4-2 liblzma5 libmount1 libmpfr4 libncurses5 libncursesw5 libp11-kit0 libpcre3 libperl5.22 libroken18-heimdal librtmp1 libsasl2-2 libsasl2-modules-db libseccomp2 libselinux1 libsemanage-common libsemanage1 libsepol1 libslang2 libsmartcols1 libsqlite3-0 libss2 libssl1.0.0 libstdc++-5-dev libstdc++6 libsystemd0 libtasn1-6 libtinfo5 libudev1 libusb-0.1-4 libuuid1 libwind0-heimdal linux-libc-dev login lsb-base make mount multiarch-support ncurses-base ncurses-bin openssl optipng passwd perl perl-base perl-modules-5.22 pkgbinarymangler policyrcd-script-zg2 procps sed systemd systemd-sysv sysvinit-utils tar tzdata ubuntu-keyring util-linux xz-utils zlib1g 135 upgraded, 8 newly installed, 0 to remove and 0 not upgraded. Need to get 142 MB of archives. After this operation, 410 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x base-files s390x 9.6ubuntu3 [56.2 kB] Get:2 http://ftpmaster.internal/ubuntu yakkety/main s390x debianutils s390x 4.8 [85.9 kB] Get:3 http://ftpmaster.internal/ubuntu yakkety/main s390x bash s390x 4.3-15ubuntu1 [569 kB] Get:4 http://ftpmaster.internal/ubuntu yakkety/main s390x bsdutils s390x 1:2.28-5ubuntu2 [54.5 kB] Get:5 http://ftpmaster.internal/ubuntu yakkety/main s390x tar s390x 1.29b-1 [223 kB] Get:6 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x dpkg s390x 1.18.10ubuntu1 [2145 kB] Get:7 http://ftpmaster.internal/ubuntu yakkety/main s390x dash s390x 0.5.8-2.3ubuntu1 [100 kB] Get:8 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x libc6-dev s390x 2.24-0ubuntu1 [2040 kB] Get:9 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x libc-dev-bin s390x 2.24-0ubuntu1 [62.6 kB] Get:10 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x linux-libc-dev s390x 4.6.0-10.12 [842 kB] Get:11 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x libc6 s390x 2.24-0ubuntu1 [2314 kB] Get:12 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x libc-bin s390x 2.24-0ubuntu1 [575 kB] Get:13 http://ftpmaster.internal/ubuntu yakkety/main s390x gcc-6-base s390x 6.1.1-11ubuntu12 [16.9 kB] Get:14 http://ftpmaster.internal/ubuntu yakkety/main s390x libgcc1 s390x 1:6.1.1-11ubuntu12 [24.5 kB] Get:15 http://ftpmaster.internal/ubuntu yakkety/main s390x e2fslibs s390x 1.43.1-1 [153 kB] Get:16 http://ftpmaster.internal/ubuntu yakkety/main s390x e2fsprogs s390x 1.43.1-1 [472 kB] Get:17 http://ftpmaster.internal/ubuntu yakkety/main s390x findutils s390x 4.6.0+git+20160703-2 [278 kB] Get:18 http://ftpmaster.internal/ubuntu yakkety/main s390x grep s390x 2.25-6 [148 kB] Get:19 http://ftpmaster.internal/ubuntu yakkety/main s390x hostname s390x 3.18 [11.1 kB] Get:20 http://ftpmaster.internal/ubuntu yakkety/main s390x login s390x 1:4.2-3.1ubuntu6 [303 kB] Get:21 http://ftpmaster.internal/ubuntu yakkety/main s390x libsmartcols1 s390x 2.28-5ubuntu2 [61.7 kB] Get:22 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x libaudit-common all 1:2.6.5-1ubuntu1 [4660 B] Get:23 http://ftpmaster.internal/ubuntu yakkety/main s390x libcap-ng0 s390x 0.7.7-3 [10.6 kB] Get:24 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x libaudit1 s390x 1:2.6.5-1ubuntu1 [36.1 kB] Get:25 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x libpcre3 s390x 2:8.39-1 [155 kB] Get:26 http://ftpmaster.internal/ubuntu yakkety/main s390x libselinux1 s390x 2.5-3 [62.1 kB] Get:27 http://ftpmaster.internal/ubuntu yakkety/main s390x libsepol1 s390x 2.5-1 [198 kB] Get:28 http://ftpmaster.internal/ubuntu yakkety/main s390x libsemanage-common all 2.5-1 [6800 B] Get:29 http://ftpmaster.internal/ubuntu yakkety/main s390x libsemanage1 s390x 2.5-1 [75.1 kB] Get:30 http://ftpmaster.internal/ubuntu yakkety/main s390x bzip2 s390x 1.0.6-8build1 [33.3 kB] Get:31 http://ftpmaster.internal/ubuntu yakkety/main s390x libbz2-1.0 s390x 1.0.6-8build1 [32.7 kB] Get:32 http://ftpmaster.internal/ubuntu yakkety/main s390x passwd s390x 1:4.2-3.1ubuntu6 [771 kB] Get:33 http://ftpmaster.internal/ubuntu yakkety/main s390x libuuid1 s390x 2.28-5ubuntu2 [15.2 kB] Get:34 http://ftpmaster.internal/ubuntu yakkety/main s390x libblkid1 s390x 2.28-5ubuntu2 [100 kB] Get:35 http://ftpmaster.internal/ubuntu yakkety/main s390x libfdisk1 s390x 2.28-5ubuntu2 [128 kB] Get:36 http://ftpmaster.internal/ubuntu yakkety/main s390x perl-modules-5.22 all 5.22.2-3 [2631 kB] Get:37 http://ftpmaster.internal/ubuntu yakkety/main s390x libperl5.22 s390x 5.22.2-3 [3252 kB] Get:38 http://ftpmaster.internal/ubuntu yakkety/main s390x perl s390x 5.22.2-3 [238 kB] Get:39 http://ftpmaster.internal/ubuntu yakkety/main s390x perl-base s390x 5.22.2-3 [1246 kB] Get:40 http://ftpmaster.internal/ubuntu yakkety/main s390x libdb5.3 s390x 5.3.28-12 [616 kB] Get:41 http://ftpmaster.internal/ubuntu yakkety/main s390x libgdbm3 s390x 1.8.3-14 [16.9 kB] Get:42 http://ftpmaster.internal/ubuntu yakkety/main s390x zlib1g s390x 1:1.2.8.dfsg-2ubuntu5 [51.6 kB] Get:43 http://ftpmaster.internal/ubuntu yakkety/main s390x init-system-helpers all 1.42 [37.5 kB] Get:44 http://ftpmaster.internal/ubuntu yakkety/main s390x util-linux s390x 2.28-5ubuntu2 [866 kB] Get:45 http://ftpmaster.internal/ubuntu yakkety/main s390x sysvinit-utils s390x 2.88dsf-59.8git1 [18.6 kB] Get:46 http://ftpmaster.internal/ubuntu yakkety/main s390x mount s390x 2.28-5ubuntu2 [121 kB] Get:47 http://ftpmaster.internal/ubuntu yakkety/main s390x ncurses-bin s390x 6.0+20160625-1ubuntu1 [135 kB] Get:48 http://ftpmaster.internal/ubuntu yakkety/main s390x sed s390x 4.2.2-7.1 [139 kB] Get:49 http://ftpmaster.internal/ubuntu yakkety/main s390x init s390x 1.42 [5160 B] Get:50 http://ftpmaster.internal/ubuntu yakkety/main s390x ncurses-base all 6.0+20160625-1ubuntu1 [16.6 kB] Get:51 http://ftpmaster.internal/ubuntu yakkety/main s390x liblzma5 s390x 5.1.1alpha+20120614-2.1ubuntu1 [81.8 kB] Get:52 http://ftpmaster.internal/ubuntu yakkety/main s390x libstdc++6 s390x 6.1.1-11ubuntu12 [403 kB] Get:53 http://ftpmaster.internal/ubuntu yakkety/main s390x libapt-pkg5.0 s390x 1.3~rc1ubuntu2 [705 kB] Get:54 http://ftpmaster.internal/ubuntu yakkety/main s390x ubuntu-keyring all 2016.05.13 [16.5 kB] Get:55 http://ftpmaster.internal/ubuntu yakkety/main s390x apt s390x 1.3~rc1ubuntu2 [1016 kB] Get:56 http://ftpmaster.internal/ubuntu yakkety/main s390x debconf all 1.5.59ubuntu1 [136 kB] Get:57 http://ftpmaster.internal/ubuntu yakkety/main s390x libgpg-error0 s390x 1.24-1 [32.7 kB] Get:58 http://ftpmaster.internal/ubuntu yakkety/main s390x libgcrypt20 s390x 1.7.2-2 [339 kB] Get:59 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x libapparmor1 s390x 2.10.95-4ubuntu3 [32.0 kB] Get:60 http://ftpmaster.internal/ubuntu yakkety/main s390x libcap2 s390x 1:2.25-1 [13.7 kB] Get:61 http://ftpmaster.internal/ubuntu yakkety/main s390x libudev1 s390x 231-1 [56.5 kB] Get:62 http://ftpmaster.internal/ubuntu yakkety/main s390x libdevmapper1.02.1 s390x 2:1.02.130-1ubuntu1 [147 kB] Get:63 http://ftpmaster.internal/ubuntu yakkety/main s390x libcryptsetup4 s390x 2:1.7.2-0ubuntu1 [70.1 kB] Get:64 http://ftpmaster.internal/ubuntu yakkety/main s390x libidn11 s390x 1.33-1 [44.4 kB] Get:65 http://ftpmaster.internal/ubuntu yakkety/main s390x libkmod2 s390x 22-1.1ubuntu1 [36.8 kB] Get:66 http://ftpmaster.internal/ubuntu yakkety/main s390x libmount1 s390x 2.28-5ubuntu2 [109 kB] Get:67 http://ftpmaster.internal/ubuntu yakkety/main s390x libseccomp2 s390x 2.3.1-2ubuntu2 [38.5 kB] Get:68 http://ftpmaster.internal/ubuntu yakkety/main s390x libcap2-bin s390x 1:2.25-1 [20.4 kB] Get:69 http://ftpmaster.internal/ubuntu yakkety/main s390x libsystemd0 s390x 231-1 [195 kB] Get:70 http://ftpmaster.internal/ubuntu yakkety/main s390x systemd s390x 231-1 [2180 kB] Get:71 http://ftpmaster.internal/ubuntu yakkety/main s390x systemd-sysv s390x 231-1 [16.8 kB] Get:72 http://ftpmaster.internal/ubuntu yakkety/main s390x libcomerr2 s390x 1.43.1-1 [10.0 kB] Get:73 http://ftpmaster.internal/ubuntu yakkety/main s390x libdebconfclient0 s390x 0.213ubuntu1 [5988 B] Get:74 http://ftpmaster.internal/ubuntu yakkety/main s390x libncurses5 s390x 6.0+20160625-1ubuntu1 [89.7 kB] Get:75 http://ftpmaster.internal/ubuntu yakkety/main s390x libtinfo5 s390x 6.0+20160625-1ubuntu1 [75.8 kB] Get:76 http://ftpmaster.internal/ubuntu yakkety/main s390x libncursesw5 s390x 6.0+20160625-1ubuntu1 [107 kB] Get:77 http://ftpmaster.internal/ubuntu yakkety/main s390x libss2 s390x 1.43.1-1 [10.8 kB] Get:78 http://ftpmaster.internal/ubuntu yakkety/main s390x lsb-base all 9.20160110ubuntu5 [13.2 kB] Get:79 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x multiarch-support s390x 2.24-0ubuntu1 [6822 B] Get:80 http://ftpmaster.internal/ubuntu yakkety/main s390x libusb-0.1-4 s390x 2:0.1.12-30 [16.6 kB] Get:81 http://ftpmaster.internal/ubuntu yakkety/main s390x libprocps6 s390x 2:3.3.12-1ubuntu2 [30.3 kB] Get:82 http://ftpmaster.internal/ubuntu yakkety/main s390x procps s390x 2:3.3.12-1ubuntu2 [218 kB] Get:83 http://ftpmaster.internal/ubuntu yakkety/main s390x tzdata all 2016f-1 [169 kB] Get:84 http://ftpmaster.internal/ubuntu yakkety/main s390x dmsetup s390x 2:1.02.130-1ubuntu1 [72.4 kB] Get:85 http://ftpmaster.internal/ubuntu yakkety/main s390x libslang2 s390x 2.3.0-2.3ubuntu1 [405 kB] Get:86 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x libsqlite3-0 s390x 3.14.0-1 [451 kB] Get:87 http://ftpmaster.internal/ubuntu yakkety/main s390x libssl1.0.0 s390x 1.0.2g-1ubuntu7 [818 kB] Get:88 http://ftpmaster.internal/ubuntu yakkety/main s390x xz-utils s390x 5.1.1alpha+20120614-2.1ubuntu1 [78.6 kB] Get:89 http://ftpmaster.internal/ubuntu yakkety/main s390x libgmp10 s390x 2:6.1.1+dfsg-1 [228 kB] Get:90 http://ftpmaster.internal/ubuntu yakkety/main s390x libp11-kit0 s390x 0.23.2-4 [97.5 kB] Get:91 http://ftpmaster.internal/ubuntu yakkety/main s390x libtasn1-6 s390x 4.9-3 [33.6 kB] Get:92 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x libgnutls30 s390x 3.5.2-2ubuntu4 [533 kB] Get:93 http://ftpmaster.internal/ubuntu yakkety/main s390x libgssapi-krb5-2 s390x 1.14.3+dfsg-1ubuntu1 [110 kB] Get:94 http://ftpmaster.internal/ubuntu yakkety/main s390x libkrb5-3 s390x 1.14.3+dfsg-1ubuntu1 [260 kB] Get:95 http://ftpmaster.internal/ubuntu yakkety/main s390x libkrb5support0 s390x 1.14.3+dfsg-1ubuntu1 [31.0 kB] Get:96 http://ftpmaster.internal/ubuntu yakkety/main s390x libk5crypto3 s390x 1.14.3+dfsg-1ubuntu1 [80.1 kB] Get:97 http://ftpmaster.internal/ubuntu yakkety/main s390x libkeyutils1 s390x 1.5.9-9ubuntu1 [9450 B] Get:98 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x libroken18-heimdal s390x 1.7~git20160703+dfsg-1 [39.3 kB] Get:99 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x libasn1-8-heimdal s390x 1.7~git20160703+dfsg-1 [147 kB] Get:100 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x libheimbase1-heimdal s390x 1.7~git20160703+dfsg-1 [27.5 kB] Get:101 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x libhcrypto4-heimdal s390x 1.7~git20160703+dfsg-1 [84.4 kB] Get:102 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x libwind0-heimdal s390x 1.7~git20160703+dfsg-1 [48.2 kB] Get:103 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x libhx509-5-heimdal s390x 1.7~git20160703+dfsg-1 [100.0 kB] Get:104 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x libkrb5-26-heimdal s390x 1.7~git20160703+dfsg-1 [188 kB] Get:105 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x libheimntlm0-heimdal s390x 1.7~git20160703+dfsg-1 [14.7 kB] Get:106 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x libgssapi3-heimdal s390x 1.7~git20160703+dfsg-1 [89.0 kB] Get:107 http://ftpmaster.internal/ubuntu yakkety/main s390x libsasl2-modules-db s390x 2.1.26.dfsg1-15 [14.0 kB] Get:108 http://ftpmaster.internal/ubuntu yakkety/main s390x libsasl2-2 s390x 2.1.26.dfsg1-15 [46.8 kB] Get:109 http://ftpmaster.internal/ubuntu yakkety/main s390x libldap-2.4-2 s390x 2.4.42+dfsg-2ubuntu4 [151 kB] Get:110 http://ftpmaster.internal/ubuntu yakkety/main s390x librtmp1 s390x 2.4+20151223.gitfa8646d.1-1 [51.8 kB] Get:111 http://ftpmaster.internal/ubuntu yakkety/main s390x libcurl3-gnutls s390x 7.50.1-1ubuntu1 [175 kB] Get:112 http://ftpmaster.internal/ubuntu yakkety/main s390x apt-transport-https s390x 1.3~rc1ubuntu2 [31.2 kB] Get:113 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x libpng16-16 s390x 1.6.24-2 [171 kB] Get:114 http://ftpmaster.internal/ubuntu yakkety/main s390x openssl s390x 1.0.2g-1ubuntu7 [477 kB] Get:115 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x binutils s390x 2.27-2ubuntu2 [1059 kB] Get:116 http://ftpmaster.internal/ubuntu yakkety/main s390x libisl15 s390x 0.17.1-1 [505 kB] Get:117 http://ftpmaster.internal/ubuntu yakkety/main s390x libmpfr4 s390x 3.1.4-2 [188 kB] Get:118 http://ftpmaster.internal/ubuntu yakkety/main s390x cpp-6 s390x 6.1.1-11ubuntu12 [26.9 MB] Get:119 http://ftpmaster.internal/ubuntu yakkety/main s390x cpp s390x 4:6.1.1-1ubuntu2 [27.4 kB] Get:120 http://ftpmaster.internal/ubuntu yakkety/main s390x libgomp1 s390x 6.1.1-11ubuntu12 [71.0 kB] Get:121 http://ftpmaster.internal/ubuntu yakkety/main s390x libitm1 s390x 6.1.1-11ubuntu12 [27.2 kB] Get:122 http://ftpmaster.internal/ubuntu yakkety/main s390x libatomic1 s390x 6.1.1-11ubuntu12 [8158 B] Get:123 http://ftpmaster.internal/ubuntu yakkety/main s390x g++-5 s390x 5.4.1-1ubuntu2 [6751 kB] Get:124 http://ftpmaster.internal/ubuntu yakkety/main s390x gcc-5 s390x 5.4.1-1ubuntu2 [6903 kB] Get:125 http://ftpmaster.internal/ubuntu yakkety/main s390x libstdc++-5-dev s390x 5.4.1-1ubuntu2 [1375 kB] Get:126 http://ftpmaster.internal/ubuntu yakkety/main s390x libgcc-5-dev s390x 5.4.1-1ubuntu2 [245 kB] Get:127 http://ftpmaster.internal/ubuntu yakkety/main s390x libcc1-0 s390x 6.1.1-11ubuntu12 [31.0 kB] Get:128 http://ftpmaster.internal/ubuntu yakkety/main s390x cpp-5 s390x 5.4.1-1ubuntu2 [6154 kB] Get:129 http://ftpmaster.internal/ubuntu yakkety/main s390x gcc-5-base s390x 5.4.1-1ubuntu2 [17.2 kB] Get:130 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x dpkg-dev all 1.18.10ubuntu1 [651 kB] Get:131 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x libdpkg-perl all 1.18.10ubuntu1 [204 kB] Get:132 http://ftpmaster.internal/ubuntu yakkety/main s390x make s390x 4.1-9 [149 kB] Get:133 http://ftpmaster.internal/ubuntu yakkety/main s390x libfakeroot s390x 1.21-1ubuntu2 [24.9 kB] Get:134 http://ftpmaster.internal/ubuntu yakkety/main s390x fakeroot s390x 1.21-1ubuntu2 [61.1 kB] Get:135 http://ftpmaster.internal/ubuntu yakkety/main s390x libgcc-6-dev s390x 6.1.1-11ubuntu12 [267 kB] Get:136 http://ftpmaster.internal/ubuntu yakkety/main s390x gcc-6 s390x 6.1.1-11ubuntu12 [26.6 MB] Get:137 http://ftpmaster.internal/ubuntu yakkety/main s390x gcc s390x 4:6.1.1-1ubuntu2 [5166 B] Get:138 http://ftpmaster.internal/ubuntu yakkety/main s390x libstdc++-6-dev s390x 6.1.1-11ubuntu12 [1407 kB] Get:139 http://ftpmaster.internal/ubuntu yakkety/main s390x g++-6 s390x 6.1.1-11ubuntu12 [28.9 MB] Get:140 http://ftpmaster.internal/ubuntu yakkety/main s390x g++ s390x 4:6.1.1-1ubuntu2 [1478 B] Get:141 http://ftpmaster.internal/ubuntu yakkety/main s390x optipng s390x 0.7.6-1build1 [81.5 kB] Get:142 http://ftpmaster.internal/ubuntu yakkety/main s390x pkgbinarymangler all 130 [43.2 kB] Get:143 http://ftpmaster.internal/ubuntu yakkety/main s390x policyrcd-script-zg2 all 0.1-3 [5610 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 142 MB in 1min 32s (1531 kB/s) (Reading database ... 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Unpacking perl-base (5.22.2-3) over (5.22.1-9) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... Setting up perl-base (5.22.2-3) ... (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 ... 11917 files and directories currently installed.) Preparing to unpack .../libdb5.3_5.3.28-12_s390x.deb ... Unpacking libdb5.3:s390x (5.3.28-12) over (5.3.28-11) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... Setting up libdb5.3:s390x (5.3.28-12) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... (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 ... 11917 files and directories currently installed.) Preparing to unpack .../libgdbm3_1.8.3-14_s390x.deb ... Unpacking libgdbm3:s390x (1.8.3-14) over (1.8.3-13.1) ... Preparing to unpack .../zlib1g_1%3a1.2.8.dfsg-2ubuntu5_s390x.deb ... Unpacking zlib1g:s390x (1:1.2.8.dfsg-2ubuntu5) over (1:1.2.8.dfsg-2ubuntu4) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... Setting up zlib1g:s390x (1:1.2.8.dfsg-2ubuntu5) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... (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 ... 11917 files and directories currently installed.) Preparing to unpack .../init-system-helpers_1.42_all.deb ... Unpacking init-system-helpers (1.42) over (1.29ubuntu1) ... Setting up init-system-helpers (1.42) ... (Reading database ... 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Processing triggers for systemd (229-4ubuntu4) ... (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 ... 11924 files and directories currently installed.) Preparing to unpack .../mount_2.28-5ubuntu2_s390x.deb ... Unpacking mount (2.28-5ubuntu2) over (2.27.1-6ubuntu3) ... Setting up mount (2.28-5ubuntu2) ... (Reading database ... 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Setting up ubuntu-keyring (2016.05.13) ... gpg: key 437D05B5: "Ubuntu Archive Automatic Signing Key " not changed gpg: key FBB75451: "Ubuntu CD Image Automatic Signing Key " not changed gpg: key C0B21F32: "Ubuntu Archive Automatic Signing Key (2012) " not changed gpg: key EFE21092: "Ubuntu CD Image Automatic Signing Key (2012) " not changed gpg: Total number processed: 4 gpg: unchanged: 4 (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 ... 11926 files and directories currently installed.) Preparing to unpack .../apt_1.3~rc1ubuntu2_s390x.deb ... Unpacking apt (1.3~rc1ubuntu2) over (1.2.10ubuntu1) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... Setting up apt (1.3~rc1ubuntu2) ... Installing new version of config file /etc/cron.daily/apt-compat ... Installing new version of config file /etc/kernel/postinst.d/apt-auto-removal ... Processing triggers for libc-bin (2.24-0ubuntu1) ... (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 ... 11924 files and directories currently installed.) Preparing to unpack .../debconf_1.5.59ubuntu1_all.deb ... Unpacking debconf (1.5.59ubuntu1) over (1.5.58ubuntu1) ... Setting up debconf (1.5.59ubuntu1) ... (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 ... 11924 files and directories currently installed.) Preparing to unpack .../libgcrypt20_1.7.2-2_s390x.deb ... Unpacking libgcrypt20:s390x (1.7.2-2) over (1.6.5-2) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... Setting up libgcrypt20:s390x (1.7.2-2) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... (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 ... 11924 files and directories currently installed.) Preparing to unpack .../libapparmor1_2.10.95-4ubuntu3_s390x.deb ... Unpacking libapparmor1:s390x (2.10.95-4ubuntu3) over (2.10.95-0ubuntu2) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... Setting up libapparmor1:s390x (2.10.95-4ubuntu3) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... (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 ... 11925 files and directories currently installed.) Preparing to unpack .../libcap2_1%3a2.25-1_s390x.deb ... Unpacking libcap2:s390x (1:2.25-1) over (1:2.24-12) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... Setting up libcap2:s390x (1:2.25-1) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... (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 ... 11925 files and directories currently installed.) Preparing to unpack .../libudev1_231-1_s390x.deb ... Unpacking libudev1:s390x (231-1) over (229-4ubuntu4) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... Setting up libudev1:s390x (231-1) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... (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 ... 11925 files and directories currently installed.) Preparing to unpack .../libdevmapper1.02.1_2%3a1.02.130-1ubuntu1_s390x.deb ... Unpacking libdevmapper1.02.1:s390x (2:1.02.130-1ubuntu1) over (2:1.02.110-1ubuntu10) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... Setting up libdevmapper1.02.1:s390x (2:1.02.130-1ubuntu1) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... (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 ... 11925 files and directories currently installed.) Preparing to unpack .../libcryptsetup4_2%3a1.7.2-0ubuntu1_s390x.deb ... Unpacking libcryptsetup4:s390x (2:1.7.2-0ubuntu1) over (2:1.6.6-5ubuntu2) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... Setting up libcryptsetup4:s390x (2:1.7.2-0ubuntu1) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... (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 ... 11925 files and directories currently installed.) Preparing to unpack .../libidn11_1.33-1_s390x.deb ... Unpacking libidn11:s390x (1.33-1) over (1.32-3ubuntu1) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... Setting up libidn11:s390x (1.33-1) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... (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 ... 11925 files and directories currently installed.) Preparing to unpack .../libkmod2_22-1.1ubuntu1_s390x.deb ... Unpacking libkmod2:s390x (22-1.1ubuntu1) over (22-1ubuntu4) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... Setting up libkmod2:s390x (22-1.1ubuntu1) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... (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 ... 11925 files and directories currently installed.) Preparing to unpack .../libmount1_2.28-5ubuntu2_s390x.deb ... Unpacking libmount1:s390x (2.28-5ubuntu2) over (2.27.1-6ubuntu3) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... Setting up libmount1:s390x (2.28-5ubuntu2) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... (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 ... 11925 files and directories currently installed.) Preparing to unpack .../libseccomp2_2.3.1-2ubuntu2_s390x.deb ... Unpacking libseccomp2:s390x (2.3.1-2ubuntu2) over (2.2.3-3ubuntu3) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... Setting up libseccomp2:s390x (2.3.1-2ubuntu2) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... (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 ... 11925 files and directories currently installed.) Preparing to unpack .../libcap2-bin_1%3a2.25-1_s390x.deb ... Unpacking libcap2-bin (1:2.25-1) over (1:2.24-12) ... Setting up libcap2-bin (1:2.25-1) ... (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 ... 11926 files and directories currently installed.) Preparing to unpack .../libsystemd0_231-1_s390x.deb ... Unpacking libsystemd0:s390x (231-1) over (229-4ubuntu4) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... Setting up libsystemd0:s390x (231-1) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... (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 ... 11926 files and directories currently installed.) Preparing to unpack .../systemd_231-1_s390x.deb ... Unpacking systemd (231-1) over (229-4ubuntu4) ... Setting up systemd (231-1) ... Installing new version of config file /etc/dbus-1/system.d/org.freedesktop.login1.conf ... Installing new version of config file /etc/dbus-1/system.d/org.freedesktop.systemd1.conf ... Installing new version of config file /etc/pam.d/systemd-user ... Installing new version of config file /etc/systemd/journald.conf ... Installing new version of config file /etc/systemd/logind.conf ... Installing new version of config file /etc/systemd/resolved.conf ... Installing new version of config file /etc/systemd/system.conf ... Installing new version of config file /etc/systemd/user.conf ... addgroup: The group `systemd-journal' already exists as a system group. Exiting. Removing obsolete conffile /etc/systemd/bootchart.conf ... (Reading database ... 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Setting up libtinfo5:s390x (6.0+20160625-1ubuntu1) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... (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 ... 11929 files and directories currently installed.) Preparing to unpack .../libncursesw5_6.0+20160625-1ubuntu1_s390x.deb ... Unpacking libncursesw5:s390x (6.0+20160625-1ubuntu1) over (6.0+20160213-1ubuntu1) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... Setting up libncursesw5:s390x (6.0+20160625-1ubuntu1) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... (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 ... 11929 files and directories currently installed.) Preparing to unpack .../libss2_1.43.1-1_s390x.deb ... Unpacking libss2:s390x (1.43.1-1) over (1.42.13-1ubuntu1) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... Setting up libss2:s390x (1.43.1-1) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... (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 ... 11929 files and directories currently installed.) Preparing to unpack .../libprocps6_2%3a3.3.12-1ubuntu2_s390x.deb ... Unpacking libprocps6:s390x (2:3.3.12-1ubuntu2) ... Preparing to unpack .../procps_2%3a3.3.12-1ubuntu2_s390x.deb ... Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of stop. Unpacking procps (2:3.3.12-1ubuntu2) over (2:3.3.10-4ubuntu2) ... Preparing to unpack .../tzdata_2016f-1_all.deb ... 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Removing old gcc doc directory. Unpacking gcc (4:6.1.1-1ubuntu2) over (4:5.3.1-1ubuntu1) ... Selecting previously unselected package libstdc++-6-dev:s390x. Preparing to unpack .../libstdc++-6-dev_6.1.1-11ubuntu12_s390x.deb ... Unpacking libstdc++-6-dev:s390x (6.1.1-11ubuntu12) ... Selecting previously unselected package g++-6. Preparing to unpack .../g++-6_6.1.1-11ubuntu12_s390x.deb ... Unpacking g++-6 (6.1.1-11ubuntu12) ... Preparing to unpack .../g++_4%3a6.1.1-1ubuntu2_s390x.deb ... Unpacking g++ (4:6.1.1-1ubuntu2) over (4:5.3.1-1ubuntu1) ... Preparing to unpack .../optipng_0.7.6-1build1_s390x.deb ... Unpacking optipng (0.7.6-1build1) over (0.7.6-1) ... Preparing to unpack .../pkgbinarymangler_130_all.deb ... Unpacking pkgbinarymangler (130) over (129) ... Preparing to unpack .../policyrcd-script-zg2_0.1-3_all.deb ... Unpacking policyrcd-script-zg2 (0.1-3) over (0.1-2) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... Processing triggers for systemd (231-1) ... Setting up libc-dev-bin (2.24-0ubuntu1) ... Setting up linux-libc-dev:s390x (4.6.0-10.12) ... Setting up libc6-dev:s390x (2.24-0ubuntu1) ... Setting up bzip2 (1.0.6-8build1) ... Setting up perl-modules-5.22 (5.22.2-3) ... Setting up libgdbm3:s390x (1.8.3-14) ... Setting up libperl5.22:s390x (5.22.2-3) ... Setting up perl (5.22.2-3) ... Setting up sysvinit-utils (2.88dsf-59.8git1) ... Setting up libncurses5:s390x (6.0+20160625-1ubuntu1) ... Setting up libprocps6:s390x (2:3.3.12-1ubuntu2) ... Setting up procps (2:3.3.12-1ubuntu2) ... Installing new version of config file /etc/init.d/procps ... Installing new version of config file /etc/sysctl.conf ... Setting up tzdata (2016f-1) ... Current default time zone: 'Etc/UTC' Local time is now: Sat Aug 13 11:22:53 UTC 2016. Universal Time is now: Sat Aug 13 11:22:53 UTC 2016. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up dmsetup (2:1.02.130-1ubuntu1) ... Setting up libslang2:s390x (2.3.0-2.3ubuntu1) ... Setting up libsqlite3-0:s390x (3.14.0-1) ... Setting up libssl1.0.0:s390x (1.0.2g-1ubuntu7) ... Setting up xz-utils (5.1.1alpha+20120614-2.1ubuntu1) ... Setting up libgmp10:s390x (2:6.1.1+dfsg-1) ... Setting up libp11-kit0:s390x (0.23.2-4) ... Setting up libtasn1-6:s390x (4.9-3) ... Setting up libgnutls30:s390x (3.5.2-2ubuntu4) ... Setting up libkrb5support0:s390x (1.14.3+dfsg-1ubuntu1) ... Setting up libk5crypto3:s390x (1.14.3+dfsg-1ubuntu1) ... Setting up libkeyutils1:s390x (1.5.9-9ubuntu1) ... Setting up libkrb5-3:s390x (1.14.3+dfsg-1ubuntu1) ... Setting up libgssapi-krb5-2:s390x (1.14.3+dfsg-1ubuntu1) ... Setting up libroken18-heimdal:s390x (1.7~git20160703+dfsg-1) ... Setting up libasn1-8-heimdal:s390x (1.7~git20160703+dfsg-1) ... Setting up libheimbase1-heimdal:s390x (1.7~git20160703+dfsg-1) ... Setting up libhcrypto4-heimdal:s390x (1.7~git20160703+dfsg-1) ... Setting up libwind0-heimdal:s390x (1.7~git20160703+dfsg-1) ... Setting up libhx509-5-heimdal:s390x (1.7~git20160703+dfsg-1) ... Setting up libkrb5-26-heimdal:s390x (1.7~git20160703+dfsg-1) ... Setting up libheimntlm0-heimdal:s390x (1.7~git20160703+dfsg-1) ... Setting up libgssapi3-heimdal:s390x (1.7~git20160703+dfsg-1) ... Setting up libsasl2-modules-db:s390x (2.1.26.dfsg1-15) ... Setting up libsasl2-2:s390x (2.1.26.dfsg1-15) ... Setting up libldap-2.4-2:s390x (2.4.42+dfsg-2ubuntu4) ... Setting up librtmp1:s390x (2.4+20151223.gitfa8646d.1-1) ... Setting up libcurl3-gnutls:s390x (7.50.1-1ubuntu1) ... Setting up apt-transport-https (1.3~rc1ubuntu2) ... Setting up libpng16-16:s390x (1.6.24-2) ... Setting up openssl (1.0.2g-1ubuntu7) ... Setting up binutils (2.27-2ubuntu2) ... Setting up libisl15:s390x (0.17.1-1) ... Setting up libmpfr4:s390x (3.1.4-2) ... Setting up cpp-6 (6.1.1-11ubuntu12) ... Setting up cpp (4:6.1.1-1ubuntu2) ... Setting up libgomp1:s390x (6.1.1-11ubuntu12) ... Setting up libitm1:s390x (6.1.1-11ubuntu12) ... Setting up libatomic1:s390x (6.1.1-11ubuntu12) ... Setting up gcc-5-base:s390x (5.4.1-1ubuntu2) ... Setting up cpp-5 (5.4.1-1ubuntu2) ... Setting up libcc1-0:s390x (6.1.1-11ubuntu12) ... Setting up libgcc-5-dev:s390x (5.4.1-1ubuntu2) ... Setting up gcc-5 (5.4.1-1ubuntu2) ... Setting up libstdc++-5-dev:s390x (5.4.1-1ubuntu2) ... Setting up g++-5 (5.4.1-1ubuntu2) ... Setting up libdpkg-perl (1.18.10ubuntu1) ... Setting up make (4.1-9) ... Setting up dpkg-dev (1.18.10ubuntu1) ... Setting up libfakeroot:s390x (1.21-1ubuntu2) ... Setting up fakeroot (1.21-1ubuntu2) ... Setting up libgcc-6-dev:s390x (6.1.1-11ubuntu12) ... Setting up gcc-6 (6.1.1-11ubuntu12) ... Setting up gcc (4:6.1.1-1ubuntu2) ... Setting up libstdc++-6-dev:s390x (6.1.1-11ubuntu12) ... Setting up g++-6 (6.1.1-11ubuntu12) ... Setting up g++ (4:6.1.1-1ubuntu2) ... Setting up optipng (0.7.6-1build1) ... Setting up pkgbinarymangler (130) ... Setting up policyrcd-script-zg2 (0.1-3) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... Processing triggers for systemd (231-1) ... RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package ['sbuild-package', 'PACKAGEBUILD-10609601', 's390x', 'yakkety-proposed', '-c', 'chroot:autobuild', '--arch=s390x', '--dist=yakkety-proposed', '--purge=never', '--nolog', 'ncbi-tools6_6.1.20120620-11.dsc'] Initiating build PACKAGEBUILD-10609601 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.4.0-31-generic #50-Ubuntu SMP Wed Jul 13 00:19:48 UTC 2016 s390x sbuild (Debian sbuild) 0.67.0 (26 Dec 2015) on z13-015.buildd +==============================================================================+ | ncbi-tools6 6.1.20120620-11 (s390x) 13 Aug 2016 11:22 | +==============================================================================+ Package: ncbi-tools6 Version: 6.1.20120620-11 Source Version: 6.1.20120620-11 Distribution: yakkety-proposed Machine Architecture: s390x Host Architecture: s390x Build Architecture: s390x I: NOTICE: Log filtering will replace 'build/ncbi-tools6-LQ2MS5/ncbi-tools6-6.1.20120620' with '<>' I: NOTICE: Log filtering will replace 'build/ncbi-tools6-LQ2MS5' with '<>' I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-10609601/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- ncbi-tools6_6.1.20120620-11.dsc exists in .; copying to chroot Check architectures ------------------- Check dependencies ------------------ Merged Build-Depends: build-essential, fakeroot Filtered Build-Depends: build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<>/resolver-Pd_ue8/apt_archive/sbuild-build-depends-core-dummy.deb'. Ign:1 copy:/<>/resolver-Pd_ue8/apt_archive ./ InRelease Get:2 copy:/<>/resolver-Pd_ue8/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-Pd_ue8/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-Pd_ue8/apt_archive ./ Sources [214 B] Get:5 copy:/<>/resolver-Pd_ue8/apt_archive ./ Packages [528 B] Fetched 2861 B in 0s (0 B/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install core build dependencies (apt-based resolver) | +------------------------------------------------------------------------------+ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: libpng12-0 libprocps4 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 772 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-Pd_ue8/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [772 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 772 B in 0s (0 B/s) 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 ... 12886 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_s390x.deb ... Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... Merged Build-Depends: debhelper (>= 9), csh | c-shell, libglu1-mesa-dev | libglu-dev, libmotif-dev, libpcre3-dev, libpng-dev, libxmu-dev Filtered Build-Depends: debhelper (>= 9), csh | c-shell, libglu1-mesa-dev | libglu-dev, libmotif-dev, libpcre3-dev, libpng-dev, libxmu-dev dpkg-deb: building package 'sbuild-build-depends-ncbi-tools6-dummy' in '/<>/resolver-HJz7T1/apt_archive/sbuild-build-depends-ncbi-tools6-dummy.deb'. Ign:1 copy:/<>/resolver-HJz7T1/apt_archive ./ InRelease Get:2 copy:/<>/resolver-HJz7T1/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-HJz7T1/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-HJz7T1/apt_archive ./ Sources [263 B] Get:5 copy:/<>/resolver-HJz7T1/apt_archive ./ Packages [575 B] Fetched 2957 B in 0s (0 B/s) Reading package lists... 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: libpng12-0 libprocps4 Use 'sudo apt autoremove' to remove them. The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils csh debhelper dh-autoreconf dh-strip-nondeterminism file fontconfig-config fonts-dejavu-core gettext gettext-base groff-base intltool-debian libarchive-zip-perl libbsd0 libcroco3 libdrm-amdgpu1 libdrm-dev libdrm-nouveau2 libdrm-radeon1 libdrm2 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl libfontconfig1 libfontconfig1-dev libfreetype6 libfreetype6-dev libgl1-mesa-dev libgl1-mesa-dri libgl1-mesa-glx libglapi-mesa libglib2.0-0 libglu1-mesa libglu1-mesa-dev libice-dev libice6 libicu57 libjpeg-turbo8 libjpeg8 libmagic1 libmotif-common libmotif-dev libmrm4 libpcre16-3 libpcre3-dev libpcre32-3 libpcrecpp0v5 libpipeline1 libpng-dev libpthread-stubs0-dev libsigsegv2 libsm-dev libsm6 libtimedate-perl libtool libuil4 libunistring0 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 libxft-dev libxft2 libxm4 libxml2 libxmu-dev libxmu-headers libxmu6 libxrender-dev libxrender1 libxshmfence-dev libxshmfence1 libxt-dev libxt6 libxxf86vm-dev libxxf86vm1 m4 man-db mesa-common-dev pkg-config 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-render-dev x11proto-xext-dev x11proto-xf86vidmode-dev xorg-sgml-doctools xtrans-dev zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev groff libice-doc libsm-doc libtool-doc gfortran | fortran95-compiler gcj-jdk libxcb-doc libxext-doc libxt-doc less www-browser libmail-box-perl Recommended packages: curl | wget | lynx-cur libtxc-dxtn-s2tc0 | libtxc-dxtn0 libglib2.0-data shared-mime-info xdg-user-dirs libpng-tools libltdl-dev libx11-doc xml-core libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils csh debhelper dh-autoreconf dh-strip-nondeterminism file fontconfig-config fonts-dejavu-core gettext gettext-base groff-base intltool-debian libarchive-zip-perl libbsd0 libcroco3 libdrm-amdgpu1 libdrm-dev libdrm-nouveau2 libdrm-radeon1 libdrm2 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl libfontconfig1 libfontconfig1-dev libfreetype6 libfreetype6-dev libgl1-mesa-dev libgl1-mesa-dri libgl1-mesa-glx libglapi-mesa libglib2.0-0 libglu1-mesa libglu1-mesa-dev libice-dev libice6 libicu57 libjpeg-turbo8 libjpeg8 libmagic1 libmotif-common libmotif-dev libmrm4 libpcre16-3 libpcre3-dev libpcre32-3 libpcrecpp0v5 libpipeline1 libpng-dev libpthread-stubs0-dev libsigsegv2 libsm-dev libsm6 libtimedate-perl libtool libuil4 libunistring0 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 libxft-dev libxft2 libxm4 libxml2 libxmu-dev libxmu-headers libxmu6 libxrender-dev libxrender1 libxshmfence-dev libxshmfence1 libxt-dev libxt6 libxxf86vm-dev libxxf86vm1 m4 man-db mesa-common-dev pkg-config 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-render-dev x11proto-xext-dev x11proto-xf86vidmode-dev xorg-sgml-doctools xtrans-dev zlib1g-dev 0 upgraded, 133 newly installed, 0 to remove and 0 not upgraded. Need to get 35.6 MB of archives. After this operation, 153 MB of additional disk space will be used. Get:1 copy:/<>/resolver-HJz7T1/apt_archive ./ sbuild-build-depends-ncbi-tools6-dummy 0.invalid.0 [822 B] Get:2 http://ftpmaster.internal/ubuntu yakkety/main s390x groff-base s390x 1.22.3-8 [1175 kB] Get:3 http://ftpmaster.internal/ubuntu yakkety/main s390x bsdmainutils s390x 9.0.6ubuntu3 [179 kB] Get:4 http://ftpmaster.internal/ubuntu yakkety/main s390x libpipeline1 s390x 1.4.1-2 [24.8 kB] Get:5 http://ftpmaster.internal/ubuntu yakkety/main s390x man-db s390x 2.7.5-1 [850 kB] Get:6 http://ftpmaster.internal/ubuntu yakkety/main s390x libjpeg-turbo8 s390x 1.5.0-0ubuntu1 [104 kB] Get:7 http://ftpmaster.internal/ubuntu yakkety/main s390x x11-common all 1:7.7+13ubuntu3 [22.4 kB] Get:8 http://ftpmaster.internal/ubuntu yakkety/universe s390x libmotif-common all 2.3.4-10build1 [11.0 kB] Get:9 http://ftpmaster.internal/ubuntu yakkety/main s390x libxau6 s390x 1:1.0.8-1 [7420 B] Get:10 http://ftpmaster.internal/ubuntu yakkety/main s390x libxdmcp6 s390x 1:1.1.2-1.1 [11.0 kB] Get:11 http://ftpmaster.internal/ubuntu yakkety/main s390x libxcb1 s390x 1.11.1-1ubuntu1 [38.8 kB] Get:12 http://ftpmaster.internal/ubuntu yakkety/main s390x libx11-data all 2:1.6.3-1ubuntu3 [113 kB] Get:13 http://ftpmaster.internal/ubuntu yakkety/main s390x libx11-6 s390x 2:1.6.3-1ubuntu3 [547 kB] Get:14 http://ftpmaster.internal/ubuntu yakkety/main s390x fonts-dejavu-core all 2.36-1 [1041 kB] Get:15 http://ftpmaster.internal/ubuntu yakkety/main s390x ucf all 3.0036 [52.9 kB] Get:16 http://ftpmaster.internal/ubuntu yakkety/main s390x fontconfig-config all 2.11.94-0ubuntu1 [49.9 kB] Get:17 http://ftpmaster.internal/ubuntu yakkety/main s390x libexpat1 s390x 2.2.0-1 [66.0 kB] Get:18 http://ftpmaster.internal/ubuntu yakkety/main s390x libfreetype6 s390x 2.6.3-3ubuntu1 [309 kB] Get:19 http://ftpmaster.internal/ubuntu yakkety/main s390x libfontconfig1 s390x 2.11.94-0ubuntu1 [128 kB] Get:20 http://ftpmaster.internal/ubuntu yakkety/main s390x libjpeg8 s390x 8c-2ubuntu8 [2142 B] Get:21 http://ftpmaster.internal/ubuntu yakkety/main s390x libxext6 s390x 2:1.3.3-1 [27.8 kB] Get:22 http://ftpmaster.internal/ubuntu yakkety/main s390x libxrender1 s390x 1:0.9.9-2 [17.7 kB] Get:23 http://ftpmaster.internal/ubuntu yakkety/main s390x libxft2 s390x 2.3.2-1 [36.7 kB] Get:24 http://ftpmaster.internal/ubuntu yakkety/main s390x libice6 s390x 2:1.0.9-1 [37.3 kB] Get:25 http://ftpmaster.internal/ubuntu yakkety/main s390x libsm6 s390x 2:1.2.2-1 [15.3 kB] Get:26 http://ftpmaster.internal/ubuntu yakkety/main s390x libxt6 s390x 1:1.1.5-1 [147 kB] Get:27 http://ftpmaster.internal/ubuntu yakkety/main s390x libxmu6 s390x 2:1.1.2-2 [43.8 kB] Get:28 http://ftpmaster.internal/ubuntu yakkety/universe s390x libxm4 s390x 2.3.4-10build1 [923 kB] Get:29 http://ftpmaster.internal/ubuntu yakkety/universe s390x libmrm4 s390x 2.3.4-10build1 [53.2 kB] Get:30 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x libpcrecpp0v5 s390x 2:8.39-1 [14.6 kB] Get:31 http://ftpmaster.internal/ubuntu 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[192 kB] Get:42 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x autoconf all 2.69-10 [321 kB] Get:43 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x autotools-dev all 20160430.1 [39.6 kB] Get:44 http://ftpmaster.internal/ubuntu yakkety/main s390x automake all 1:1.15-4ubuntu1 [510 kB] Get:45 http://ftpmaster.internal/ubuntu yakkety/main s390x autopoint all 0.19.8.1-1ubuntu2 [412 kB] Get:46 http://ftpmaster.internal/ubuntu yakkety/universe s390x csh s390x 20110502-2.1ubuntu1 [238 kB] Get:47 http://ftpmaster.internal/ubuntu yakkety/main s390x libcroco3 s390x 0.6.11-1 [76.5 kB] Get:48 http://ftpmaster.internal/ubuntu yakkety/main s390x libunistring0 s390x 0.9.3-5.2ubuntu1 [262 kB] Get:49 http://ftpmaster.internal/ubuntu yakkety/main s390x gettext s390x 0.19.8.1-1ubuntu2 [1054 kB] Get:50 http://ftpmaster.internal/ubuntu yakkety/main s390x intltool-debian all 0.35.0+20060710.4 [24.9 kB] Get:51 http://ftpmaster.internal/ubuntu yakkety/main s390x po-debconf all 1.0.19 [234 kB] Get:52 http://ftpmaster.internal/ubuntu yakkety/main s390x libarchive-zip-perl all 1.58-1 [84.0 kB] Get:53 http://ftpmaster.internal/ubuntu yakkety/main s390x libfile-stripnondeterminism-perl all 0.022-1 [11.7 kB] Get:54 http://ftpmaster.internal/ubuntu yakkety/main s390x libtimedate-perl all 2.3000-2 [37.5 kB] Get:55 http://ftpmaster.internal/ubuntu yakkety/main s390x dh-strip-nondeterminism all 0.022-1 [4856 B] Get:56 http://ftpmaster.internal/ubuntu yakkety/main s390x libtool all 2.4.6-1 [194 kB] Get:57 http://ftpmaster.internal/ubuntu yakkety/main s390x dh-autoreconf all 12 [15.8 kB] Get:58 http://ftpmaster.internal/ubuntu yakkety/main s390x debhelper all 9.20160709ubuntu1 [707 kB] Get:59 http://ftpmaster.internal/ubuntu yakkety/main s390x libdrm-amdgpu1 s390x 2.4.70-1 [15.8 kB] Get:60 http://ftpmaster.internal/ubuntu yakkety/main s390x libdrm-radeon1 s390x 2.4.70-1 [20.8 kB] Get:61 http://ftpmaster.internal/ubuntu yakkety/main s390x libdrm-nouveau2 s390x 2.4.70-1 [15.7 kB] Get:62 http://ftpmaster.internal/ubuntu yakkety/main s390x libdrm-dev s390x 2.4.70-1 [154 kB] Get:63 http://ftpmaster.internal/ubuntu yakkety/main s390x libexpat1-dev s390x 2.2.0-1 [118 kB] Get:64 http://ftpmaster.internal/ubuntu yakkety/main s390x zlib1g-dev s390x 1:1.2.8.dfsg-2ubuntu5 [168 kB] Get:65 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x libpng-dev s390x 1.6.24-2 [138 kB] Get:66 http://ftpmaster.internal/ubuntu yakkety/main s390x libfreetype6-dev s390x 2.6.3-3ubuntu1 [5176 kB] Get:67 http://ftpmaster.internal/ubuntu yakkety/main s390x pkg-config s390x 0.29.1-0ubuntu1 [44.2 kB] Get:68 http://ftpmaster.internal/ubuntu yakkety/main s390x libfontconfig1-dev s390x 2.11.94-0ubuntu1 [659 kB] Get:69 http://ftpmaster.internal/ubuntu yakkety/main s390x libgl1-mesa-dri s390x 12.0.1-3ubuntu2 [2383 kB] Get:70 http://ftpmaster.internal/ubuntu yakkety/main s390x libglapi-mesa s390x 12.0.1-3ubuntu2 [44.7 kB] Get:71 http://ftpmaster.internal/ubuntu yakkety/main s390x libx11-xcb1 s390x 2:1.6.3-1ubuntu3 [8876 B] Get:72 http://ftpmaster.internal/ubuntu yakkety/main s390x libxcb-dri2-0 s390x 1.11.1-1ubuntu1 [6946 B] Get:73 http://ftpmaster.internal/ubuntu yakkety/main s390x libxcb-dri3-0 s390x 1.11.1-1ubuntu1 [5154 B] Get:74 http://ftpmaster.internal/ubuntu yakkety/main s390x libxcb-glx0 s390x 1.11.1-1ubuntu1 [20.8 kB] Get:75 http://ftpmaster.internal/ubuntu yakkety/main s390x libxcb-present0 s390x 1.11.1-1ubuntu1 [5164 B] Get:76 http://ftpmaster.internal/ubuntu yakkety/main s390x libxcb-sync1 s390x 1.11.1-1ubuntu1 [8196 B] Get:77 http://ftpmaster.internal/ubuntu yakkety/main s390x libxdamage1 s390x 1:1.1.4-2 [6726 B] Get:78 http://ftpmaster.internal/ubuntu yakkety/main s390x libxfixes3 s390x 1:5.0.2-1 [10.4 kB] Get:79 http://ftpmaster.internal/ubuntu yakkety/main s390x libxshmfence1 s390x 1.2-1 [4874 B] Get:80 http://ftpmaster.internal/ubuntu yakkety/main s390x libxxf86vm1 s390x 1:1.1.4-1 [9952 B] Get:81 http://ftpmaster.internal/ubuntu yakkety/main s390x libgl1-mesa-glx s390x 12.0.1-3ubuntu2 [132 kB] Get:82 http://ftpmaster.internal/ubuntu yakkety/main s390x libglu1-mesa s390x 9.0.0-2.1build1 [156 kB] Get:83 http://ftpmaster.internal/ubuntu yakkety/main s390x xorg-sgml-doctools all 1:1.11-1 [12.9 kB] Get:84 http://ftpmaster.internal/ubuntu yakkety/main s390x x11proto-core-dev all 7.0.29-1ubuntu1 [253 kB] Get:85 http://ftpmaster.internal/ubuntu yakkety/main s390x libxau-dev s390x 1:1.0.8-1 [9352 B] Get:86 http://ftpmaster.internal/ubuntu yakkety/main s390x libxdmcp-dev s390x 1:1.1.2-1.1 [25.2 kB] Get:87 http://ftpmaster.internal/ubuntu yakkety/main s390x x11proto-input-dev all 2.3.2-1 [118 kB] Get:88 http://ftpmaster.internal/ubuntu yakkety/main s390x x11proto-kb-dev all 1.0.7-1 [226 kB] Get:89 http://ftpmaster.internal/ubuntu yakkety/main s390x xtrans-dev all 1.3.5-1 [70.5 kB] Get:90 http://ftpmaster.internal/ubuntu yakkety/main s390x libpthread-stubs0-dev s390x 0.3-4 [3892 B] Get:91 http://ftpmaster.internal/ubuntu yakkety/main s390x libxcb1-dev s390x 1.11.1-1ubuntu1 [73.7 kB] Get:92 http://ftpmaster.internal/ubuntu yakkety/main s390x libx11-dev s390x 2:1.6.3-1ubuntu3 [609 kB] Get:93 http://ftpmaster.internal/ubuntu yakkety/main s390x mesa-common-dev s390x 12.0.1-3ubuntu2 [465 kB] Get:94 http://ftpmaster.internal/ubuntu yakkety/main s390x libx11-xcb-dev s390x 2:1.6.3-1ubuntu3 [9710 B] Get:95 http://ftpmaster.internal/ubuntu yakkety/main s390x libxcb-dri3-dev s390x 1.11.1-1ubuntu1 [5790 B] Get:96 http://ftpmaster.internal/ubuntu yakkety/main s390x libxcb-randr0 s390x 1.11.1-1ubuntu1 [14.6 kB] Get:97 http://ftpmaster.internal/ubuntu yakkety/main s390x libxcb-render0 s390x 1.11.1-1ubuntu1 [11.4 kB] Get:98 http://ftpmaster.internal/ubuntu yakkety/main s390x libxcb-render0-dev s390x 1.11.1-1ubuntu1 [15.4 kB] Get:99 http://ftpmaster.internal/ubuntu yakkety/main s390x libxcb-randr0-dev s390x 1.11.1-1ubuntu1 [18.7 kB] Get:100 http://ftpmaster.internal/ubuntu yakkety/main s390x libxcb-xfixes0 s390x 1.11.1-1ubuntu1 [8792 B] Get:101 http://ftpmaster.internal/ubuntu yakkety/main s390x libxcb-shape0 s390x 1.11.1-1ubuntu1 [5694 B] Get:102 http://ftpmaster.internal/ubuntu yakkety/main s390x libxcb-shape0-dev s390x 1.11.1-1ubuntu1 [6944 B] Get:103 http://ftpmaster.internal/ubuntu yakkety/main s390x libxcb-xfixes0-dev s390x 1.11.1-1ubuntu1 [11.4 kB] Get:104 http://ftpmaster.internal/ubuntu yakkety/main s390x libxcb-sync-dev s390x 1.11.1-1ubuntu1 [10.2 kB] Get:105 http://ftpmaster.internal/ubuntu yakkety/main s390x libxcb-present-dev s390x 1.11.1-1ubuntu1 [6692 B] Get:106 http://ftpmaster.internal/ubuntu yakkety/main s390x libxshmfence-dev s390x 1.2-1 [3660 B] Get:107 http://ftpmaster.internal/ubuntu yakkety/main s390x libxcb-dri2-0-dev s390x 1.11.1-1ubuntu1 [8580 B] Get:108 http://ftpmaster.internal/ubuntu yakkety/main s390x libxcb-glx0-dev s390x 1.11.1-1ubuntu1 [27.0 kB] Get:109 http://ftpmaster.internal/ubuntu yakkety/main s390x x11proto-xext-dev all 7.3.0-1 [212 kB] Get:110 http://ftpmaster.internal/ubuntu yakkety/main s390x x11proto-fixes-dev all 1:5.0-2ubuntu2 [14.2 kB] Get:111 http://ftpmaster.internal/ubuntu yakkety/main s390x libxfixes-dev s390x 1:5.0.2-1 [10.7 kB] Get:112 http://ftpmaster.internal/ubuntu yakkety/main s390x x11proto-damage-dev all 1:1.2.1-2 [8286 B] Get:113 http://ftpmaster.internal/ubuntu yakkety/main s390x libxdamage-dev s390x 1:1.1.4-2 [4928 B] Get:114 http://ftpmaster.internal/ubuntu yakkety/main s390x libxext-dev s390x 2:1.3.3-1 [81.1 kB] Get:115 http://ftpmaster.internal/ubuntu yakkety/main s390x x11proto-xf86vidmode-dev all 2.3.1-2 [6116 B] Get:116 http://ftpmaster.internal/ubuntu yakkety/main s390x libxxf86vm-dev s390x 1:1.1.4-1 [12.9 kB] Get:117 http://ftpmaster.internal/ubuntu yakkety/main s390x x11proto-dri2-dev all 2.8-2 [12.6 kB] Get:118 http://ftpmaster.internal/ubuntu yakkety/main s390x x11proto-gl-dev all 1.4.17-1 [17.9 kB] Get:119 http://ftpmaster.internal/ubuntu yakkety/main s390x libgl1-mesa-dev s390x 12.0.1-3ubuntu2 [4372 B] Get:120 http://ftpmaster.internal/ubuntu yakkety/main s390x libglu1-mesa-dev s390x 9.0.0-2.1build1 [193 kB] Get:121 http://ftpmaster.internal/ubuntu yakkety/main s390x libice-dev s390x 2:1.0.9-1 [44.7 kB] Get:122 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x libpcre16-3 s390x 2:8.39-1 [80.6 kB] Get:123 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x libpcre32-3 s390x 2:8.39-1 [75.2 kB] Get:124 http://ftpmaster.internal/ubuntu yakkety-proposed/main s390x libpcre3-dev s390x 2:8.39-1 [373 kB] Get:125 http://ftpmaster.internal/ubuntu yakkety/main s390x libsm-dev s390x 2:1.2.2-1 [16.5 kB] Get:126 http://ftpmaster.internal/ubuntu yakkety/main s390x x11proto-render-dev all 2:0.11.1-2 [20.1 kB] Get:127 http://ftpmaster.internal/ubuntu yakkety/main s390x libxrender-dev s390x 1:0.9.9-2 [23.9 kB] Get:128 http://ftpmaster.internal/ubuntu yakkety/main s390x libxft-dev s390x 2.3.2-1 [47.5 kB] Get:129 http://ftpmaster.internal/ubuntu yakkety/main s390x libxt-dev s390x 1:1.1.5-1 [386 kB] Get:130 http://ftpmaster.internal/ubuntu yakkety/main s390x libxmu-headers all 2:1.1.2-2 [54.3 kB] Get:131 http://ftpmaster.internal/ubuntu yakkety/main s390x libxmu-dev s390x 2:1.1.2-2 [47.9 kB] Get:132 http://ftpmaster.internal/ubuntu yakkety/universe s390x uil s390x 2.3.4-10build1 [7336 B] Get:133 http://ftpmaster.internal/ubuntu yakkety/universe s390x libmotif-dev s390x 2.3.4-10build1 [2395 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 35.6 MB in 47s (746 kB/s) Selecting previously unselected package groff-base. (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 ... 12886 files and directories currently installed.) Preparing to unpack .../0-groff-base_1.22.3-8_s390x.deb ... Unpacking groff-base (1.22.3-8) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../1-bsdmainutils_9.0.6ubuntu3_s390x.deb ... Unpacking bsdmainutils (9.0.6ubuntu3) ... Selecting previously unselected package libpipeline1:s390x. Preparing to unpack .../2-libpipeline1_1.4.1-2_s390x.deb ... Unpacking libpipeline1:s390x (1.4.1-2) ... Selecting previously unselected package man-db. Preparing to unpack .../3-man-db_2.7.5-1_s390x.deb ... Unpacking man-db (2.7.5-1) ... Selecting previously unselected package libjpeg-turbo8:s390x. Preparing to unpack .../4-libjpeg-turbo8_1.5.0-0ubuntu1_s390x.deb ... Unpacking libjpeg-turbo8:s390x (1.5.0-0ubuntu1) ... Selecting previously unselected package x11-common. Preparing to unpack .../5-x11-common_1%3a7.7+13ubuntu3_all.deb ... Unpacking x11-common (1:7.7+13ubuntu3) ... Setting up x11-common (1:7.7+13ubuntu3) ... 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. 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 ... 13409 files and directories currently installed.) Preparing to unpack .../000-libmotif-common_2.3.4-10build1_all.deb ... Unpacking libmotif-common (2.3.4-10build1) ... Selecting previously unselected package libxau6:s390x. Preparing to unpack .../001-libxau6_1%3a1.0.8-1_s390x.deb ... Unpacking libxau6:s390x (1:1.0.8-1) ... Selecting previously unselected package libxdmcp6:s390x. Preparing to unpack .../002-libxdmcp6_1%3a1.1.2-1.1_s390x.deb ... Unpacking libxdmcp6:s390x (1:1.1.2-1.1) ... Selecting previously unselected package libxcb1:s390x. Preparing to unpack .../003-libxcb1_1.11.1-1ubuntu1_s390x.deb ... Unpacking libxcb1:s390x (1.11.1-1ubuntu1) ... Selecting previously unselected package libx11-data. Preparing to unpack .../004-libx11-data_2%3a1.6.3-1ubuntu3_all.deb ... Unpacking libx11-data (2:1.6.3-1ubuntu3) ... Selecting previously unselected package libx11-6:s390x. Preparing to unpack .../005-libx11-6_2%3a1.6.3-1ubuntu3_s390x.deb ... Unpacking libx11-6:s390x (2:1.6.3-1ubuntu3) ... Selecting previously unselected package fonts-dejavu-core. Preparing to unpack .../006-fonts-dejavu-core_2.36-1_all.deb ... Unpacking fonts-dejavu-core (2.36-1) ... Selecting previously unselected package ucf. Preparing to unpack .../007-ucf_3.0036_all.deb ... Moving old data out of the way Unpacking ucf (3.0036) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../008-fontconfig-config_2.11.94-0ubuntu1_all.deb ... Unpacking fontconfig-config (2.11.94-0ubuntu1) ... Selecting previously unselected package libexpat1:s390x. Preparing to unpack .../009-libexpat1_2.2.0-1_s390x.deb ... Unpacking libexpat1:s390x (2.2.0-1) ... Selecting previously unselected package libfreetype6:s390x. Preparing to unpack .../010-libfreetype6_2.6.3-3ubuntu1_s390x.deb ... Unpacking libfreetype6:s390x (2.6.3-3ubuntu1) ... Selecting previously unselected package libfontconfig1:s390x. Preparing to unpack .../011-libfontconfig1_2.11.94-0ubuntu1_s390x.deb ... Unpacking libfontconfig1:s390x (2.11.94-0ubuntu1) ... Selecting previously unselected package libjpeg8:s390x. Preparing to unpack .../012-libjpeg8_8c-2ubuntu8_s390x.deb ... Unpacking libjpeg8:s390x (8c-2ubuntu8) ... Selecting previously unselected package libxext6:s390x. Preparing to unpack .../013-libxext6_2%3a1.3.3-1_s390x.deb ... Unpacking libxext6:s390x (2:1.3.3-1) ... Selecting previously unselected package libxrender1:s390x. Preparing to unpack .../014-libxrender1_1%3a0.9.9-2_s390x.deb ... Unpacking libxrender1:s390x (1:0.9.9-2) ... Selecting previously unselected package libxft2:s390x. Preparing to unpack .../015-libxft2_2.3.2-1_s390x.deb ... Unpacking libxft2:s390x (2.3.2-1) ... Selecting previously unselected package libice6:s390x. Preparing to unpack .../016-libice6_2%3a1.0.9-1_s390x.deb ... Unpacking libice6:s390x (2:1.0.9-1) ... Selecting previously unselected package libsm6:s390x. Preparing to unpack .../017-libsm6_2%3a1.2.2-1_s390x.deb ... Unpacking libsm6:s390x (2:1.2.2-1) ... Selecting previously unselected package libxt6:s390x. Preparing to unpack .../018-libxt6_1%3a1.1.5-1_s390x.deb ... Unpacking libxt6:s390x (1:1.1.5-1) ... Selecting previously unselected package libxmu6:s390x. Preparing to unpack .../019-libxmu6_2%3a1.1.2-2_s390x.deb ... Unpacking libxmu6:s390x (2:1.1.2-2) ... Selecting previously unselected package libxm4:s390x. Preparing to unpack .../020-libxm4_2.3.4-10build1_s390x.deb ... Unpacking libxm4:s390x (2.3.4-10build1) ... Selecting previously unselected package libmrm4:s390x. Preparing to unpack .../021-libmrm4_2.3.4-10build1_s390x.deb ... Unpacking libmrm4:s390x (2.3.4-10build1) ... Selecting previously unselected package libpcrecpp0v5:s390x. Preparing to unpack .../022-libpcrecpp0v5_2%3a8.39-1_s390x.deb ... Unpacking libpcrecpp0v5:s390x (2:8.39-1) ... Selecting previously unselected package libuil4:s390x. Preparing to unpack .../023-libuil4_2.3.4-10build1_s390x.deb ... Unpacking libuil4:s390x (2.3.4-10build1) ... Selecting previously unselected package libmagic1:s390x. Preparing to unpack .../024-libmagic1_1%3a5.28-2ubuntu1_s390x.deb ... Unpacking libmagic1:s390x (1:5.28-2ubuntu1) ... Selecting previously unselected package file. Preparing to unpack .../025-file_1%3a5.28-2ubuntu1_s390x.deb ... Unpacking file (1:5.28-2ubuntu1) ... Selecting previously unselected package libbsd0:s390x. Preparing to unpack .../026-libbsd0_0.8.3-1_s390x.deb ... Unpacking libbsd0:s390x (0.8.3-1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../027-gettext-base_0.19.8.1-1ubuntu2_s390x.deb ... Unpacking gettext-base (0.19.8.1-1ubuntu2) ... Selecting previously unselected package libdrm2:s390x. Preparing to unpack .../028-libdrm2_2.4.70-1_s390x.deb ... Unpacking libdrm2:s390x (2.4.70-1) ... Selecting previously unselected package libglib2.0-0:s390x. Preparing to unpack .../029-libglib2.0-0_2.49.2-2_s390x.deb ... Unpacking libglib2.0-0:s390x (2.49.2-2) ... Selecting previously unselected package libicu57:s390x. Preparing to unpack .../030-libicu57_57.1-2_s390x.deb ... Unpacking libicu57:s390x (57.1-2) ... Selecting previously unselected package libxml2:s390x. Preparing to unpack .../031-libxml2_2.9.4+dfsg1-1_s390x.deb ... Unpacking libxml2:s390x (2.9.4+dfsg1-1) ... Selecting previously unselected package libsigsegv2:s390x. Preparing to unpack .../032-libsigsegv2_2.10-5_s390x.deb ... Unpacking libsigsegv2:s390x (2.10-5) ... Selecting previously unselected package m4. Preparing to unpack .../033-m4_1.4.17-5_s390x.deb ... Unpacking m4 (1.4.17-5) ... Selecting previously unselected package autoconf. Preparing to unpack .../034-autoconf_2.69-10_all.deb ... Unpacking autoconf (2.69-10) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../035-autotools-dev_20160430.1_all.deb ... Unpacking autotools-dev (20160430.1) ... Selecting previously unselected package automake. Preparing to unpack .../036-automake_1%3a1.15-4ubuntu1_all.deb ... Unpacking automake (1:1.15-4ubuntu1) ... Selecting previously unselected package autopoint. Preparing to unpack .../037-autopoint_0.19.8.1-1ubuntu2_all.deb ... Unpacking autopoint (0.19.8.1-1ubuntu2) ... Selecting previously unselected package csh. Preparing to unpack .../038-csh_20110502-2.1ubuntu1_s390x.deb ... Unpacking csh (20110502-2.1ubuntu1) ... Selecting previously unselected package libcroco3:s390x. Preparing to unpack .../039-libcroco3_0.6.11-1_s390x.deb ... Unpacking libcroco3:s390x (0.6.11-1) ... Selecting previously unselected package libunistring0:s390x. Preparing to unpack .../040-libunistring0_0.9.3-5.2ubuntu1_s390x.deb ... Unpacking libunistring0:s390x (0.9.3-5.2ubuntu1) ... Selecting previously unselected package gettext. Preparing to unpack .../041-gettext_0.19.8.1-1ubuntu2_s390x.deb ... Unpacking gettext (0.19.8.1-1ubuntu2) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../042-intltool-debian_0.35.0+20060710.4_all.deb ... Unpacking intltool-debian (0.35.0+20060710.4) ... Selecting previously unselected package po-debconf. Preparing to unpack .../043-po-debconf_1.0.19_all.deb ... Unpacking po-debconf (1.0.19) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../044-libarchive-zip-perl_1.58-1_all.deb ... Unpacking libarchive-zip-perl (1.58-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../045-libfile-stripnondeterminism-perl_0.022-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (0.022-1) ... Selecting previously unselected package libtimedate-perl. Preparing to unpack .../046-libtimedate-perl_2.3000-2_all.deb ... Unpacking libtimedate-perl (2.3000-2) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../047-dh-strip-nondeterminism_0.022-1_all.deb ... Unpacking dh-strip-nondeterminism (0.022-1) ... Selecting previously unselected package libtool. Preparing to unpack .../048-libtool_2.4.6-1_all.deb ... Unpacking libtool (2.4.6-1) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../049-dh-autoreconf_12_all.deb ... Unpacking dh-autoreconf (12) ... Selecting previously unselected package debhelper. 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Setting up libglapi-mesa:s390x (12.0.1-3ubuntu2) ... Setting up m4 (1.4.17-5) ... Setting up libicu57:s390x (57.1-2) ... Setting up libbsd0:s390x (0.8.3-1) ... Setting up ucf (3.0036) ... Setting up libxml2:s390x (2.9.4+dfsg1-1) ... Setting up libfreetype6:s390x (2.6.3-3ubuntu1) ... Setting up libdrm2:s390x (2.4.70-1) ... Setting up libmagic1:s390x (1:5.28-2ubuntu1) ... Setting up libcroco3:s390x (0.6.11-1) ... Setting up pkg-config (0.29.1-0ubuntu1) ... Setting up libx11-xcb1:s390x (2:1.6.3-1ubuntu3) ... Setting up xtrans-dev (1.3.5-1) ... Processing triggers for libc-bin (2.24-0ubuntu1) ... Setting up autotools-dev (20160430.1) ... Setting up libunistring0:s390x (0.9.3-5.2ubuntu1) ... Setting up x11proto-gl-dev (1.4.17-1) ... Processing triggers for systemd (231-1) ... Setting up libice6:s390x (2:1.0.9-1) ... Setting up libexpat1-dev:s390x (2.2.0-1) ... Setting up libpcrecpp0v5:s390x (2:8.39-1) ... Setting up libpcre32-3:s390x (2:8.39-1) ... Setting up libdrm-radeon1:s390x (2.4.70-1) ... Setting up libpcre16-3:s390x (2:8.39-1) ... Setting up libxdmcp6:s390x (1:1.1.2-1.1) ... Setting up libdrm-nouveau2:s390x (2.4.70-1) ... Setting up bsdmainutils (9.0.6ubuntu3) ... 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 csh (20110502-2.1ubuntu1) ... update-alternatives: using /bin/bsd-csh to provide /bin/csh (csh) in auto mode Setting up libx11-data (2:1.6.3-1ubuntu3) ... Setting up libxau6:s390x (1:1.0.8-1) ... Setting up autopoint (0.19.8.1-1ubuntu2) ... Setting up zlib1g-dev:s390x (1:1.2.8.dfsg-2ubuntu5) ... Setting up libfile-stripnondeterminism-perl (0.022-1) ... Setting up libjpeg8:s390x (8c-2ubuntu8) ... Setting up libsm6:s390x (2:1.2.2-1) ... Setting up libpcre3-dev:s390x (2:8.39-1) ... Setting up fontconfig-config (2.11.94-0ubuntu1) ... Setting up x11proto-core-dev (7.0.29-1ubuntu1) ... Setting up libdrm-amdgpu1:s390x (2.4.70-1) ... Setting up libxshmfence-dev:s390x (1.2-1) ... Setting up gettext (0.19.8.1-1ubuntu2) ... Setting up libdrm-dev:s390x (2.4.70-1) ... Setting up libgl1-mesa-dri:s390x (12.0.1-3ubuntu2) ... Setting up libxau-dev:s390x (1:1.0.8-1) ... Setting up autoconf (2.69-10) ... Setting up file (1:5.28-2ubuntu1) ... Setting up intltool-debian (0.35.0+20060710.4) ... Setting up libxdmcp-dev:s390x (1:1.1.2-1.1) ... Setting up libice-dev:s390x (2:1.0.9-1) ... Setting up automake (1:1.15-4ubuntu1) ... update-alternatives: using /usr/bin/automake-1.15 to provide /usr/bin/automake (automake) in auto mode Setting up man-db (2.7.5-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libpng-dev:s390x (1.6.24-2) ... Setting up x11proto-render-dev (2:0.11.1-2) ... Setting up libxcb1:s390x (1.11.1-1ubuntu1) ... Setting up x11proto-input-dev (2.3.2-1) ... Setting up libtool (2.4.6-1) ... Setting up libxcb-present0:s390x (1.11.1-1ubuntu1) ... Setting up libfontconfig1:s390x (2.11.94-0ubuntu1) ... Setting up libxcb-dri2-0:s390x (1.11.1-1ubuntu1) ... Setting up libxcb-dri3-0:s390x (1.11.1-1ubuntu1) ... Setting up libsm-dev:s390x (2:1.2.2-1) ... Setting up libxcb-glx0:s390x (1.11.1-1ubuntu1) ... Setting up libxcb-randr0:s390x (1.11.1-1ubuntu1) ... Setting up libxcb-xfixes0:s390x (1.11.1-1ubuntu1) ... Setting up libxcb-render0:s390x (1.11.1-1ubuntu1) ... Setting up po-debconf (1.0.19) ... Setting up libx11-6:s390x (2:1.6.3-1ubuntu3) ... Setting up libxcb-sync1:s390x (1.11.1-1ubuntu1) ... Setting up x11proto-xext-dev (7.3.0-1) ... Setting up libfreetype6-dev:s390x (2.6.3-3ubuntu1) ... Setting up libxt6:s390x (1:1.1.5-1) ... Setting up libxcb-shape0:s390x (1.11.1-1ubuntu1) ... Setting up libxrender1:s390x (1:0.9.9-2) ... Setting up libxcb1-dev:s390x (1.11.1-1ubuntu1) ... Setting up libxcb-glx0-dev:s390x (1.11.1-1ubuntu1) ... Setting up libx11-dev:s390x (2:1.6.3-1ubuntu3) ... Setting up libxft2:s390x (2.3.2-1) ... Setting up libxcb-sync-dev:s390x (1.11.1-1ubuntu1) ... Setting up libfontconfig1-dev:s390x (2.11.94-0ubuntu1) ... Setting up libx11-xcb-dev:s390x (2:1.6.3-1ubuntu3) ... Setting up libxt-dev:s390x (1:1.1.5-1) ... Setting up libxdamage1:s390x (1:1.1.4-2) ... Setting up mesa-common-dev:s390x (12.0.1-3ubuntu2) ... Setting up libxext6:s390x (2:1.3.3-1) ... Setting up libxfixes3:s390x (1:5.0.2-1) ... Setting up libxmu-headers (2:1.1.2-2) ... Setting up x11proto-fixes-dev (1:5.0-2ubuntu2) ... Setting up libxrender-dev:s390x (1:0.9.9-2) ... Setting up libxmu6:s390x (2:1.1.2-2) ... Setting up libxcb-dri2-0-dev:s390x (1.11.1-1ubuntu1) ... Setting up libxcb-render0-dev:s390x (1.11.1-1ubuntu1) ... Setting up x11proto-damage-dev (1:1.2.1-2) ... Setting up libxft-dev (2.3.2-1) ... Setting up libxcb-dri3-dev:s390x (1.11.1-1ubuntu1) ... Setting up libxext-dev:s390x (2:1.3.3-1) ... Setting up libxm4:s390x (2.3.4-10build1) ... Setting up libxcb-shape0-dev:s390x (1.11.1-1ubuntu1) ... Setting up libxxf86vm1:s390x (1:1.1.4-1) ... Setting up libxxf86vm-dev:s390x (1:1.1.4-1) ... Setting up libxfixes-dev:s390x (1:5.0.2-1) ... Setting up libxcb-randr0-dev:s390x (1.11.1-1ubuntu1) ... Setting up libxmu-dev:s390x (2:1.1.2-2) ... Setting up libxcb-xfixes0-dev:s390x (1.11.1-1ubuntu1) ... Setting up libmrm4:s390x (2.3.4-10build1) ... Setting up libxdamage-dev:s390x (1:1.1.4-2) ... Setting up libuil4:s390x (2.3.4-10build1) ... Setting up libgl1-mesa-glx:s390x (12.0.1-3ubuntu2) ... update-alternatives: using /usr/lib/s390x-linux-gnu/mesa/ld.so.conf to provide /etc/ld.so.conf.d/s390x-linux-gnu_GL.conf (s390x-linux-gnu_gl_conf) in auto mode Setting up libglu1-mesa:s390x (9.0.0-2.1build1) ... Setting up libxcb-present-dev:s390x (1.11.1-1ubuntu1) ... Setting up uil (2.3.4-10build1) ... Setting up libgl1-mesa-dev:s390x (12.0.1-3ubuntu2) ... Setting up libmotif-dev:s390x (2.3.4-10build1) ... Setting up libglu1-mesa-dev:s390x (9.0.0-2.1build1) ... Setting up dh-autoreconf (12) ... Setting up debhelper (9.20160709ubuntu1) ... Setting up dh-strip-nondeterminism (0.022-1) ... Setting up sbuild-build-depends-ncbi-tools6-dummy (0.invalid.0) ... 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key not found dpkg-source: warning: failed to verify signature on ./ncbi-tools6_6.1.20120620-11.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_6.1.20120620-11.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/corelib/ncbitime.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 ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=4 HOME=/home/buildd LANG=C.UTF-8 LC_ALL=C.UTF-8 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=/<> SHELL=/bin/sh SUDO_COMMAND=/usr/sbin/chroot /<> su buildd -s /bin/sh -c cd '/<>' && 'env' SUDO_GID=2501 SUDO_UID=2001 SUDO_USER=buildd TERM=unknown USER=buildd USERNAME=root dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package ncbi-tools6 dpkg-buildpackage: info: source version 6.1.20120620-11 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build ncbi-tools6-6.1.20120620 dpkg-buildpackage: info: host architecture s390x fakeroot debian/rules clean dh clean dh_testdir debian/rules override_dh_auto_clean make[1]: Entering directory '/<>' 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 '/<>' dh_clean debian/rules build-arch dh build-arch dh_testdir -a dh_update_autotools_config -a dh_auto_configure -a debian/rules override_dh_auto_build-arch make[1]: Entering directory '/<>' 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='\"Aug 12 2016\"' -DBUILD_TIME='\"20:29:37\"' -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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='\"Aug 12 2016\"' -DBUILD_TIME='\"20:29:37\"' -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 '/<>/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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbithr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbistd.h:103, from ncbithr.c:289: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbimain.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ncbimain.c:56: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ ncbimain.c:82:1: warning: return type defaults to ‘int’ [-Wimplicit-int] main(int argc, char *argv[]) ^~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbibs.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ncbibs.c:55: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ ncbibs.c: In function ‘Nlm_BSSeek’: ncbibs.c:448:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (sp == bsp->seekptr) /* already in right position */ ^~ ncbibs.c:451:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ bsp->seekptr = sp; ^~~ In file included from ../include/ncbierr.h:105:0, from ../include/ncbimsg.h:78, from ../include/ncbi.h:60, from ncbibs.c:55: ncbibs.c: In function ‘Nlm_BSGetUint2’: ../include/ncbimisc.h:344:31: warning: statement with no effect [-Wunused-value] #define Nlm_SwapUint2(value) (value) ^ ncbibs.c:937:2: note: in expansion of macro ‘Nlm_SwapUint2’ Nlm_SwapUint2(retval); ^~~~~~~~~~~~~ ncbibs.c: In function ‘Nlm_BSGetUint4’: ../include/ncbimisc.h:348:31: warning: statement with no effect [-Wunused-value] #define Nlm_SwapUint4(value) (value) ^ ncbibs.c:947:2: note: in expansion of macro ‘Nlm_SwapUint4’ Nlm_SwapUint4(retval); ^~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF wwwutils.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ncbiwww.h:106, from wwwutils.c:150: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbierr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from corepriv.h:85, from ncbierr.c:235: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ In file included from /usr/include/string.h:635:0, 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/s390x-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbienv.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from corepriv.h:85, from ncbienv.c:306: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbifile.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbifile.c:48: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbiprop.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from corepriv.h:85, from ncbiprop.c:104: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbimath.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ncbimath.h:69, from ncbimath.c:90: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbimem.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ncbimem.c:163: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbimisc.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ncbimisc.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbimsg.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from corepriv.h:85, from ncbimsg.c:167: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbistr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ncbistr.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbisgml.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ncbisgml.c:80: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ In file included from /usr/include/string.h:635:0, 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/s390x-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/s390x-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/s390x-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/s390x-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbitime.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ncbitime.c:77: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbilang.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ncbilang.c:57: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF asnbufo.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from asnbufo.c:62: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF asndebin.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from asnbuild.h:70, from asndebin.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ asndebin.c: In function ‘AsnBinReadVal’: asndebin.c:545:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ asndebin.c:548:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ if (atp == NULL) ^~ asndebin.c:614:13: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else /* empty sequence written */ ^~~~ asndebin.c:616:7: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ while (atp2 != NULL) ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF asnenbin.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from asnbuild.h:70, from asnenbin.c:88: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF asngen.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from asnbuild.h:70, from asngen.c:80: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF asnio.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from asnbuild.h:70, from asnio.c:150: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ asnio.c: In function ‘AsnIoWriteBlock’: asnio.c:765:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else /* use alternative write function */ ^~~~ asnio.c:768:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ if (retval != bytes_to_write) ^~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF asnlex.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from asnbuild.h:70, from asnlex.c:104: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ asnlex.c: In function ‘AsnTxtReadId’: asnlex.c:250:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if ((token == END_STRUCT) && ((isa == SEQ_TYPE) || (isa == SET_TYPE))) ^~ asnlex.c:253:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (token != IDENT) ^~ asnlex.c: In function ‘AsnTxtReadVal’: asnlex.c:397:13: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else /* empty sequence written */ ^~~~ asnlex.c:399:7: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ while (atp2 != NULL) ^~~~~ At top level: asnlex.c:1322:13: warning: ‘AsnLexWordUTF8’ defined but not used [-Wunused-function] static Int2 AsnLexWordUTF8 (AsnIoPtr aip) ^~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF asnlext.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from asnbuild.h:70, from asnlext.c:57: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF asnout.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from asnbuild.h:70, from asnout.c:79: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ asnout.c: In function ‘AsnOutput’: asnout.c:159:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ asnout.c:162:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ for (i = 0; i < 12; i++) ^~~ asnout.c:213:9: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! loader) ^~ asnout.c:216:3: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ attvp = p.root_tmpvalue.next; ^~~~~ asnout.c:270:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! loader) ^~ asnout.c:273:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ attp = p.root_tmptype.next; ^~~~ asnout.c:450:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! loader) ^~ asnout.c:453:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ i = 1; ^ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF asnprint.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from asnbuild.h:70, from asnprint.c:53: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF asntypes.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from asnbuild.h:70, from asntypes.c:111: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ asntypes.c: In function ‘AsnEnumTypeStr’: asntypes.c:1383:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if ((atp->type->isa != ENUM_TYPE) && (atp->type->isa != INTEGER_TYPE)) ^~ asntypes.c:1386:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ avnp = (AsnValxNodePtr) atp->branch; ^~~~ 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", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &isa, name, &tagclass, &tagnumber, bools, bools+1, bools+2, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ bools+3, bools+4, &defaultvalue, &type, &branch, &next); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF asngenob.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from asngenob.c:72: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF gifgen.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from gifgen.c:137: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF togif.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from togif.c:111: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbithrs.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbistd.h:103, from ncbithrs.c:289: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF tsprintf.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbiargs.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ncbiargs.c:82: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF tree.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/treemgr.h:67, from tree.c:79: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF matrix.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/matrix.h:44, from matrix.c:41: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_socket.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_ansi_ext.h:37, from ncbi_socket.c:37: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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/s390x-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/s390x-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/s390x-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/s390x-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/s390x-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/s390x-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/s390x-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/s390x-linux-gnu/sys/socket.h:280:0, from ncbi_socketp.h:53, from ncbi_connssl.h:37, from ncbi_socket.c:38: /usr/include/s390x-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_buffer.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_types.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_core.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_ansi_ext.h:37, from ncbi_core.c:33: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_core_c.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_ansi_ext.h:37, from ncbi_core_c.c:36: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_util.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_ansi_ext.h:37, from ncbi_util.c:33: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_priv.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_assert.h:35, from ncbi_priv.h:55, from ncbi_priv.c:33: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_ansi_ext.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_ansi_ext.h:37, from ncbi_ansi_ext.c:33: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_connection.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_assert.h:35, from ncbi_priv.h:55, from ncbi_connection.c:34: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_connector.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_assert.h:35, from ncbi_priv.h:55, from ncbi_connector.c:34: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_connutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_ansi_ext.h:37, from ncbi_connutil.c:34: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_file_connector.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_ansi_ext.h:37, from ncbi_file_connector.c:36: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_heapmgr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_assert.h:35, from ncbi_priv.h:55, from ncbi_heapmgr.c:114: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_http_connector.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_ansi_ext.h:37, from ncbi_http_connector.c:36: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_memory_connector.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_lbsmd_stub.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_host_info.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_server_info.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_ansi_ext.h:37, from ncbi_server_info.c:33: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_service.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_ansi_ext.h:37, from ncbi_service.c:33: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_version.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_version.h:37, from ncbi_version.c:33: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_service_connector.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_ansi_ext.h:37, from ncbi_service_connector.c:33: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_ftp_connector.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_ansi_ext.h:37, from ncbi_ftp_connector.c:48: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_dispd.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_ansi_ext.h:37, from ncbi_dispd.c:34: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_lb.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_local.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_ansi_ext.h:37, from ncbi_local.c:34: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_socket_connector.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_ansi_ext.h:37, from ncbi_socket_connector.c:36: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF urlquery.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from asnbuild.h:70, from urlquery.c:42: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF binary.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/binary.h:60, from binary.c:59: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_sendmail.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_ansi_ext.h:37, from ncbi_sendmail.c:33: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_base64.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF asn_connection.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF raw_scoremat.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF drwnflpt.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from drwnflpt.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF drwnfspc.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from drwnfspc.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF drwnmfls.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from drwnmfls.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objacces.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/asnacces.h:9, from objacces.c:62: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ objacces.c: In function ‘LinkSetAsnWrite’: objacces.c:137:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objacces.c:140:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (lsp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objacces.c: In function ‘LinkSetAsnRead’: objacces.c:211:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objacces.c:214:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ lsp = LinkSetNew(); ^~~ objacces.c:215:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (lsp == NULL) ^~ objacces.c:218:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) /* read the start struct */ ^~ objacces.c:221:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objacces.c:223:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) /* get the num */ ^~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objalign.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objalign.h:103, from objalign.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘SeqAlignAsnRead’: objalign.c:595:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objalign.c:598:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ sap = SeqAlignNew(); ^~~ objalign.c:599:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (sap == NULL) ^~ objalign.c:602:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) goto erret; /* read the start struct */ ^~ objalign.c: In function ‘DenseDiagAsnWrite’: objalign.c:1018:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objalign.c:1021:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (ddp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objalign.c: In function ‘DenseDiagAsnRead’: objalign.c:1108:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objalign.c:1111:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ ddp = DenseDiagNew(); ^~~ objalign.c:1112:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (ddp == NULL) ^~ objalign.c:1115:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) goto erret; /* read the start struct */ ^~ objalign.c: In function ‘DenseSegAsnWrite’: objalign.c:1264:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objalign.c:1267:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (dsp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objalign.c: In function ‘DenseSegAsnRead’: objalign.c:1368:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objalign.c:1371:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ dsp = DenseSegNew(); ^~~ objalign.c:1372:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (dsp == NULL) ^~ objalign.c:1375:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) goto erret; /* read the start struct */ ^~ objalign.c: In function ‘StdSegAsnWrite’: objalign.c:1553:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objalign.c:1556:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (ssp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objalign.c:1573:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! SeqLocSetAsnWrite(ssp->loc, aip, STD_SEG_loc, STD_SEG_loc_E)) ^~ objalign.c:1576:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (ssp->scores != NULL) ^~ objalign.c: In function ‘StdSegAsnRead’: objalign.c:1618:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objalign.c:1621:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ ssp = StdSegNew(); ^~~ objalign.c:1622:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (ssp == NULL) ^~ objalign.c:1625:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) goto erret; /* read the start struct */ ^~ objalign.c: In function ‘SeqAlignSetAsnWrite’: objalign.c:1696:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objalign.c:1700:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ oldsap = sap; ^~~~~~ objalign.c: In function ‘PackSegAsnWrite’: objalign.c:1884:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objalign.c:1887:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (psp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objalign.c:1916:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! AsnCloseStruct(aip, PACKED_SEG_starts, (Pointer)psp->starts)) ^~ objalign.c:1919:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ av.ptrvalue = psp->present; ^~ objalign.c: In function ‘PackSegAsnRead’: objalign.c:1989:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objalign.c:1992:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ psp = PackSegNew(); ^~~ objalign.c:1993:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (psp == NULL) ^~ objalign.c:1996:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) goto erret; /* read the start struct */ ^~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objall.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/objall.h:64, from objall.c:63: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objbibli.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/asnbibli.h:9, from objbibli.c:110: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ objbibli.c: In function ‘AffilAsnRead’: objbibli.c:205:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:208:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ afp = AffilNew(); ^~~ objbibli.c: In function ‘AffilAsnWrite’: objbibli.c:293:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:296:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (afp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objbibli.c: In function ‘AuthListFree’: objbibli.c:453:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (alp->affil != NULL) ^~ objbibli.c:455:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ return (AuthListPtr)MemFree(alp); ^~~~~~ objbibli.c: In function ‘AuthListAsnRead’: objbibli.c:484:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:487:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ alp = AuthListNew(); ^~~ objbibli.c: In function ‘AuthListAsnWrite’: objbibli.c:578:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:581:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (alp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objbibli.c:583:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! AsnOpenStruct(aip, atp, (Pointer)alp)) /* open AuthList SEQUENCE */ ^~ objbibli.c:586:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ av.ptrvalue = alp->names; ^~ objbibli.c: In function ‘AuthorFree’: objbibli.c:670:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (ap->affil != NULL) ^~ objbibli.c:672:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ return (AuthorPtr)MemFree(ap); ^~~~~~ objbibli.c: In function ‘AuthorAsnRead’: objbibli.c:700:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:703:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ ap = AuthorNew(); ^~ objbibli.c: In function ‘AuthorAsnWrite’: objbibli.c:772:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:775:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (ap == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objbibli.c: In function ‘CitArtAsnRead’: objbibli.c:916:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:919:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ cap = CitArtNew(); ^~~ objbibli.c: In function ‘CitArtAsnWrite’: objbibli.c:1018:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:1021:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (cap == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objbibli.c:1023:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! AsnOpenStruct(aip, atp, (Pointer)cap)) /* open the SEQUENCE */ ^~ objbibli.c:1026:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (cap->title != NULL) ^~ objbibli.c: In function ‘ImprintAsnRead’: objbibli.c:1141:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:1144:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ ip = ImprintNew(); ^~ objbibli.c: In function ‘ImprintAsnWrite’: objbibli.c:1240:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:1243:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (ip == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objbibli.c: In function ‘CitRetractAsnRead’: objbibli.c:1378:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:1381:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ crp = CitRetractNew(); ^~~ objbibli.c: In function ‘CitRetractAsnWrite’: objbibli.c:1432:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:1435:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (crp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objbibli.c: In function ‘CitJourAsnRead’: objbibli.c:1509:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:1512:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ cjp = CitJourNew(); ^~~ objbibli.c: In function ‘CitJourAsnWrite’: objbibli.c:1561:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:1564:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (cjp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objbibli.c:1570:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! ImprintAsnWrite(cjp->imp, aip, CIT_JOUR_imp)) ^~ objbibli.c:1572:5: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (! AsnCloseStruct(aip, atp, (Pointer)cjp)) /* end SEQUENCE */ ^~ objbibli.c: In function ‘CitBookAsnRead’: objbibli.c:1661:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:1664:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ cbp = CitBookNew(); ^~~ objbibli.c: In function ‘CitBookAsnWrite’: objbibli.c:1729:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:1732:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (cbp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objbibli.c:1745:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! ImprintAsnWrite(cbp->imp, aip, CIT_BOOK_imp)) ^~ objbibli.c:1747:5: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (! AsnCloseStruct(aip, atp, (Pointer)cbp)) /* end SEQUENCE */ ^~ objbibli.c: In function ‘CitProcAsnWrite’: objbibli.c:1864:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:1867:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (cpp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objbibli.c:1884:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! AsnCloseStruct(aip, CIT_PROC_meet, (Pointer)cpp->otherdata)) ^~ objbibli.c:1886:5: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (! AsnCloseStruct(aip, atp, (Pointer)cpp)) /* end SEQUENCE */ ^~ objbibli.c: In function ‘CitLetAsnWrite’: objbibli.c:1978:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:1981:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (clp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objbibli.c: In function ‘CitPatAsnRead’: objbibli.c:2072:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:2075:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ cpp = CitPatNew(); ^~~ objbibli.c: In function ‘CitPatAsnWrite’: objbibli.c:2194:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:2197:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (cpp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objbibli.c: In function ‘IdPatAsnRead’: objbibli.c:2325:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:2328:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ idp = IdPatNew(); ^~~ objbibli.c: In function ‘IdPatAsnWrite’: objbibli.c:2391:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:2394:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (idp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objbibli.c: In function ‘CitGenAsnRead’: objbibli.c:2523:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:2526:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ cgp = CitGenNew(); ^~~ objbibli.c: In function ‘CitGenAsnWrite’: objbibli.c:2604:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:2607:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (cgp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objbibli.c: In function ‘TitleAsnWrite’: objbibli.c:2800:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:2803:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (tp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objbibli.c: In function ‘CitSubFree’: objbibli.c:2882:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (csp == NULL) ^~ objbibli.c:2885:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ AuthListFree(csp->authors); ^~~~~~~~~~~~ objbibli.c: In function ‘CitSubAsnRead’: objbibli.c:2916:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:2919:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ csp = CitSubNew(); ^~~ objbibli.c:2931:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:2934:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (atp == CIT_SUB_imp) ^~ objbibli.c: In function ‘CitSubAsnWrite’: objbibli.c:3002:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:3005:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (csp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objbibli.c:3009:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! AuthListAsnWrite(csp->authors, aip, CIT_SUB_authors)) ^~ objbibli.c:3012:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (csp->imp != NULL) ^~ objbibli.c: In function ‘PatPrioritySetAsnRead’: objbibli.c:3665:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (ppp == NULL) ^~ objbibli.c:3668:3: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (head == NULL) ^~ objbibli.c:3686:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:3688:3: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ ppp->date = DateAsnRead(aip, atp); ^~~ objbibli.c: In function ‘PatPrioritySetAsnWrite’: objbibli.c:3724:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! AsnOpenStruct(aip, set, (Pointer)ppp)) /* open the SEQUENCE OF */ ^~ objbibli.c:3727:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ for (tmp = ppp; tmp != NULL; tmp = tmp->next) ^~~ objbibli.c: In function ‘ArticleIdAsnRead’: objbibli.c:3818:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:3821:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ aidp = ArticleIdNew(); ^~~~ objbibli.c: In function ‘ArticleIdAsnWrite’: objbibli.c:3894:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:3897:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (aidp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objbibli.c: In function ‘PubStatusDateAsnRead’: objbibli.c:4006:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:4009:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ psdp = PubStatusDateNew(); ^~~~ objbibli.c: In function ‘PubStatusDateAsnWrite’: objbibli.c:4058:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:4061:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (psdp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objfeat.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objfeat.h:48, from objfeat.c:53: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘OrgNameMatch’: objfeat.c:5890:28: warning: self-comparison always evaluates to false [-Wtautological-compare] || onp2->mgcode != onp2->mgcode ^~ objfeat.c: In function ‘TaxElementAsnWrite’: objfeat.c:7320:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! AsnOpenStruct(aip, atp, (Pointer)tep)) ^~ objfeat.c:7323:9: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ av.intvalue = (Int4)(tep->fixed_level); ^~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objgen.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/asngen.h:9, from objgen.c:47: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ objgen.c: In function ‘DateClean’: objgen.c:161:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (dp == NULL) ^~ objgen.c:164:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ memset(dp, 0, sizeof(NCBI_Date)); ^~~~~~ objgen.c: In function ‘DateAsnWrite’: objgen.c:399:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objgen.c:402:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (dp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objgen.c: In function ‘DateAsnRead’: objgen.c:492:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objgen.c:495:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ dp = DateNew(); ^~ objgen.c:496:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (dp == NULL) ^~ objgen.c:499:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) goto erret; /* read the CHOICE value (nothing) */ ^~ objgen.c: In function ‘DbtagFree’: objgen.c:750:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (dbt == NULL) ^~ objgen.c:753:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ dbt->tag = ObjectIdFree(dbt->tag); ^~~ objgen.c: In function ‘DbtagAsnRead’: objgen.c:782:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objgen.c:785:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ dbt = DbtagNew(); ^~~ objgen.c:786:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (dbt == NULL) ^~ objgen.c:789:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) goto erret; /* read the START_STRUCT */ ^~ objgen.c:797:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (dbt->tag == NULL) ^~ objgen.c:800:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ atp = AsnReadId(aip, amp, atp); if (atp == NULL) goto erret; /* END_STRUCT */ ^~~ objgen.c: In function ‘DbtagAsnWrite’: objgen.c:831:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objgen.c:834:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (dbt == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objgen.c: In function ‘ObjectIdAsnRead’: objgen.c:976:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objgen.c:979:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) goto erret; /* read the CHOICE value (nothing) */ ^~ objgen.c:985:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (oid == NULL) ^~ objgen.c:987:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (atp == OBJECT_ID_id) ^~ objgen.c: In function ‘ObjectIdAsnWrite’: objgen.c:1020:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objgen.c:1023:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (oid == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objgen.c: In function ‘NameStdFree’: objgen.c:1153:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (nsp == NULL) ^~ objgen.c:1156:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ for (i = 0; i < 7; i++) ^~~ objgen.c: In function ‘NameStdAsnRead’: objgen.c:1187:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objgen.c:1190:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ nsp = NameStdNew(); ^~~ objgen.c:1191:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (nsp == NULL) ^~ objgen.c:1194:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) goto erret; /* read the START_STRUCT */ ^~ objgen.c: In function ‘NameStdAsnWrite’: objgen.c:1250:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objgen.c:1253:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (nsp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objgen.c: In function ‘PersonIdFree’: objgen.c:1345:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (pid == NULL) ^~ objgen.c:1348:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (pid->choice == 1) /* Dbtag */ ^~ objgen.c: In function ‘PersonIdAsnWrite’: objgen.c:1441:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objgen.c:1444:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (pid == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objgen.c: In function ‘IntFuzzAsnRead’: objgen.c:1657:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objgen.c:1660:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ ifp = IntFuzzNew(); ^~~ objgen.c:1661:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (ifp == NULL) ^~ objgen.c:1664:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) goto erret; /* read the CHOICE (nothing) */ ^~ objgen.c: In function ‘UserFieldAsnRead’: objgen.c:1915:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objgen.c:1918:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ ufp = UserFieldNew(); ^~~ objgen.c: In function ‘UserObjectAsnRead’: objgen.c:2395:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objgen.c:2398:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ uop = UserObjectNew(); ^~~ objgen.c:2399:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (uop == NULL) ^~ objgen.c:2402:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) goto erret; /* read the start struct */ ^~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objloc.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objloc.h:85, from objloc.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ objloc.c: In function ‘SeqIdAsnWrite’: objloc.c:313:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:316:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (anp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objloc.c: In function ‘SeqIdAsnRead’: objloc.c:441:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:444:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ anp = ValNodeNew(NULL); ^~~ objloc.c: In function ‘SeqIdDup’: objloc.c:585:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (oldid == NULL) ^~ objloc.c:588:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ newid = ValNodeNew(NULL); ^~~~~ objloc.c: In function ‘SeqIdSetAsnRead’: objloc.c:749:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (AsnReadVal(aip, atp, &av) <= 0) /* end struct */ ^~ objloc.c:751:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (first == NULL) ^~ objloc.c: In function ‘SeqIdSetAsnWrite’: objloc.c:783:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp2 == NULL) ^~ objloc.c:786:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (anp == NULL) { AsnNullValueMsg(aip, settype); goto erret; } ^~ objloc.c: In function ‘TextSeqIdAsnWrite’: objloc.c:861:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:864:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (tsip == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objloc.c: In function ‘TextSeqIdAsnRead’: objloc.c:929:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:932:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ tsip = TextSeqIdNew(); ^~~~ objloc.c:933:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (tsip == NULL) ^~ objloc.c:936:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if ((AsnReadVal(aip, oldtype, &av)) <= 0) /* read the START_STRUCT */ ^~ objloc.c: In function ‘PatentSeqIdAsnWrite’: objloc.c:1013:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:1016:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (psip == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objloc.c: In function ‘PatentSeqIdAsnRead’: objloc.c:1061:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:1064:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ psip = PatentSeqIdNew(); ^~~~ objloc.c:1065:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (psip == NULL) ^~ objloc.c:1068:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) /* read the START_STRUCT */ ^~ objloc.c: In function ‘GiimAsnWrite’: objloc.c:1144:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:1147:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (gip == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objloc.c: In function ‘GiimAsnRead’: objloc.c:1207:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (gip == NULL) ^~ objloc.c:1210:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, oldtype, &av) <= 0) /* read the START_STRUCT */ ^~ objloc.c: In function ‘PDBSeqIdAsnWrite’: objloc.c:1295:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:1298:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (pdbsip == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objloc.c: In function ‘PDBSeqIdAsnRead’: objloc.c:1356:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:1359:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ pdbsip = PDBSeqIdNew(); ^~~~~~ objloc.c:1360:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (pdbsip == NULL) ^~ objloc.c:1363:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if ((AsnReadVal(aip, oldtype, &av)) <= 0) /* read the START_STRUCT */ ^~ objloc.c: In function ‘SeqLocAsnWrite’: objloc.c:1508:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:1511:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (anp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objloc.c: In function ‘SeqLocAsnRead’: objloc.c:1602:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:1605:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ anp = ValNodeNew(NULL); ^~~ objloc.c:1606:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (anp == NULL) ^~ objloc.c:1609:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) /* read the CHOICE value (nothing) */ ^~ objloc.c: In function ‘SeqLocMixAsnWrite’: objloc.c:1716:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:1719:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (anp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objloc.c: In function ‘SeqLocEquivAsnWrite’: objloc.c:1783:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:1786:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (anp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objloc.c: In function ‘SeqLocSetAsnWrite’: objloc.c:1851:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp2 == NULL) ^~ objloc.c:1854:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (anp == NULL) { AsnNullValueMsg(aip, set); goto erret; } ^~ objloc.c: In function ‘SeqLocSetAsnRead’: objloc.c:1918:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (AsnReadVal(aip, atp, &av) <= 0) /* read END_STRUCT */ ^~ objloc.c:1920:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (first == NULL) ^~ objloc.c: In function ‘SeqIntAsnWrite’: objloc.c:2000:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:2003:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (sip == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objloc.c: In function ‘SeqIntAsnRead’: objloc.c:2071:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:2074:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ sip = SeqIntNew(); ^~~ objloc.c:2075:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (sip == NULL) ^~ objloc.c:2078:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, oldtype, &av) <= 0) /* read the START_STRUCT */ ^~ objloc.c: In function ‘PackSeqIntAsnWrite’: objloc.c:2155:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:2157:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ oldsip = sip; ^~~~~~ objloc.c:2161:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! AsnOpenStruct(aip, atp, (Pointer)oldsip)) ^~ objloc.c:2163:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ for ( ;sip != NULL; sip = sip->next) ^~~ objloc.c: In function ‘SeqPntAsnWrite’: objloc.c:2285:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:2288:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (spp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objloc.c: In function ‘SeqPntAsnRead’: objloc.c:2348:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:2351:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ spp = SeqPntNew(); ^~~ objloc.c:2352:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (spp == NULL) ^~ objloc.c:2355:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, oldtype, &av) <= 0) /* read the START_STRUCT */ ^~ objloc.c: In function ‘PackSeqPntAsnWrite’: objloc.c:2453:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:2456:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (pspp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objloc.c: In function ‘PackSeqPntAsnRead’: objloc.c:2525:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:2528:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ pspp = PackSeqPntNew(); ^~~~ objloc.c:2529:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (pspp == NULL) ^~ objloc.c:2532:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, oldtype, &av) <= 0) /* read the START_STRUCT */ ^~ objloc.c: In function ‘SeqBondAsnWrite’: objloc.c:2696:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:2699:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (sbp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objloc.c: In function ‘SeqBondAsnRead’: objloc.c:2748:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:2751:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ sbp = SeqBondNew(); ^~~ objloc.c:2752:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (sbp == NULL) ^~ objloc.c:2755:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, oldtype, &av) <= 0) /* read the START_STRUCT */ ^~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objmedli.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objmedli.h:80, from objmedli.c:101: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ objmedli.c: In function ‘MedlineMeshAsnRead’: objmedli.c:245:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objmedli.c:248:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ mmp = MedlineMeshNew(); ^~~ objmedli.c: In function ‘DocRefFree’: objmedli.c:1177:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (drp == NULL) ^~ objmedli.c:1180:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ return (DocRefPtr)MemFree(drp); ^~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objpub.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objpub.h:70, from objpub.c:122: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ objpub.c: In function ‘PubSetAsnRead’: objpub.c:824:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (AsnReadVal(aip, settype, &av) <= 0) /* read START_STRUCT */ ^~ objpub.c:827:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (settype == PUB_SET_pub) ^~ objpub.c:894:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (AsnReadVal(aip, settype, &av) <= 0) /* read END_STRUCT for SET OF */ ^~ objpub.c:896:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (anp == NULL) ^~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objres.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objres.h:73, from objres.c:81: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objscoremat.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objscoremat.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objseq.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objseq.h:48, from objseq.c:56: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘AnnotIdAsnWrite’: objseq.c:4806:9: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ objseq.c:4808:13: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ break; ^~~~~ objseq.c:4814:9: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ objseq.c:4816:13: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ break; ^~~~~ objseq.c: In function ‘AnnotDescAsnWrite’: objseq.c:5191:9: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ objseq.c:5193:12: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ break; ^~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objblock.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objblock.h:70, from objblock.c:71: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ objblock.c: In function ‘EMBLBlockFree’: objblock.c:891:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (ebp == NULL) ^~ objblock.c:894:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ DateFree(ebp->creation_date); ^~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objcode.h:64, from objcode.c:102: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objsset.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from objsset.c:54: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ objsset.c: In function ‘BioseqSetFree’: objsset.c:363:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (bsp == NULL) ^~ objsset.c:366:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (bsp->idx.parentptr == NULL || bsp->idx.parenttype == OBJ_SEQSUB) { ^~ objsset.c: In function ‘SeqEntryFree’: objsset.c:876:10: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] else if (sep->choice == 2) ^~ objsset.c:879:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ return (SeqEntryPtr)MemFree(sep); ^~~~~~ objsset.c: In function ‘SeqEntryFreeComponents’: objsset.c:896:10: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] else if (sep->choice == 2) ^~ objsset.c:899:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ return sep; ^~~~~~ objsset.c: In function ‘SeqEntryAsnGet’: objsset.c:1071:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (retcode == 1) /* just after a Bioseq */ ^~ objsset.c:1073:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ av.ptrvalue = (Pointer) osp; ^~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objsub.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/asnsubmt.h:9, from objsub.c:81: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ objsub.c: In function ‘SubmitAsnLoad’: objsub.c:338:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (loaded) ^~ objsub.c:341:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (! SeqSetAsnLoad ()) ^~ objsub.c:344:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (AsnLoad()) ^~ objsub.c:347:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ ObjMgrTypeLoad(OBJ_SEQSUB, "Seq-submit", seqsubtypename, "Sequence Data Submission", ^~~~~~~~~~~~~~ objsub.c: In function ‘SeqSubmitAsnWrite’: objsub.c:452:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objsub.c:455:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (ssp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objsub.c:457:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! AsnOpenStruct(aip, atp, (Pointer)ssp)) ^~ objsub.c:460:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (! SubmitBlockAsnWrite(ssp->sub, aip, SEQ_SUBMIT_sub)) goto erret; ^~ objsub.c: In function ‘SeqSubmitAsnRead’: objsub.c:534:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objsub.c:537:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ ssp = SeqSubmitNew(); ^~~ objsub.c:538:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (ssp == NULL) ^~ objsub.c:541:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) /* read the start struct */ ^~ objsub.c: In function ‘SubmitBlockAsnWrite’: objsub.c:677:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objsub.c:680:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (sbp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objsub.c:682:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! AsnOpenStruct(aip, atp, (Pointer)sbp)) ^~ objsub.c:685:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (! ContactInfoAsnWrite(sbp->contact, aip, SUBMIT_BLOCK_contact)) ^~ objsub.c: In function ‘SubmitBlockAsnRead’: objsub.c:763:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objsub.c:766:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ oldatp = atp; ^~~~~~ objsub.c:768:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (sbp == NULL) ^~ objsub.c:771:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) /* read the start struct */ ^~ objsub.c: In function ‘ContactInfoAsnWrite’: objsub.c:935:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objsub.c:938:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (cip == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objsub.c:940:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! AsnOpenStruct(aip, atp, (Pointer)cip)) ^~ objsub.c:943:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (cip->name != NULL) ^~ objsub.c: In function ‘ContactInfoAsnRead’: objsub.c:1059:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objsub.c:1061:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ oldatp = atp; ^~~~~~ objsub.c:1064:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (cip == NULL) ^~ objsub.c:1067:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) /* read the start struct */ ^~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objprt.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objprt.h:67, from objprt.c:78: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘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 ‘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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objfdef.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objfeat.h:48, from ../include/objfdef.h:48, from objfdef.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objalignloc.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objalignloc.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objtable.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objtable.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objpubme.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objpubme.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objmdrs.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objmdrs.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objproj.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objproj.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ~~~~~~~~~~~~^~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objgbseq.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objgbseq.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objtseq.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objtseq.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objinsdseq.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objinsdseq.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objmacro.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objmacro.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objent2.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objent2.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ent2api.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ent2api.h:45, from ent2api.c:42: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF pmfapi.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from pmfapi.c:42: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objtax3.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objtax3.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF tax3api.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from tax3api.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~ At top level: tax3api.c:3003:13: warning: ‘AddBioSourcesToChecklist’ defined but not used [-Wunused-function] static void AddBioSourcesToChecklist (ValNodePtr biop_list, ValNodePtr check_list) ^~~~~~~~~~~~~~~~~~~~~~~~ tax3api.c:2345:16: warning: ‘StringIsExactMatchForOrgRef’ defined but not used [-Wunused-function] static Boolean StringIsExactMatchForOrgRef (CharPtr str, OrgRefPtr org) ^~~~~~~~~~~~~~~~~~~~~~~~~~~ tax3api.c:1886:16: warning: ‘EndsWithSp’ defined but not used [-Wunused-function] static Boolean EndsWithSp (CharPtr str) ^~~~~~~~~~ tax3api.c:616:28: warning: ‘TaxFixItemOrigIsOk’ defined but not used [-Wunused-function] static Boolean LIBCALLBACK TaxFixItemOrigIsOk (ValNodePtr vnp) ^~~~~~~~~~~~~~~~~~ tax3api.c:361:16: warning: ‘HasMisspellingFlag’ defined but not used [-Wunused-function] static Boolean HasMisspellingFlag (T3DataPtr t) ^~~~~~~~~~~~~~~~~~ tax3api.c:297:13: warning: ‘SaveTaxon3Request’ defined but not used [-Wunused-function] static void SaveTaxon3Request (Taxon3RequestPtr t3rp, CharPtr path) ^~~~~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objegkludge.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objegkludge.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objentgene.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objentgene.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objmla2.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objmla2.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF mla2api.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/mla2api.h:45, from mla2api.c:42: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF qblastapi.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from qblastapi.c:120: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF vecscnapi.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from vecscnapi.c:42: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objmim.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objmim.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objvalid.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objvalid.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF mimapi.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from mimapi.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF cddapi.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from cddapi.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF seqport.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/seqport.h:47, from seqport.c:54: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF sequtil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from sequtil.c:53: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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) { ^~~~~~~~~~~~~~~~~~~~~~~~~~~ sequtil.c: In function ‘SeqLocCompareEx’: sequtil.c:5792:29: warning: assuming signed overflow does not occur when assuming that (X + c) < X is always false [-Wstrict-overflow] for (i = 0; i < num; i++) ^~~ sequtil.c:5792:29: warning: assuming signed overflow does not occur when assuming that (X + c) < X is always false [-Wstrict-overflow] gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF prtutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objprt.h:67, from ../include/prtutil.h:69, from prtutil.c:81: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ prtutil.c: In function ‘StdFormatPrint’: prtutil.c:1422:10: warning: unused variable ‘ptr’ [-Wunused-variable] CharPtr ptr = NULL; ^~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF simple.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/simple.h:63, from simple.c:68: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF tofasta.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/seqport.h:47, from ../include/tofasta.h:47, from tofasta.c:44: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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: In function ‘CreateDefLineExEx’: tofasta.c:4801:13: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (vnp != NULL) ^~ tofasta.c:4803:15: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (title != NULL) { ^~ 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); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ At top level: tofasta.c:3479:19: warning: ‘GatherGenesForCDS’ defined but not used [-Wunused-function] static ValNodePtr GatherGenesForCDS(SeqLocPtr slp) ^~~~~~~~~~~~~~~~~ tofasta.c:3445:19: warning: ‘GatherSeqFeatProt’ defined but not used [-Wunused-function] static SeqFeatPtr GatherSeqFeatProt(BioseqPtr bsp) ^~~~~~~~~~~~~~~~~ tofasta.c:3359:19: warning: ‘GetCDSProtUnindexed’ defined but not used [-Wunused-function] static SeqFeatPtr GetCDSProtUnindexed ( ^~~~~~~~~~~~~~~~~~~ tofasta.c:3196:19: warning: ‘IndexedGatherDescrOnBioseq’ defined but not used [-Wunused-function] static ValNodePtr IndexedGatherDescrOnBioseq (ItemInfoPtr iip, BioseqPtr bsp, Uint1 choice) ^~~~~~~~~~~~~~~~~~~~~~~~~~ tofasta.c:3101:16: warning: ‘get_descr’ defined but not used [-Wunused-function] static Boolean get_descr (GatherContextPtr gcp) ^~~~~~~~~ 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: 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF tofile.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from tofile.c:78: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF tomedlin.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objmedli.h:80, from tomedlin.c:150: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF valid.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from valid.c:54: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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: In function ‘SortSeqGraphProc’: valid.c:28260:26: warning: self-comparison always evaluates to false [-Wtautological-compare] } else if (gip2->right < gip2->right) { ^ At top level: valid.c:24281:16: warning: ‘CouldExtendPartial’ defined but not used [-Wunused-function] static Boolean CouldExtendPartial (SeqLocPtr slp, Boolean partial5) ^~~~~~~~~~~~~~~~~~ valid.c:18342:28: warning: ‘MultiGeneOverlapFree’ defined but not used [-Wunused-function] static MultiGeneOverlapPtr MultiGeneOverlapFree (MultiGeneOverlapPtr m) ^~~~~~~~~~~~~~~~~~~~ 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:13056:16: warning: ‘CountryIsClosestToLatLon’ defined but not used [-Wunused-function] static Boolean CountryIsClosestToLatLon ( ^~~~~~~~~~~~~~~~~~~~~~~~ valid.c:12959:16: warning: ‘LatLonInRange’ defined but not used [-Wunused-function] static Boolean LatLonInRange ( ^~~~~~~~~~~~~ valid.c:12157:16: warning: ‘LatLonIsValid’ defined but not used [-Wunused-function] static Boolean LatLonIsValid (CharPtr name) ^~~~~~~~~~~~~ valid.c:9394:16: warning: ‘ConsistentWithC’ defined but not used [-Wunused-function] static Boolean ConsistentWithC (Char ch) ^~~~~~~~~~~~~~~ valid.c:6450:13: warning: ‘ReportLongSeqId’ defined but not used [-Wunused-function] static void ReportLongSeqId (SeqIdPtr sip, ValidStructPtr vsp, Int4 max_len) ^~~~~~~~~~~~~~~ valid.c:5438:13: warning: ‘CheckMutSetSources’ defined but not used [-Wunused-function] static void CheckMutSetSources (BioSourcePtr biop, Pointer userdata) ^~~~~~~~~~~~~~~~~~ valid.c:4089:13: warning: ‘FindLongIdsThatCollideWhenTruncated’ defined but not used [-Wunused-function] static void FindLongIdsThatCollideWhenTruncated (SeqEntryPtr sep, ValidStructPtr vsp, Int4 trunc_len) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ valid.c:1415:16: warning: ‘IsNotUnclassifiedExcept’ defined but not used [-Wunused-function] static Boolean IsNotUnclassifiedExcept (ValidStructPtr vsp) ^~~~~~~~~~~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF valapi.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from valapi.c:50: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF alignmgr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/alignmgr.h:261, from alignmgr.c:584: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:10572:16: warning: ‘am_merge_after_edit’ defined but not used [-Wunused-function] static Boolean am_merge_after_edit (SeqAlignPtr sap) ^~~~~~~~~~~~~~~~~~~ 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:6123:18: warning: ‘AlnMgrConstructOverlaps’ defined but not used [-Wunused-function] static AMmsmsPtr AlnMgrConstructOverlaps(AMmsmsPtr ams_head) ^~~~~~~~~~~~~~~~~~~~~~~ alignmgr.c:5405:13: warning: ‘AlnMgrMergeNeighbors’ defined but not used [-Wunused-function] static void AlnMgrMergeNeighbors(SeqAlignPtr salp) ^~~~~~~~~~~~~~~~~~~~ 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:5865:10: warning: ‘sip_head’ may be used uninitialized in this function [-Wmaybe-uninitialized] while (sip && !done) ^ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF aliparse.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/aliparse.h:12, from aliparse.c:9: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ aliparse.c: In function ‘s_IsInterleaved’: aliparse.c:929:37: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses] (s_configInfo.useMaybes == FALSE) && ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ (seqLinePtr->maybe == 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) && ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ (s_configInfo.useMaybes == 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, ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ previousLength, ~~~~~~~~~~~~~~~ s_configInfo.declaredInfo.seqLength); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ seqLinePtr->rowNum, ~~~~~~~~~~~~~~~~~~~ cLineType, ~~~~~~~~~~ seqLinePtr->sequence); ~~~~~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF aliread.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from aliread.c:3: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF alignval.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from alignval.c:46: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:1891:13: warning: ‘CheckAlnSeqLens’ defined but not used [-Wunused-function] static void CheckAlnSeqLens (SeqAlignPtr salp) ^~~~~~~~~~~~~~~ alignval.c:1476:16: warning: ‘IsSipContainedInStdseg’ defined but not used [-Wunused-function] static Boolean IsSipContainedInStdseg(SeqIdPtr sip, StdSegPtr ssp) ^~~~~~~~~~~~~~~~~~~~~~ alignval.c:568:13: warning: ‘delete_bioseqs’ defined but not used [-Wunused-function] static void delete_bioseqs (ValNodePtr ids, Uint2 entityID) ^~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF sqnutil1.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/sqnutils.h:48, from sqnutil1.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 && ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ StringICmp (last->subname, omp->subname) == 0 || ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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:10364:16: warning: ‘CleanUpSgml’ defined but not used [-Wunused-function] static CharPtr CleanUpSgml ( ^~~~~~~~~~~ sqnutil1.c:10250:13: warning: ‘SortGoTermsSfp’ defined but not used [-Wunused-function] static void SortGoTermsSfp ( ^~~~~~~~~~~~~~ sqnutil1.c:7645:16: warning: ‘IsStringSingleToken’ defined but not used [-Wunused-function] static Boolean IsStringSingleToken (CharPtr str) ^~~~~~~~~~~~~~~~~~~ sqnutil1.c:5290:13: warning: ‘CleanupConsSplice’ defined but not used [-Wunused-function] static void CleanupConsSplice (GBQualPtr gbq) ^~~~~~~~~~~~~~~~~ sqnutil1.c:2509:16: warning: ‘GeneExtendFunc’ defined but not used [-Wunused-function] static Boolean GeneExtendFunc (GatherContextPtr gcp) ^~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF sqnutil2.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/sqnutils.h:48, from sqnutil2.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘SortSeqGraphProc’: sqnutil2.c:12908:26: warning: self-comparison always evaluates to false [-Wtautological-compare] } else if (gip2->right < gip2->right) { ^ 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:16055:13: warning: ‘RevCompFeatsOnBioseq’ defined but not used [-Wunused-function] static void RevCompFeatsOnBioseq (BioseqPtr bsp) ^~~~~~~~~~~~~~~~~~~~ sqnutil2.c:8266:16: warning: ‘DoesSeqEntryAccessionMatchList’ defined but not used [-Wunused-function] static Boolean DoesSeqEntryAccessionMatchList (SeqEntryPtr sep, ValNodePtr accn_list) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sqnutil2.c:4661:16: warning: ‘IsNonSeqChar’ defined but not used [-Wunused-function] static Boolean IsNonSeqChar (Char ch, Boolean is_prot) ^~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF sqnutil3.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/sqnutils.h:48, from sqnutil3.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘OrgNameMatchExceptOldName’: sqnutil3.c:13089:28: warning: self-comparison always evaluates to false [-Wtautological-compare] || onp2->mgcode != onp2->mgcode ^~ 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: In function ‘FillInMissingTraces’: sqnutil3.c:31968:5: warning: ignoring return value of ‘system’, declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^~~~~~~~~~~~~ At top level: sqnutil3.c:33544:13: warning: ‘TestLatLonFormatting’ defined but not used [-Wunused-function] static void TestLatLonFormatting (FILE *fp) ^~~~~~~~~~~~~~~~~~~~ sqnutil3.c:31404:1: warning: ‘BarcodeTestForSeqEntry’ defined but not used [-Wunused-function] BarcodeTestForSeqEntry ^~~~~~~~~~~~~~~~~~~~~~ sqnutil3.c:31396:13: warning: ‘FindBadGPS’ defined but not used [-Wunused-function] static void FindBadGPS (BioseqPtr bsp, Pointer userdata) ^~~~~~~~~~ sqnutil3.c:23725:13: warning: ‘FindSuspectrRNAProductsCallback’ defined but not used [-Wunused-function] static void FindSuspectrRNAProductsCallback (SeqFeatPtr sfp, Pointer data) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sqnutil3.c:19971:16: warning: ‘FeatureCountHasNumFeats’ defined but not used [-Wunused-function] static Boolean FeatureCountHasNumFeats (ValNodePtr vnp, Pointer data) ^~~~~~~~~~~~~~~~~~~~~~~ sqnutil3.c:18676:24: warning: ‘SortVnpByHaplotypeThenSequenceAllowNDiff’ defined but not used [-Wunused-function] static int LIBCALLBACK SortVnpByHaplotypeThenSequenceAllowNDiff (VoidPtr ptr1, VoidPtr ptr2) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sqnutil3.c:16581:24: warning: ‘IntervalPairFree’ defined but not used [-Wunused-function] static IntervalPairPtr IntervalPairFree (IntervalPairPtr i) ^~~~~~~~~~~~~~~~ sqnutil3.c:13399:16: warning: ‘ContainsBracketsOrParentheses’ defined but not used [-Wunused-function] static Boolean ContainsBracketsOrParentheses (CharPtr pattern, CharPtr search) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sqnutil3.c:10252:13: warning: ‘ExtractVnpByStringSearch’ defined but not used [-Wunused-function] static void ExtractVnpByStringSearch (ValNodePtr PNTR list, CharPtr search) ^~~~~~~~~~~~~~~~~~~~~~~~ sqnutil3.c:9755:13: warning: ‘GeneLocusTagDiscrepancyCallback’ defined but not used [-Wunused-function] static void GeneLocusTagDiscrepancyCallback (ValNodePtr item_list, Pointer userdata) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sqnutil3.c:9672:25: warning: ‘InconsistentLocusTagPrefix’ defined but not used [-Wunused-function] static ClickableItemPtr InconsistentLocusTagPrefix (PrefixCheckPtr pcp) ^~~~~~~~~~~~~~~~~~~~~~~~~~ sqnutil3.c:9621:19: warning: ‘FreePrefixCheckList’ defined but not used [-Wunused-function] static ValNodePtr FreePrefixCheckList (ValNodePtr prefix_list) ^~~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF sqnutil4.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/sqnutils.h:48, from sqnutil4.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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] if (sfp != NULL && sfp->idx.subtype == FEATDEF_misc_feature ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ && (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:15901:13: warning: ‘TESTDisplayList’ defined but not used [-Wunused-function] static void TESTDisplayList (ValNodePtr new_list) ^~~~~~~~~~~~~~~ sqnutil4.c:15872:19: warning: ‘ExpandOneComboListUsingAllPresentQuals’ defined but not used [-Wunused-function] static ValNodePtr ExpandOneComboListUsingAllPresentQuals (QualComboPtr q) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sqnutil4.c:15584:16: warning: ‘RemoveFieldFromUniqBioSrcGrpList’ defined but not used [-Wunused-function] static Boolean RemoveFieldFromUniqBioSrcGrpList (ValNodePtr list, FieldTypePtr field) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sqnutil4.c:9705:19: warning: ‘RemoveAllButLastCDS’ defined but not used [-Wunused-function] static ValNodePtr RemoveAllButLastCDS ( ^~~~~~~~~~~~~~~~~~~ sqnutil4.c:9674:13: warning: ‘SmashTallClauses’ defined but not used [-Wunused-function] static void SmashTallClauses ( ^~~~~~~~~~~~~~~~ sqnutil4.c:9510:13: warning: ‘RemoveFeats’ defined but not used [-Wunused-function] static void RemoveFeats ( ^~~~~~~~~~~ sqnutil4.c:4945:13: warning: ‘CountFeatures’ defined but not used [-Wunused-function] static Int4 CountFeatures ( ^~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF subutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/objsub.h:76, from ../include/subutil.h:50, from subutil.c:54: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~ At top level: subutil.c:3546:20: warning: ‘TranslateCdRegionNew’ defined but not used [-Wunused-function] static SeqEntryPtr TranslateCdRegionNew ( ^~~~~~~~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF edutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/seqport.h:47, from ../include/edutil.h:188, from edutil.c:365: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF asn2ff1.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objmgr.h:51, from ../include/seqmgr.h:48, from asn2ff1.c:42: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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) { At top level: asn2ff1.c:2189:13: warning: ‘PrintStatusLine’ defined but not used [-Wunused-function] static void PrintStatusLine(Asn2ffJobPtr ajp, GBEntryPtr gbp) ^~~~~~~~~~~~~~~ asn2ff1.c:2171:16: warning: ‘find_user_object’ defined but not used [-Wunused-function] static Boolean find_user_object(BioseqPtr bsp) ^~~~~~~~~~~~~~~~ asn2ff1.c:816:19: warning: ‘SeqEntryToLinkStrEx’ defined but not used [-Wunused-function] static LinkStrPtr SeqEntryToLinkStrEx(Asn2ffJobPtr ajp, SeqEntryPtr sep, LinkStrPtr lsp, Uint1 format) ^~~~~~~~~~~~~~~~~~~ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from asn2ff1.c:45: ../include/asnprt.h:61:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/asnprt.h:60:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/asnprt.h:59:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^~~ ../include/asnprt.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF asn2ff2.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/gather.h:166, from asn2ff2.c:216: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~ At top level: asn2ff2.c:1190:16: warning: ‘GetSPBlock’ defined but not used [-Wunused-function] static CharPtr GetSPBlock (Asn2ffJobPtr ajp, GBEntryPtr gbp) ^~~~~~~~~~ asn2ff2.c:680:16: warning: ‘GetEvidence’ defined but not used [-Wunused-function] static CharPtr GetEvidence(Asn2ffJobPtr ajp, GBEntryPtr gbp) ^~~~~~~~~~~ asn2ff2.c:232:16: warning: ‘has_comment’ defined but not used [-Wunused-variable] static Boolean has_comment; ^~~~~~~~~~~ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from asn2ff2.c:218: ../include/asnprt.h:61:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/asnprt.h:60:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/asnprt.h:59:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^~~ ../include/asnprt.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF asn2ff3.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/asn2ffg.h:200, from ../include/asn2ffp.h:372, from asn2ff3.c:628: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:3306:24: 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; ^~ At top level: 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/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from asn2ff3.c:628: ../include/asnprt.h:61:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/asnprt.h:60:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/asnprt.h:59:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^~~ ../include/asnprt.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^~~~~~~~~~~ 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:2208:9: warning: ‘seq_code’ may be used uninitialized in this function [-Wmaybe-uninitialized] ptr = Get3LetterSymbol(seq_code, table, trna->aa, error_msgs); ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF asn2ff4.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/asn2ffg.h:200, from ../include/asn2ffp.h:372, from asn2ff4.c:273: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 */ ^~~ asn2ff4.c: In function ‘SortOrganizeFeat’: asn2ff4.c:2457:2: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (ofp == NULL) ^~ asn2ff4.c:2459:3: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (ofp->sfpListsize > 0 && ofp->sortListsize < ofp->sfpListsize) { ^~ asn2ff4.c: In function ‘OrganizeSeqFeat’: asn2ff4.c:2578:2: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (ajp->ignore_top) ^~ asn2ff4.c:2580:3: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ gsc.seglevels = 1; ^~~ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from asn2ff4.c:273: At top level: ../include/asnprt.h:61:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/asnprt.h:60:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/asnprt.h:59:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^~~ ../include/asnprt.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF asn2ff5.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/asn2ffg.h:200, from ../include/asn2ffp.h:372, from asn2ff5.c:177: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~~~~~~~ asn2ff5.c: At top level: asn2ff5.c:188:26: warning: ‘GetSubmitterName’ declared ‘static’ but never defined [-Wunused-function] static CharPtr /*UNUSED*/GetSubmitterName PROTO ((Uint1 format, ValNodePtr pub)); ^~~~~~~~~~~~~~~~ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from asn2ff5.c:177: ../include/asnprt.h:61:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/asnprt.h:60:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/asnprt.h:59:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^~~ ../include/asnprt.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^~~~~~~~~~~ asn2ff5.c: In function ‘FlatJournal’: 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:1162:31: warning: ‘afp’ may be used uninitialized in this function [-Wmaybe-uninitialized] temp = StringMove(temp,afp -> street); ~~~~^~~~~~~~~ asn2ff5.c:1051:11: note: ‘afp’ was declared here AffilPtr afp; ^~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF asn2ff6.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/asn2ff6.h:134, from asn2ff6.c:347: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘FlatOrganelle’: asn2ff6.c:1483:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! retval ) ^~ asn2ff6.c:1486:7: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ break; ^~~~~ 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; ^~~~ At top level: asn2ff6.c:2883:13: warning: ‘ValidateOtherAccession’ defined but not used [-Wunused-function] static Int2 ValidateOtherAccession(CharPtr new_buf, CharPtr orig_buf) ^~~~~~~~~~~~~~~~~~~~~~ In file included from ../include/asn2ff6.h:142:0, from asn2ff6.c:347: ../include/asnprt.h:61:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/asnprt.h:60:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/asnprt.h:59:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^~~ ../include/asnprt.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF asn2gnb1.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from asn2gnb1.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘s_LocusGetBaseName’: asn2gnb1.c:2240:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ asn2gnb1.c:2242:7: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ newLength = segNameLen - deleteChars; ^~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF asn2gnb2.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from asn2gnb2.c:42: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF asn2gnb3.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from asn2gnb3.c:42: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF asn2gnb4.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from asn2gnb4.c:42: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF asn2gnb5.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from asn2gnb5.c:42: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF asn2gnb6.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from asn2gnb6.c:42: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ asn2gnb6.c: In function ‘FlatLocElement’: asn2gnb6.c:2386:27: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses] if (sintp->to > 0 && ~~~~~~~~~~~~~~^~ (sintp->to != sintp->from || ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sintp->if_from != NULL || ~~~~~~~~~~~~~~~~~~~~~~~~~ sintp->if_to != NULL) || ~~~~~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ftusrstr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ftusrstr.c:34: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF gbftglob.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF gbparint.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/parsegb.h:57, from gbparint.c:99: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF utilpub.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objmgr.h:51, from utilpub.c:13: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ffprint.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/asn2ffg.h:200, from ../include/asn2ffp.h:372, from ffprint.c:127: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ ffprint.c: In function ‘FFBSPrint’: ffprint.c:347:19: warning: unused variable ‘byte_sp’ [-Wunused-variable] ByteStorePtr byte_sp = NULL; ^~~~~~~ At top level: ffprint.c:420:16: warning: ‘ff_print_insert’ defined but not used [-Wunused-function] static CharPtr ff_print_insert(CharPtr str, CharPtr ins) ^~~~~~~~~~~~~~~ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from ffprint.c:127: ../include/asnprt.h:61:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/asnprt.h:60:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/asnprt.h:59:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^~~ ../include/asnprt.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF wprint.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from wprint.c:46: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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]; ^~~~ At top level: wprint.c:1692:34: warning: ‘temp’ defined but not used [-Wunused-variable] wprint.c:79:13: warning: ‘link_gdb_map’ defined but not used [-Wunused-variable] static Char link_gdb_map[MAX_WWWBUF]; ^~~~~~~~~~~~ wprint.c:77:13: warning: ‘link_pir’ defined but not used [-Wunused-variable] static Char link_pir[MAX_WWWBUF]; ^~~~~~~~ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from wprint.c:51: ../include/asnprt.h:61:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/asnprt.h:60:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/asnprt.h:59:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^~~ ../include/asnprt.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^~~~~~~~~~~ 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; ^~~~ In file included from ../include/ncbi.h:62:0, from wprint.c:46: wprint.c: In function ‘www_xref_button’: ../include/ncbistr.h:331:19: warning: ‘prefix’ may be used uninitialized in this function [-Wmaybe-uninitialized] #define StringLen Nlm_StringLen ^~~~~~~~~~~~~ wprint.c:1398:19: 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:1398:13: 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF satutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/satutil.h:12, from satutil.c:87: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ satutil.c: In function ‘CopyFeatureFromAlign’: satutil.c:1011:10: warning: variable ‘check_gap’ set but not used [-Wunused-but-set-variable] Boolean check_gap; ^~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF seqmgr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/explore.h:49, from seqmgr.c:55: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘GetUniGeneIDForSeqId’: seqmgr.c:3676:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(StringCmp(db_tag->db, "BSNR") == 0) ^~ seqmgr.c:3678:9: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if(StringCmp(db_tag->db, "HUMGEN") == 0) ^~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objmgr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objmgr.h:51, from objmgr.c:51: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ objmgr.c: In function ‘ObjMgrReapOne’: objmgr.c:2727:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (omp->reaping) /* protect against recursion caused by ObjMgrSendMsg */ ^~ objmgr.c:2730:9: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ lowest = UINT4_MAX; ^~~~~~ objmgr.c: In function ‘ObjMgrDeSelectStructFunc’: objmgr.c:3767:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (next != NULL) ^~ objmgr.c:3770:9: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ ObjMgrSendDeSelMsg (omp, ssp->entityID, ssp->itemID, ssp->itemtype, ssp->regiontype, ssp->region); ^~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF gather.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/gather.h:166, from gather.c:44: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:1560:40: warning: ‘newid’ may be used uninitialized in this function [-Wmaybe-uninitialized] gcp->new_loc = SeqLocReMap(newid, slp, head, offset, rev); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gather.c:1495:17: warning: ‘numcheck’ may be used uninitialized in this function [-Wmaybe-uninitialized] for (j = 0; ((j < numcheck) && (! takeit) && (!stop_now)); j++) ^~~ 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:1560:40: warning: ‘offset’ may be used uninitialized in this function [-Wmaybe-uninitialized] gcp->new_loc = SeqLocReMap(newid, slp, head, offset, rev); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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:2278:11: warning: ‘h_stop’ may be used uninitialized in this function [-Wmaybe-uninitialized] if(!(h_stop < m_start || h_start > m_stop)) /*it is within the range*/ ^ gather.c:2284:12: warning: ‘h_start’ may be used uninitialized in this function [-Wmaybe-uninitialized] if(!(h_stop < m_start || h_start > m_stop)) /*it is within the range*/ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gather.c:2219:15: warning: ‘master_loc’ may be used uninitialized in this function [-Wmaybe-uninitialized] SeqLocPtr master_loc, m_loc; ^~~~~~~~~~ gather.c:2218:10: warning: ‘mag_val’ may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 mag_val; /*the magnification value */ ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF accmmdbs.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/accentr.h:125, from accmmdbs.c:120: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF acccn3ds.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/accentr.h:125, from acccn3ds.c:62: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF lsqfetch.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objmgr.h:51, from ../include/seqmgr.h:48, from ../include/lsqfetch.h:110, from lsqfetch.c:44: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF findrepl.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from findrepl.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF codon.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/codon.h:61, from codon.c:2: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF jzcoll.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/maputil.h:113, from ../include/jzcoll.h:123, from jzcoll.c:54: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘collseqfunc’: jzcoll.c:3768:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(omtp->labelfunc !=NULL) ^~ jzcoll.c:3770:7: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ fnp->landmark = check_feature_for_landmark(chp->thislabel, chp->gdata, sfp, gcp, chp->priority); ^~~ 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; ^~~ At top level: 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:1654:16: warning: ‘collect_sequence_label’ defined but not used [-Wunused-function] static Boolean collect_sequence_label(Uint1 format) ^~~~~~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF jzmisc.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/jzmisc.h:86, from jzmisc.c:23: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF maputil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/maputil.h:113, from maputil.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF mconsist.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/mconsist.h:4, from mconsist.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF macroapi.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from macroapi.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~~ At top level: macroapi.c:35102:16: warning: ‘IsFieldTypeProteinDesc’ defined but not used [-Wunused-function] static Boolean IsFieldTypeProteinDesc (FieldTypePtr ft) ^~~~~~~~~~~~~~~~~~~~~~ macroapi.c:26150:13: warning: ‘GetDescriptorTypeFromDescriptorChoice’ defined but not used [-Wunused-function] static Int4 GetDescriptorTypeFromDescriptorChoice (Uint1 descriptor_choice) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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:15632:13: warning: ‘InitBatchExtraForAECRActionAndObjectList’ defined but not used [-Wunused-function] static void InitBatchExtraForAECRActionAndObjectList (BatchExtraPtr batch_extra, AECRActionPtr action, ValNodePtr object_list) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ macroapi.c:10224:16: warning: ‘HasMultiplePrimerSets’ defined but not used [-Wunused-function] static Boolean HasMultiplePrimerSets (CharPtr value) ^~~~~~~~~~~~~~~~~~~~~ macroapi.c:5435:16: warning: ‘DoesLocationMatchConstraint’ defined but not used [-Wunused-function] static Boolean DoesLocationMatchConstraint (SeqLocPtr slp, LocationConstraintPtr lcp) ^~~~~~~~~~~~~~~~~~~~~~~~~~~ macroapi.c:4543:13: warning: ‘TestAdvancedStringMatch’ defined but not used [-Wunused-function] static void TestAdvancedStringMatch (void) ^~~~~~~~~~~~~~~~~~~~~~~ macroapi.c:2760:13: warning: ‘OriginFromOriginName’ defined but not used [-Wunused-function] static Int4 OriginFromOriginName (CharPtr origin_name) ^~~~~~~~~~~~~~~~~~~~ macroapi.c:1189:16: warning: ‘IsObjectAppropriateForFieldPair’ defined but not used [-Wunused-function] static Boolean IsObjectAppropriateForFieldPair (Uint1 choice, Pointer data, FieldPairTypePtr fieldpair) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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 ‘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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF salpedit.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from salpedit.c:2: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~ At top level: 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) ^~~~~~~~~~~~~~~~~~~~~ salpedit.c:4073:17: warning: ‘get_best_id’ defined but not used [-Wunused-function] static SeqIdPtr get_best_id(BioseqPtr bsp) ^~~~~~~~~~~ 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:4016:18: warning: ‘dup_mul_locs’ defined but not used [-Wunused-function] static SeqLocPtr dup_mul_locs(SeqLocPtr slp) ^~~~~~~~~~~~ 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:3937:13: warning: ‘reverse_seqloc’ defined but not used [-Wunused-function] static void reverse_seqloc (SeqLocPtr s_loc) ^~~~~~~~~~~~~~ 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:3836:13: warning: ‘get_align_list_len’ defined but not used [-Wunused-function] static Int4 get_align_list_len(SeqAlignPtr align) ^~~~~~~~~~~~~~~~~~ salpedit.c:2939:20: warning: ‘open_annot’ defined but not used [-Wunused-function] static SeqAnnotPtr open_annot(CharPtr f_name) ^~~~~~~~~~ salpedit.c:2835:13: warning: ‘SeqAnnotWrite’ defined but not used [-Wunused-function] static void SeqAnnotWrite(SeqAlignPtr align) ^~~~~~~~~~~~~ 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: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:1605:16: warning: ‘is_overlap’ defined but not used [-Wunused-function] static Boolean is_overlap(BoolPtr status, Int4 from, Int4 len) ^~~~~~~~~~ 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: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: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: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: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: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:254:16: warning: ‘is_gap_segment’ defined but not used [-Wunused-function] static Boolean is_gap_segment(Int4Ptr c_starts, Int2 dim) ^~~~~~~~~~~~~~ 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) ^~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF salpstat.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from salpstat.c:34: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:172:20: 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:363:33: warning: ‘spp_1’ may be used uninitialized in this function [-Wmaybe-uninitialized] res_1 = SeqPortGetResidue(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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF salpacc.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/salpacc.h:33, from salpacc.c:40: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF salprop.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/salsa.h:48, from ../include/salprop.h:46, from salprop.c:42: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ salprop.c: In function ‘CopySeqLocFromSeqAlign’: salprop.c:398:13: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ salprop.c:401:16: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ if(crp != NULL) /*for coding region features*/ ^~ 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 ../include/sqnutils.h:51:0, from salprop.c:46: salprop.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 salprop.c:42:0: ../include/salprop.h:50:16: warning: ‘GBFeat’ defined but not used [-Wunused-variable] static CharPtr GBFeat[number_GBFeat] = { ^~~~~~ 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:737:12: warning: ‘ppp.p3’ may be used uninitialized in this function [-Wmaybe-uninitialized] SetSeqLocPartial (sfp->location, afp->noLeft, afp->noRight); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ salprop.c:679:17: note: ‘ppp.p3’ was declared here ParTials ppp; ^~~ salprop.c:861:33: warning: ‘entityID’ may be used uninitialized in this function [-Wmaybe-uninitialized] if ((val2=is_id_unique (entityID, SeqLocId(sfp->product)))) ^ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF salsap.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/salsa.h:48, from ../include/salsap.h:57, from salsap.c:44: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:3631:13: warning: ‘FindSeqAlignCallback’ defined but not used [-Wunused-function] static void FindSeqAlignCallback (SeqEntryPtr sep, Pointer mydata, ^~~~~~~~~~~~~~~~~~~~ salsap.c:2157:16: warning: ‘AreDenseSegSegmentsValid’ defined but not used [-Wunused-function] static Boolean AreDenseSegSegmentsValid (DenseSegPtr dsp, Int4 start, Int4 num) ^~~~~~~~~~~~~~~~~~~~~~~~ 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; j>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF salstruc.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/salsa.h:48, from ../include/salstruc.h:56, from salstruc.c:33: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ salstruc.c: In function ‘data_collect_arrange’: salstruc.c:1338:22: warning: variable ‘maxscroll’ set but not used [-Wunused-but-set-variable] Int4 maxscroll; ^~~~~~~~~ salstruc.c: In function ‘ShowAlignmentText’: salstruc.c:2203:29: warning: variable ‘itemtype’ set but not used [-Wunused-but-set-variable] Uint2 entityID, itemtype; ^~~~~~~~ In file included from ../include/sqnutils.h:51:0, from salstruc.c:40: salstruc.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 salstruc.c:41: ../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)); ^~~~~~~~~~~~~~~ salstruc.c: In function ‘prot_to_rputprot’: salstruc.c:707:11: warning: ‘j’ may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 j, k; ^ salstruc.c: In function ‘data_collect_arrange’: salstruc.c:967:29: warning: ‘entityID’ may be used uninitialized in this function [-Wmaybe-uninitialized] drawfeat = is_feature_to_buffer(vnpfeat, itemID, entityID, fromseq, length, salp, adp->input_format, adp->sqloc_list); ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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:2258:16: warning: ‘bspsip’ may be used uninitialized in this function [-Wmaybe-uninitialized] print_line (fout, tdp->label, bufstr, leftmargin, adp->columnpcell, bspsip, html_option, FALSE); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF salutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from salutil.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF udvseq.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/explore.h:49, from ../include/udvseq.h:100, from udvseq.c:112: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:990:9: warning: ‘PosFeat’ may be used uninitialized in this function [-Wmaybe-uninitialized] (Uint2)PosFeat-decal,(Uint2)0)); ^~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blocks.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/blocks.h:88, from blocks.c:93: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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/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:2912:13: warning: ‘DDV_PrintFastaGappedSequence’ defined but not used [-Wunused-function] static void DDV_PrintFastaGappedSequence(CharPtr szSequence,FILE *fp) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ pgppop.c:2865:13: warning: ‘DDV_GetGappedSequence’ defined but not used [-Wunused-function] static void DDV_GetGappedSequence(SegmentPtr segp,CharPtr szSequence, ^~~~~~~~~~~~~~~~~~~~~ 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: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, ^~~~~~~~~~~~~~~~~~~~~ In file included from ../include/asn2ff6.h:142:0, from pgppop.c:300: ../include/asnprt.h:61:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/asnprt.h:60:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/asnprt.h:59:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^~~ ../include/asnprt.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF samutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbistd.h:103, from ../include/samutil.h:230, from samutil.c:280: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ samutil.c: In function ‘SAM_AlignIdComp’: samutil.c:1034:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if ((a == NULL) || (b == NULL)) ^~ samutil.c:1037:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ choice = a->choice; ^~~~~~ samutil.c: In function ‘SAM_AlignIdDup’: samutil.c:1090:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (oldid == NULL) ^~ samutil.c:1093:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ newid = ValNodeNew(NULL); ^~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ddvcolor.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ddvcolor.c:160: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF viewmgr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/viewmgr.h:111, from viewmgr.c:165: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ddvcreate.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ddvcreate.h:142, from ddvcreate.c:245: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:2362:16: warning: ‘DDV_DisplayBlastSAP’ defined but not used [-Wunused-function] static Boolean DDV_DisplayBlastSAP(SeqAlignPtr sap, ValNodePtr mask, ^~~~~~~~~~~~~~~~~~~ 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: 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, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ LineSize,hFile,byteSpp,matrix,gclr,NULL); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF jsavlt.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/jsavlt.h:4, from jsavlt.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF needleman.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/needleman.h:40, from needleman.c:78: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF txalign.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/maputil.h:113, from ../include/jzcoll.h:123, from ../include/txalign.h:228, from txalign.c:559: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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: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:6655:33: warning: ‘st’ defined but not used [-Wunused-variable] tmp[10] = " ", *st; ^~ txalign.c:6581:9: warning: ‘tmp’ defined but not used [-Wunused-variable] tmp[10] = " ", *st; ^~~ txalign.c:6581:33: warning: ‘st’ defined but not used [-Wunused-variable] tmp[10] = " ", *st; ^~ txalign.c:3433:1: warning: ‘get_seq_id’ defined but not used [-Wunused-function] get_seq_id(SeqAlignPtr sap, Int2 index) ^~~~~~~~~~ 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:630:16: warning: ‘getNameInitials’ defined but not used [-Wunused-function] static CharPtr getNameInitials(CharPtr name){ ^~~~~~~~~~~~~~~ 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.10’: txalign.c:6049:16: warning: ‘number’ may be used uninitialized in this function [-Wmaybe-uninitialized] number = number/10; ~~~~~~~^~~~~~~~~~~ txalign.c:6078:16: note: ‘number’ was declared here static Boolean OOFShowSingleAlignment(SeqAlignPtr sap, ValNodePtr mask, ^~~~~~~~~~~~~~~~~~~~~~ txalign.c:6049:16: warning: ‘number’ may be used uninitialized in this function [-Wmaybe-uninitialized] number = number/10; ~~~~~~~^~~~~~~~~~~ txalign.c:6078:16: note: ‘number’ was declared here static Boolean OOFShowSingleAlignment(SeqAlignPtr sap, ValNodePtr mask, ^~~~~~~~~~~~~~~~~~~~~~ txalign.c:6049:16: warning: ‘number’ may be used uninitialized in this function [-Wmaybe-uninitialized] number = number/10; ~~~~~~~^~~~~~~~~~~ txalign.c:6078:16: note: ‘number’ was declared here static Boolean OOFShowSingleAlignment(SeqAlignPtr sap, ValNodePtr mask, ^~~~~~~~~~~~~~~~~~~~~~ txalign.c:6049:16: warning: ‘number’ may be used uninitialized in this function [-Wmaybe-uninitialized] number = number/10; ~~~~~~~^~~~~~~~~~~ txalign.c:6078:16: note: ‘number’ was declared here static Boolean OOFShowSingleAlignment(SeqAlignPtr sap, ValNodePtr mask, ^~~~~~~~~~~~~~~~~~~~~~ txalign.c:6237:12: warning: ‘dna_line_start’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (dna_line_start == 0) ^ txalign.c:6240:11: warning: ‘pro_line_start’ may be used uninitialized in this function [-Wmaybe-uninitialized] if(pro_line_start == 0) ^ 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:2479:5: warning: ‘m_spp’ may be used uninitialized in this function [-Wmaybe-uninitialized] SeqPortFree(m_spp); ^~~~~~~~~~~~~~~~~~ txalign.c:2394:16: note: ‘m_spp’ was declared here SeqPortPtr m_spp, t_spp; ^~~~~ txalign.c: In function ‘ShowAlignNodeText2Ex.isra.11’: 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF fdlobj.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from fdlobj.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF alignmgr2.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/alignmgr2.h:110, from alignmgr2.c:232: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:3540:13: warning: ‘AlnMgr2AddInNewSA’ defined but not used [-Wunused-function] static void AlnMgr2AddInNewSA(SeqAlignPtr parent, SeqAlignPtr sap) ^~~~~~~~~~~~~~~~~ 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:2123:13: warning: ‘AlnMgr2SortVerticesByNumEdges’ defined but not used [-Wunused-function] static void AlnMgr2SortVerticesByNumEdges(AMVertexPtr PNTR vertexarray, Int4 numvertices) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF alnread.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF aceread.c aceread.c:3308:12: warning: ‘s_GetUngappedPosition’ defined but not used [-Wunused-function] static int s_GetUngappedPosition (int gapped_pos, char *seq) ^~~~~~~~~~~~~~~~~~~~~ aceread.c:276:13: warning: ‘AdjustGapInfoFor3Trim’ defined but not used [-Wunused-function] static void AdjustGapInfoFor3Trim (TGapInfoPtr gap_info, int new_len) ^~~~~~~~~~~~~~~~~~~~~ aceread.c:247:13: warning: ‘AdjustGapInfoFor5Trim’ defined but not used [-Wunused-function] static void AdjustGapInfoFor5Trim (TGapInfoPtr gap_info, int trim) ^~~~~~~~~~~~~~~~~~~~~ aceread.c:134:12: warning: ‘s_IsGapChar’ defined but not used [-Wunused-function] static int s_IsGapChar (char ch, char *gap_chars) ^~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF cdentrez.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/accentr.h:125, from cdentrez.c:162: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ cdentrez.c:283:23: warning: ‘CdEntMlSumGet’ declared ‘static’ but never defined [-Wunused-function] static DocSumPtr NEAR CdEntMlSumGet PROTO((Int4 uid)); ^~~~~~~~~~~~~ cdentrez.c:310:23: warning: ‘CdEntSeqSumGet’ declared ‘static’ but never defined [-Wunused-function] static DocSumPtr NEAR CdEntSeqSumGet PROTO((Int4 uid, DocType type)); ^~~~~~~~~~~~~~ cdentrez.c:2935:23: warning: ‘MedSumAsnRead’ defined but not used [-Wunused-function] static DocSumPtr NEAR MedSumAsnRead (AsnIoPtr aip, DocUid uid) ^~~~~~~~~~~~~ cdentrez.c:1616:26: warning: ‘FreePostingList’ defined but not used [-Wunused-function] static ByteStorePtr NEAR FreePostingList (ByteStorePtr lst) ^~~~~~~~~~~~~~~ cdentrez.c:307:20: warning: ‘BIOSEQ_id_E’ defined but not used [-Wunused-variable] static AsnTypePtr BIOSEQ_id_E = NULL; ^~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF cdromlib.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objacces.h:64, from ../include/cdromlib.h:71, from cdromlib.c:73: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF cdnewlib.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objacces.h:64, from ../include/cdromlib.h:71, from cdnewlib.c:208: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~~ At top level: cdnewlib.c:3605:13: warning: ‘Cache_Purge’ defined but not used [-Wunused-function] static void Cache_Purge (Cache *cache) ^~~~~~~~~~~ cdnewlib.c:3592:14: warning: ‘Cache_Peek’ defined but not used [-Wunused-function] static void* Cache_Peek (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:3506:12: warning: ‘Cache_Delete’ defined but not used [-Wunused-function] static int Cache_Delete (Cache *cache, long id) ^~~~~~~~~~~~ cdnewlib.c:638:18: warning: ‘_div’ defined but not used [-Wunused-variable] static DivInfo * _div; ^~~~ cdnewlib.c:582:15: warning: ‘_empty_string’ defined but not used [-Wunused-variable] static char * _empty_string = ""; ^~~~~~~~~~~~~ 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:2362:13: warning: ‘c2’ may be used uninitialized in this function [-Wmaybe-uninitialized] int i, c1, c2; ^~ cdnewlib.c:2375:5: warning: ‘c1’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (c1 == '/') ^ In file included from /usr/include/string.h:635:0, 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/s390x-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/s390x-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/s390x-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:2168:27: warning: ‘term’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (d==0 && len == (int)strlen(term)) ^~~~~~~~~~~~ cdnewlib.c:2168:6: warning: ‘d’ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF casn.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from casn.c:84: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF cdconfig.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from cdconfig.c:75: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objentr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/cdrom.h:9, from objentr.c:102: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ objentr.c: In function ‘CdRomAsnLoad’: objentr.c:170:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (loaded) ^~ objentr.c:172:9: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ loaded = TRUE; ^~~~~~ 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; ^~~~~~~ At top level: objentr.c:806:23: warning: ‘EntrezDivInfo_Destruct’ defined but not used [-Wunused-function] static EntrezDivInfo* EntrezDivInfo_Destruct (EntrezDivInfo *div) ^~~~~~~~~~~~~~~~~~~~~~ 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: 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:856:16: 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF vibbutns.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibbutns.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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.isra.1’: 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF vibextra.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibextra.c:87: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF vibfiles.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibfiles.c:54: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF vibforms.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from vibforms.c:44: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF vibgroup.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibgroup.c:84: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF viblists.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from viblists.c:161: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF vibmenus.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibmenus.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF vibprmpt.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibprmpt.c:78: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF vibsbars.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibsbars.c:128: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF vibslate.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibslate.c:53: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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_ResetPanel’: vibslate.c:1390:5: warning: ‘pdata.reset’ may be used uninitialized in this function [-Wmaybe-uninitialized] rst ((Nlm_PaneL) p); ^~~~~~~~~~~~~~~~~~~ vibslate.c: In function ‘Nlm_SlateDrawCallback’: vibslate.c:2215:10: warning: ‘pdata.click’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:2202:20: note: ‘pdata.click’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2215:31: warning: ‘pdata.drag’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:2202:20: note: ‘pdata.drag’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2223:11: warning: ‘pdata.draw’ may be used uninitialized in this function [-Wmaybe-uninitialized] drw (p); ^~~~~~~ vibslate.c:560:18: note: ‘pdata.draw’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2216:55: warning: ‘pdata.reset’ may be used uninitialized in this function [-Wmaybe-uninitialized] pdata.release != NULL || pdata.draw != NULL || pdata.reset != NULL) { ^ vibslate.c:2202:20: note: ‘pdata.reset’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2216:33: warning: ‘pdata.draw’ may be used uninitialized in this function [-Wmaybe-uninitialized] pdata.release != NULL || pdata.draw != NULL || pdata.reset != NULL) { ^ vibslate.c:2202:20: note: ‘pdata.draw’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2215:75: warning: ‘pdata.release’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:2202:20: note: ‘pdata.release’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2215:53: warning: ‘pdata.hold’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:2202:20: note: ‘pdata.hold’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c: In function ‘Nlm_ResetSlate’: vibslate.c:1354:7: warning: ‘pdata.reset’ may be used uninitialized in this function [-Wmaybe-uninitialized] rst (p); ^~~~~~~ vibslate.c:1347:29: warning: ‘pdata.draw’ may be used uninitialized in this function [-Wmaybe-uninitialized] pdata.release != NULL || pdata.draw != NULL || pdata.reset != NULL) { ^ vibslate.c:1346:71: warning: ‘pdata.release’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:1346:49: warning: ‘pdata.hold’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:1346:27: warning: ‘pdata.drag’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:1346:6: warning: ‘pdata.click’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c: In function ‘Nlm_RemoveSlate’: vibslate.c:1454:7: warning: ‘pdata.reset’ may be used uninitialized in this function [-Wmaybe-uninitialized] rst (p); ^~~~~~~ vibslate.c:1450:29: warning: ‘pdata.draw’ may be used uninitialized in this function [-Wmaybe-uninitialized] pdata.release != NULL || pdata.draw != NULL || pdata.reset != NULL) { ^ vibslate.c:1449:71: warning: ‘pdata.release’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:1449:49: warning: ‘pdata.hold’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:1449:27: warning: ‘pdata.drag’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:1449:6: warning: ‘pdata.click’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c: In function ‘Nlm_SlateClickCallback’: vibslate.c:2048:10: warning: ‘pdata.click’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:2031:20: note: ‘pdata.click’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2048:31: warning: ‘pdata.drag’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:2031:20: note: ‘pdata.drag’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2053:12: warning: ‘pdata.click’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (clk != NULL && Nlm_GetEnabled ((Nlm_GraphiC) p) ^ vibslate.c:524:18: note: ‘pdata.click’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2049:55: warning: ‘pdata.reset’ may be used uninitialized in this function [-Wmaybe-uninitialized] pdata.release != NULL || pdata.draw != NULL || pdata.reset != NULL) { ^ vibslate.c:2031:20: note: ‘pdata.reset’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2049:33: warning: ‘pdata.draw’ may be used uninitialized in this function [-Wmaybe-uninitialized] pdata.release != NULL || pdata.draw != NULL || pdata.reset != NULL) { ^ vibslate.c:2031:20: note: ‘pdata.draw’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2048:75: warning: ‘pdata.release’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:2031:20: note: ‘pdata.release’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2048:53: warning: ‘pdata.hold’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:2031:20: note: ‘pdata.hold’ was declared here Nlm_PanelData pdata; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF vibtexts.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibtexts.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF vibutils.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from vibutils.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF vibwndws.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibwndws.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF vibmain.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibmain.c:40: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ vibmain.c:121:1: warning: return type defaults to ‘int’ [-Wimplicit-int] main (int argc, char *argv[]) ^~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbidraw.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ncbidraw.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ ncbidraw.c: In function ‘Nlm_CleanUpDrawingTools’: ncbidraw.c:7541:5: warning: ‘fdata.handle’ may be used uninitialized in this function [-Wmaybe-uninitialized] XFreeFont (Nlm_currentXDisplay, fdata.handle); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF drawing.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ncbidraw.h:47, from drawing.c:128: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF mapping.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ncbidraw.h:47, from mapping.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF picture.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ncbidraw.h:47, from picture.c:100: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF viewer.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from viewer.c:120: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF document.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from document.c:44: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF table.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/panels.h:68, from table.c:62: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF palette.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/panels.h:68, from palette.c:62: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF diagnost.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from diagnost.c:44: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF image.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from image.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF pictur3d.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/pictur3d.h:49, from ../include/ppict3d.h:49, from pictur3d.c:47: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ pictur3d.c: In function ‘Nlm_DeleteFromSeg’: pictur3d.c:114:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else seg->first = b->next; ^~~~ pictur3d.c:115:3: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ if ( seg->last == b ) seg->last = bprev; ^~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF prim3d1.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from prim3d1.c:46: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF prim3d2.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from prim3d2.c:65: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF prim3d3.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from prim3d3.c:46: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF prim3d4.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from prim3d4.c:46: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF prim3d5.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from prim3d5.c:66: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF viewer3d.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF vibmouse.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from vibmouse.c:67: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF netscape.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from netscape.c:62: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF imagelst.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/imagelst.h:52, from imagelst.c:61: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF treeview.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/treemgr.h:67, from treeview.c:91: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF odlbox.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from odlbox.c:50: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibbutns.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibbutns.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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.isra.1’: 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibextra.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibextra.c:87: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibfiles.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibfiles.c:54: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv vibfiles.o vibfiles.glo mv vibfiles.tmp vibfiles.o mv vibforms.o vibforms.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibforms.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from vibforms.c:44: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv vibforms.o vibforms.glo mv vibforms.tmp vibforms.o mv vibgroup.o vibgroup.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibgroup.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibgroup.c:84: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv vibgroup.o vibgroup.glo mv vibgroup.tmp vibgroup.o mv viblists.o viblists.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL viblists.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from viblists.c:161: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibmenus.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibmenus.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibprmpt.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibprmpt.c:78: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv vibprmpt.o vibprmpt.glo mv vibprmpt.tmp vibprmpt.o mv vibsbars.o vibsbars.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibsbars.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibsbars.c:128: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv vibsbars.o vibsbars.glo mv vibsbars.tmp vibsbars.o mv vibslate.o vibslate.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibslate.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibslate.c:53: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~~~~~~~~ vibslate.c: In function ‘Nlm_ResetPanel’: vibslate.c:1390:5: warning: ‘pdata.reset’ may be used uninitialized in this function [-Wmaybe-uninitialized] rst ((Nlm_PaneL) p); ^~~~~~~~~~~~~~~~~~~ vibslate.c: In function ‘Nlm_SlateDrawCallback’: vibslate.c:2215:10: warning: ‘pdata.click’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:2202:20: note: ‘pdata.click’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2215:31: warning: ‘pdata.drag’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:2202:20: note: ‘pdata.drag’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2223:11: warning: ‘pdata.draw’ may be used uninitialized in this function [-Wmaybe-uninitialized] drw (p); ^~~~~~~ vibslate.c:560:18: note: ‘pdata.draw’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2216:55: warning: ‘pdata.reset’ may be used uninitialized in this function [-Wmaybe-uninitialized] pdata.release != NULL || pdata.draw != NULL || pdata.reset != NULL) { ^ vibslate.c:2202:20: note: ‘pdata.reset’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2216:33: warning: ‘pdata.draw’ may be used uninitialized in this function [-Wmaybe-uninitialized] pdata.release != NULL || pdata.draw != NULL || pdata.reset != NULL) { ^ vibslate.c:2202:20: note: ‘pdata.draw’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2215:75: warning: ‘pdata.release’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:2202:20: note: ‘pdata.release’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2215:53: warning: ‘pdata.hold’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:2202:20: note: ‘pdata.hold’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c: In function ‘Nlm_ResetSlate’: vibslate.c:1354:7: warning: ‘pdata.reset’ may be used uninitialized in this function [-Wmaybe-uninitialized] rst (p); ^~~~~~~ vibslate.c:1347:29: warning: ‘pdata.draw’ may be used uninitialized in this function [-Wmaybe-uninitialized] pdata.release != NULL || pdata.draw != NULL || pdata.reset != NULL) { ^ vibslate.c:1346:71: warning: ‘pdata.release’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:1346:49: warning: ‘pdata.hold’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:1346:27: warning: ‘pdata.drag’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:1346:6: warning: ‘pdata.click’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c: In function ‘Nlm_RemoveSlate’: vibslate.c:1454:7: warning: ‘pdata.reset’ may be used uninitialized in this function [-Wmaybe-uninitialized] rst (p); ^~~~~~~ vibslate.c:1450:29: warning: ‘pdata.draw’ may be used uninitialized in this function [-Wmaybe-uninitialized] pdata.release != NULL || pdata.draw != NULL || pdata.reset != NULL) { ^ vibslate.c:1449:71: warning: ‘pdata.release’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:1449:49: warning: ‘pdata.hold’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:1449:27: warning: ‘pdata.drag’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:1449:6: warning: ‘pdata.click’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c: In function ‘Nlm_SlateClickCallback’: vibslate.c:2048:10: warning: ‘pdata.click’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:2031:20: note: ‘pdata.click’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2048:31: warning: ‘pdata.drag’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:2031:20: note: ‘pdata.drag’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2053:12: warning: ‘pdata.click’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (clk != NULL && Nlm_GetEnabled ((Nlm_GraphiC) p) ^ vibslate.c:524:18: note: ‘pdata.click’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2049:55: warning: ‘pdata.reset’ may be used uninitialized in this function [-Wmaybe-uninitialized] pdata.release != NULL || pdata.draw != NULL || pdata.reset != NULL) { ^ vibslate.c:2031:20: note: ‘pdata.reset’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2049:33: warning: ‘pdata.draw’ may be used uninitialized in this function [-Wmaybe-uninitialized] pdata.release != NULL || pdata.draw != NULL || pdata.reset != NULL) { ^ vibslate.c:2031:20: note: ‘pdata.draw’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2048:75: warning: ‘pdata.release’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:2031:20: note: ‘pdata.release’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2048:53: warning: ‘pdata.hold’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:2031:20: note: ‘pdata.hold’ was declared here Nlm_PanelData pdata; ^~~~~ mv vibslate.o vibslate.glo mv vibslate.tmp vibslate.o mv vibtexts.o vibtexts.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibtexts.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibtexts.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibutils.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from vibutils.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibwndws.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibwndws.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibmain.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibmain.c:40: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL ncbidraw.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ncbidraw.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ ncbidraw.c: In function ‘Nlm_CleanUpDrawingTools’: ncbidraw.c:7541:5: warning: ‘fdata.handle’ may be used uninitialized in this function [-Wmaybe-uninitialized] XFreeFont (Nlm_currentXDisplay, fdata.handle); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mv ncbidraw.o ncbidraw.glo mv ncbidraw.tmp ncbidraw.o mv drawing.o drawing.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL drawing.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ncbidraw.h:47, from drawing.c:128: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv drawing.o drawing.glo mv drawing.tmp drawing.o mv mapping.o mapping.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL mapping.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ncbidraw.h:47, from mapping.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL picture.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ncbidraw.h:47, from picture.c:100: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv picture.o picture.glo mv picture.tmp picture.o mv viewer.o viewer.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL viewer.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from viewer.c:120: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv viewer.o viewer.glo mv viewer.tmp viewer.o mv document.o document.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL document.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from document.c:44: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL table.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/panels.h:68, from table.c:62: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv table.o table.glo mv table.tmp table.o mv palette.o palette.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL palette.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/panels.h:68, from palette.c:62: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv palette.o palette.glo mv palette.tmp palette.o mv diagnost.o diagnost.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL diagnost.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from diagnost.c:44: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv diagnost.o diagnost.glo mv diagnost.tmp diagnost.o mv image.o image.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL image.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from image.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL pictur3d.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/pictur3d.h:49, from ../include/ppict3d.h:49, from pictur3d.c:47: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ pictur3d.c: In function ‘Nlm_DeleteFromSeg’: pictur3d.c:114:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else seg->first = b->next; ^~~~ pictur3d.c:115:3: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ if ( seg->last == b ) seg->last = bprev; ^~ mv pictur3d.o pictur3d.glo mv pictur3d.tmp pictur3d.o mv prim3d1.o prim3d1.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL prim3d1.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from prim3d1.c:46: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv prim3d1.o prim3d1.glo mv prim3d1.tmp prim3d1.o mv prim3d2.o prim3d2.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL prim3d2.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from prim3d2.c:65: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv prim3d2.o prim3d2.glo mv prim3d2.tmp prim3d2.o mv prim3d3.o prim3d3.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL prim3d3.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from prim3d3.c:46: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv prim3d3.o prim3d3.glo mv prim3d3.tmp prim3d3.o mv prim3d4.o prim3d4.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL prim3d4.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from prim3d4.c:46: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv prim3d4.o prim3d4.glo mv prim3d4.tmp prim3d4.o mv prim3d5.o prim3d5.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL prim3d5.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from prim3d5.c:66: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv prim3d5.o prim3d5.glo mv prim3d5.tmp prim3d5.o mv viewer3d.o viewer3d.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibmouse.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from vibmouse.c:67: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv vibmouse.o vibmouse.glo mv vibmouse.tmp vibmouse.o mv netscape.o netscape.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL netscape.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from netscape.c:62: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL imagelst.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/imagelst.h:52, from imagelst.c:61: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv imagelst.o imagelst.glo mv imagelst.tmp imagelst.o mv treeview.o treeview.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL treeview.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/treemgr.h:67, from treeview.c:91: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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:2369:64: warning: ‘list’ may be used uninitialized in this function [-Wmaybe-uninitialized] 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL odlbox.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from odlbox.c:50: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF accentr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/accentr.h:125, from accentr.c:297: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ accentr.c: In function ‘EntrezBiostrucGet’: accentr.c:2113:17: warning: unused variable ‘retval’ [-Wunused-variable] BiostrucPtr retval = NULL; ^~~~~~ accentr.c: In function ‘EntrezGIForSeqIdFunc’: accentr.c:3283:9: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! gi) return OM_MSG_RET_OK; ^~ accentr.c:3285:5: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ sip2 = ValNodeNew(NULL); ^~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF accutils.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/accentr.h:125, from ../include/accutils.h:119, from accutils.c:149: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF drawseq.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from drawseq.c:3: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~~~~~ At top level: drawseq.c:3525:22: warning: ‘get_ith_arp’ defined but not used [-Wunused-function] static AlignRangePtr get_ith_arp(AlignRangePtr arp, Int2 i) ^~~~~~~~~~~ drawseq.c:3511:18: warning: ‘get_map_pos’ defined but not used [-Wunused-function] static MapPosPtr get_map_pos(MapLayoutPtr mlp, SeqIdPtr sip) ^~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF dotmatrx.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dotmatrx.h:47, from dotmatrx.c:32: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF fea2seg.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from fea2seg.c:74: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF fstyle.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from fstyle.c:55: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF smdlg1.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from smdlg1.c:53: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF smdlg2.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from smdlg2.c:48: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF smdlg3.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from smdlg3.c:48: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF smtools.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from smtools.c:48: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF styleman.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from styleman.c:48: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF stylemui.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from stylemui.c:48: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF glbpic.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from glbpic.c:22: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~ At top level: 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: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: 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: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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF layout.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/maputil.h:113, from ../include/jzcoll.h:123, from ../include/layout.h:3, from layout.c:2: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~ 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: 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: ‘vnp’ may be used uninitialized in this function [-Wmaybe-uninitialized] i = find_align_line_number(anp, vnp->next, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ label_align, &next, &line_status_list, m_right, maxScale); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF saldist.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/salsa.h:48, from ../include/saldist.h:48, from saldist.c:44: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ saldist.c: In function ‘AAcode’: saldist.c:1003:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (car=='A') return(1); if (car=='B') return(2); ^~ saldist.c:1003:29: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (car=='A') return(1); if (car=='B') return(2); ^~ saldist.c:1004:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (car=='C') return(3); if (car=='D') return(4); ^~ saldist.c:1004:29: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (car=='C') return(3); if (car=='D') return(4); ^~ saldist.c:1005:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (car=='E') return(5); if (car=='F') return(6); ^~ saldist.c:1005:29: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (car=='E') return(5); if (car=='F') return(6); ^~ saldist.c:1006:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (car=='G') return(7); if (car=='H') return(8); ^~ saldist.c:1006:29: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (car=='G') return(7); if (car=='H') return(8); ^~ saldist.c:1007:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (car=='I') return(9); if (car=='K') return(10); ^~ saldist.c:1007:29: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (car=='I') return(9); if (car=='K') return(10); ^~ saldist.c:1008:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (car=='L') return(11); if (car=='M') return(12); ^~ saldist.c:1008:29: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (car=='L') return(11); if (car=='M') return(12); ^~ saldist.c:1009:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (car=='N') return(13); if (car=='P') return(14); ^~ saldist.c:1009:29: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (car=='N') return(13); if (car=='P') return(14); ^~ saldist.c:1010:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (car=='Q') return(15); if (car=='R') return(16); ^~ saldist.c:1010:29: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (car=='Q') return(15); if (car=='R') return(16); ^~ saldist.c:1011:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (car=='S') return(17); if (car=='T') return(18); ^~ saldist.c:1011:29: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (car=='S') return(17); if (car=='T') return(18); ^~ saldist.c:1012:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (car=='V') return(19); if (car=='W') return(20); ^~ saldist.c:1012:29: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (car=='V') return(19); if (car=='W') return(20); ^~ saldist.c:1013:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (car=='X') return(21); if (car=='Y') return(22); ^~ saldist.c:1013:29: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (car=='X') return(21); if (car=='Y') return(22); ^~ saldist.c:1014:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (car=='Z') return(23); if (car=='U') return(24); ^~ saldist.c:1014:29: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (car=='Z') return(23); if (car=='U') return(24); ^~ 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: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:1080:24: warning: ‘FloatLomatrix’ defined but not used [-Wunused-function] static FloatLoPtr PNTR FloatLomatrix (Int2 nrows, Int2 ncol) ^~~~~~~~~~~~~ saldist.c:999:13: warning: ‘AAcode’ defined but not used [-Wunused-function] static Int2 AAcode(Char car) ^~~~~~ saldist.c:928:16: warning: ‘new_matrice’ defined but not used [-Wunused-function] static Boolean new_matrice (Int2 simmatrix, CharPtr path) ^~~~~~~~~~~ saldist.c:910:14: warning: ‘matrixlst’ defined but not used [-Wunused-variable] static Char *matrixlst [] = {"", "idmat", ^~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF saled.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/saledit.h:48, from saled.c:44: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF salfiles.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/saledit.h:48, from ../include/salfiles.h:48, from salfiles.c:44: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘FindSeqEntryForSeqIdCallback’: salfiles.c:2672:12: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (SeqIdForSameBioseq(cip->sip, sip)) ^~ salfiles.c:2674:15: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ cip->bsp = bsp; ^~~ 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:751:19: warning: ‘seqstr’ may be used uninitialized in this function [-Wmaybe-uninitialized] seqstr [lgseq] = '\0'; ^ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF salpanel.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/saledit.h:48, from salpanel.c:44: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:5055:13: warning: ‘BatchApplyFeatureDetailsMessage’ defined but not used [-Wunused-function] static void BatchApplyFeatureDetailsMessage (DialoG d, Int2 mssg) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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:113:14: warning: ‘leftOvalFillSym’ defined but not used [-Wunused-variable] static Uint1 leftOvalFillSym [] = { ^~~~~~~~~~~~~~~ salpanel.c:110:14: warning: ‘rightOvalFillSym’ defined but not used [-Wunused-variable] static Uint1 rightOvalFillSym [] = { ^~~~~~~~~~~~~~~~ salpanel.c:107:14: warning: ‘leftOvalSym’ defined but not used [-Wunused-variable] static Uint1 leftOvalSym [] = { ^~~~~~~~~~~ salpanel.c:104:14: warning: ‘rightOvalSym’ defined but not used [-Wunused-variable] static Uint1 rightOvalSym [] = { ^~~~~~~~~~~~ salpanel.c:101:14: warning: ‘downTriFillSym’ defined but not used [-Wunused-variable] static Uint1 downTriFillSym [] = { ^~~~~~~~~~~~~~ salpanel.c:98:14: warning: ‘upTriFillSym’ defined but not used [-Wunused-variable] static Uint1 upTriFillSym [] = { ^~~~~~~~~~~~ salpanel.c:89:14: warning: ‘ovalFillSym’ defined but not used [-Wunused-variable] static Uint1 ovalFillSym [] = { ^~~~~~~~~~~ salpanel.c:86:14: warning: ‘diamondFillSym’ defined but not used [-Wunused-variable] static Uint1 diamondFillSym [] = { ^~~~~~~~~~~~~~ salpanel.c:80:14: warning: ‘downTriSym’ defined but not used [-Wunused-variable] static Uint1 downTriSym [] = { ^~~~~~~~~~ salpanel.c:77:14: warning: ‘upTriSym’ defined but not used [-Wunused-variable] static Uint1 upTriSym [] = { ^~~~~~~~ salpanel.c:68:14: warning: ‘ovalSym’ defined but not used [-Wunused-variable] static Uint1 ovalSym [] = { ^~~~~~~ salpanel.c:65:14: warning: ‘diamondSym’ defined but not used [-Wunused-variable] static Uint1 diamondSym [] = { ^~~~~~~~~~ salpanel.c: In function ‘draw_feat.isra.16.part.17’: 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF salparam.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/salsa.h:48, from ../include/salparam.h:48, from salparam.c:44: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF salsa.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/salsa.h:48, from salsa.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ../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:6021:13: warning: ‘SWPrintFarpointerAln’ defined but not used [-Wunused-function] static void SWPrintFarpointerAln(SeqAlignPtr sap, FILE *fp) ^~~~~~~~~~~~~~~~~~~~ salsa.c:4884:16: warning: ‘DeltaLitOnly’ defined but not used [-Wunused-function] static Boolean DeltaLitOnly (BioseqPtr bsp) ^~~~~~~~~~~~ salsa.c:2360:13: warning: ‘MakeCdRgnrProc’ defined but not used [-Wunused-function] static void MakeCdRgnrProc (IteM i) { ^~~~~~~~~~~~~~ salsa.c:2356:13: warning: ‘MakeCdRgnProc’ defined but not used [-Wunused-function] static void MakeCdRgnProc (IteM i) { ^~~~~~~~~~~~~ salsa.c:1760:13: warning: ‘AcceptCloseWindowButton’ defined but not used [-Wunused-function] static void AcceptCloseWindowButton (ButtoN b) ^~~~~~~~~~~~~~~~~~~~~~~ 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/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.12’: 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF seqfltr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objres.h:73, from seqfltr.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF seqgraph.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objseq.h:48, from seqgraph.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘CutOffProc’: seqgraph.c:911:11: warning: ‘fval’ may be used uninitialized in this function [-Wmaybe-uninitialized] val = fval/2; ~~~~^~~~~~~~ seqgraph.c:841:14: note: ‘fval’ was declared here FloatHi fval; ^~~~ seqgraph.c:1050:20: warning: ‘eplist’ may be used uninitialized in this function [-Wmaybe-uninitialized] eplist->next = NULL; ^ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF seqgrphx.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objseq.h:48, from seqgrphx.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF seqmtrx.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objres.h:73, from seqmtrx.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF seqpcc.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objres.h:73, from seqpcc.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF seqanal.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objseq.h:48, from seqanal.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF aacomp.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objres.h:73, from aacomp.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF seqscrl.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objseq.h:48, from ../include/seqscrl.h:4, from seqscrl.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF valdlg.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/vibforms.h:46, from valdlg.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF vsm.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/vsmpriv.h:48, from vsm.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ vsm.c: In function ‘VSMDrawAbout’: vsm.c:1462:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (vsmp->title != NULL) ^~ vsm.c:1464:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (vsmp->aboutinfo != NULL) ^~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF vsmfile.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/vsmpriv.h:48, from vsmfile.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF vsmutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from vsmutil.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ vsmutil.c: In function ‘GetDocPosForError’: vsmutil.c:1657:18: warning: variable ‘val’ set but not used [-Wunused-but-set-variable] Int2 val; ^~~ At top level: 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:387:20: warning: ‘GetSeqDescGivenIDs’ defined but not used [-Wunused-function] static SeqDescrPtr GetSeqDescGivenIDs (Uint2 entityID, Uint4 itemID, Uint2 itemtype) ^~~~~~~~~~~~~~~~~~ vsmutil.c: In function ‘ContinueProc’: vsmutil.c:2157:23: warning: iteration 6 invokes undefined behavior [-Waggressive-loop-optimizations] vep->counts [i] = 0; ~~~~~~~~~~~~~~~~^~~ vsmutil.c:2156:5: note: within this loop for (i = SEV_NONE; i <= SEV_MAX; i++) { ^~~ vsmutil.c: In function ‘RevalidateProc’: vsmutil.c:2124:23: warning: iteration 6 invokes undefined behavior [-Waggressive-loop-optimizations] vep->counts [i] = 0; ~~~~~~~~~~~~~~~~^~~ vsmutil.c:2123:5: note: within this loop for (i = SEV_NONE; i <= SEV_MAX; i++) { ^~~ vsmutil.c: In function ‘SetVerbosityAndRepopulate’: vsmutil.c:2198:23: warning: iteration 6 invokes undefined behavior [-Waggressive-loop-optimizations] vep->counts [i] = 0; ~~~~~~~~~~~~~~~~^~~ vsmutil.c:2197:5: note: within this loop for (i = SEV_NONE; i <= SEV_MAX; i++) { ^~~ vsmutil.c: In function ‘ClearValidateWindow’: vsmutil.c:613:27: warning: iteration 6 invokes undefined behavior [-Waggressive-loop-optimizations] vep->counts [sev] = 0; ~~~~~~~~~~~~~~~~~~^~~ vsmutil.c:612:7: note: within this loop for (sev = SEV_NONE; sev <= SEV_MAX; sev++) { ^~~ vsmutil.c: In function ‘CreateValidateWindowExExEx’: vsmutil.c:2521:27: warning: iteration 6 invokes undefined behavior [-Waggressive-loop-optimizations] vep->counts [i] = 0; ~~~~~~~~~~~~~~~~^~~ vsmutil.c:2520:9: note: within this loop for (i = SEV_NONE; i <= SEV_MAX; i++) { ^~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF udvgraph.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/explore.h:49, from ../include/udviewer.h:209, from udvgraph.c:177: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:4111:9: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(vdp->vgp->MasterViewer == SAMVIEWDDV) ^~ udvgraph.c:4113:13: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ Row = ViewMgr_GetRow(svpp, vdp->userkey); ^~~ 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; ^~~~~~~ At top level: 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:3433:14: warning: ‘UDV_Draw_features_label’ defined but not used [-Wunused-function] static void UDV_Draw_features_label(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:971:14: warning: ‘UDV_draw_horz_cursor’ defined but not used [-Wunused-function] static void UDV_draw_horz_cursor(UnDViewerGraphDataPtr GrData, ^~~~~~~~~~~~~~~~~~~~ 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) ^~~~~~~~~~~~~~~~~~~~ In file included from ../include/asn2ff6.h:142:0, from udvgraph.c:180: ../include/asnprt.h:61:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/asnprt.h:60:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/asnprt.h:59:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^~~ ../include/asnprt.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^~~~~~~~~~~ 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:3203:58: 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:3203:38: 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:3189:58: 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:3189:38: 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF udvopen.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/explore.h:49, from ../include/udviewer.h:209, from udvopen.c:101: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF udvpanel.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/explore.h:49, from ../include/udviewer.h:209, from udvpanel.c:197: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF dotvibrant.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/dotviewer.h:15, from dotvibrant.c:84: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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: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:6346:13: warning: ‘DOT_NewAnalysis’ defined but not used [-Wunused-function] static void DOT_NewAnalysis (ButtoN b) ^~~~~~~~~~~~~~~ dotvibrant.c:5894:16: warning: ‘DOT_get_eval’ defined but not used [-Wunused-function] static FloatHi DOT_get_eval(Int4 exp) ^~~~~~~~~~~~ dotvibrant.c:5325:16: warning: ‘DOT_GetAlign’ defined but not used [-Wunused-function] static Boolean DOT_GetAlign (DOTAlignInfoPtr alp) ^~~~~~~~~~~~ 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:4767:13: warning: ‘DOT_FeatAnalysisProc’ defined but not used [-Wunused-function] static void DOT_FeatAnalysisProc(ButtoN b) ^~~~~~~~~~~~~~~~~~~~ dotvibrant.c:4749:13: warning: ‘DOT_GetInfoProc’ defined but not used [-Wunused-function] static void DOT_GetInfoProc (IteM i) ^~~~~~~~~~~~~~~ dotvibrant.c:4213:25: warning: ‘DOT_MsgFunc’ defined but not used [-Wunused-function] static Int2 LIBCALLBACK DOT_MsgFunc (OMMsgStructPtr ommsp) ^~~~~~~~~~~ dotvibrant.c:3688:13: warning: ‘DOT_HideAcceptProc’ defined but not used [-Wunused-function] static void DOT_HideAcceptProc(ButtoN b) ^~~~~~~~~~~~~~~~~~ dotvibrant.c:3318:13: warning: ‘DOT_AddFeatureToSegment’ defined but not used [-Wunused-function] static void DOT_AddFeatureToSegment(SeqMgrFeatContextPtr context, ^~~~~~~~~~~~~~~~~~~~~~~ dotvibrant.c:2954:13: warning: ‘DOT_SVChangeLabels’ defined but not used [-Wunused-function] static void DOT_SVChangeLabels (GrouP g) ^~~~~~~~~~~~~~~~~~ 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: 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:2572:27: warning: ‘hit_start’ may be used uninitialized in this function [-Wmaybe-uninitialized] DOT_HlSeq(sbSeg, rc, margin, i+1, bloc_size, hit_start, hit_stop, Fh,chw_2); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF dlgutil1.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from dlgutil1.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:8378:25: warning: ‘GetNthNameValuePair’ defined but not used [-Wunused-function] static NameValuePairPtr GetNthNameValuePair (Int4 n, ValNodePtr list) ^~~~~~~~~~~~~~~~~~~ dlgutil1.c:8061:16: warning: ‘ParseSpecimenVoucherOk’ defined but not used [-Wunused-function] static Boolean ParseSpecimenVoucherOk (CharPtr str) ^~~~~~~~~~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF dlgutil2.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from dlgutil2.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~ At top level: dlgutil2.c:11993:16: warning: ‘ParseMultiListQualOk’ defined but not used [-Wunused-function] static Boolean ParseMultiListQualOk (CharPtr val) ^~~~~~~~~~~~~~~~~~~~ dlgutil2.c:10059:13: warning: ‘ClickClickableListItem’ defined but not used [-Wunused-function] static void ClickClickableListItem (DoC d, PoinT pt) ^~~~~~~~~~~~~~~~~~~~~~ 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:8577:13: warning: ‘GetCategoryNumFromName’ defined but not used [-Wunused-function] static Int4 GetCategoryNumFromName (CharPtr category) ^~~~~~~~~~~~~~~~~~~~~~ dlgutil2.c:1672:16: warning: ‘GetNameForFeature’ defined but not used [-Wunused-function] static CharPtr GetNameForFeature (SeqFeatPtr sfp) ^~~~~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF e2trmlst.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from e2trmlst.c:42: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF e2docsum.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objmgr.h:51, from e2docsum.c:42: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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: 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); ^~~~~~~~~~~~~ At top level: e2docsum.c:2883:13: warning: ‘GetBiostrucMaxModels’ defined but not used [-Wunused-function] static Int4 GetBiostrucMaxModels (void) ^~~~~~~~~~~~~~~~~~~~ e2docsum.c:2850:13: warning: ‘GetBiostrucComplexity’ defined but not used [-Wunused-function] static Int4 GetBiostrucComplexity (void) ^~~~~~~~~~~~~~~~~~~~~ e2docsum.c:2154:20: warning: ‘cddDocProcs’ defined but not used [-Wunused-variable] static DocPrntProc cddDocProcs [] = { Query_FetchDocSum, Query_FetchFields, FetchUid, NULL }; ^~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF asn2graphic.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn2graphic.h:45, from ../include/asn2graphicp.h:45, from asn2graphic.c:41: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘BuildRenderInputFromRFIP’: asn2graphic.c:2489:17: warning: ‘useLast’ may be used uninitialized in this function [-Wmaybe-uninitialized] } else if (useLast && clippedLeft) { ^ asn2graphic.c:2419:27: note: ‘useLast’ was declared here Boolean useThis = TRUE, useLast; ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF medview.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from ../include/medview.h:48, from medview.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF bspview.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, 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 bspview.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF gbfview.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, 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 gbfview.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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: 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); ^~~~~~~~~~~~~ At top level: gbfview.c:1231:13: warning: ‘LookForFarProds’ defined but not used [-Wunused-function] static void LookForFarProds ( ^~~~~~~~~~~~~~~ gbfview.c:1212:13: warning: ‘LookForFarBsp’ defined but not used [-Wunused-function] static void LookForFarBsp ( ^~~~~~~~~~~~~ gbfview.c:944:13: warning: ‘LookForPubs’ defined but not used [-Wunused-function] static void LookForPubs (BioseqPtr bsp, Pointer userdata) ^~~~~~~~~~~ gbfview.c:289:16: warning: ‘ColorIcon’ defined but not used [-Wunused-function] static Boolean ColorIcon ( ^~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF gphview.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, 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 gphview.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF gphdraw.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from gphdraw.c:59: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF gxydraw.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from gxydraw.c:50: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF gtrdraw.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from gtrdraw.c:53: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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: ‘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; ^~~~ 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: ‘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; ^~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF seqpanel.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, 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/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:691:12: 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:691:12: 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:691:12: 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:691:12: 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: 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, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ bvp->viewWholeEntity, seqbuf, alnbuf, &alnbuf_len, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ bvp->showAlnSubstitutions); ~~~~~~~~~~~~~~~~~~~~~~~~~~ seqpanel.c:2466:25: note: ‘seqbuf’ was declared here Uint1Ptr buf, seqbuf, alnbuf; ^~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ingengraph.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objmgr.h:51, from ../include/seqmgr.h:48, from ../include/ingengraph.h:52, from ingengraph.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:355:3: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ ingengraph.c:357:5: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ prim = AddRectangle(seg, start, (row)*(-20), stop, (row)*(-20)+j, NO_ARROW, FALSE,0); ^~~~ 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_AddAlignsToDetailedPage’: ingengraph.c:1097:7: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if ((start - offset - (label_len - feat_len)/2)<0) ^~ ingengraph.c:1099:9: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (bOver_the_edge) ^~ 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:602:28: warning: ‘Ing_CollectFeatures1’ defined but not used [-Wunused-function] static Boolean LIBCALLBACK Ing_CollectFeatures1(SeqFeatPtr sfp, SeqMgrFeatContextPtr sfc) ^~~~~~~~~~~~~~~~~~~~ ingengraph.c:583:24: warning: ‘Ing_SortByChoice’ defined but not used [-Wunused-function] static int LIBCALLBACK Ing_SortByChoice (VoidPtr ptr1, VoidPtr ptr2) ^~~~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ingenext.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn2ff.h:113, from ../include/ingenwin.h:58, from ../include/ingenext.h:53, from ingenext.c:46: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:2777:11: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (!All) ^~ ingenext.c:2781:13: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ SeqLocReplace(msip, mmis, mmis, mstrand, gsip, gmis, gmis, gstrand); ^~~~~~~~~~~~~ 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: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:130:13: warning: ‘querytimercount’ defined but not used [-Wunused-variable] static Int4 querytimercount = 0; ^~~~~~~~~~~~~~~ ingenext.c:129:13: warning: ‘querytimerlimit’ defined but not used [-Wunused-variable] static Int4 querytimerlimit = 100; ^~~~~~~~~~~~~~~ ingenext.c:59:28: warning: ‘Ing_BlastCallback’ defined but not used [-Wunused-function] static Boolean LIBCALLBACK Ing_BlastCallback (BlastResponse *brp, ^~~~~~~~~~~~~~~~~ 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:229:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/blstspc.h:228:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/blstspc.h:227:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^~~ ../include/blstspc.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "blstspc.h23"; ^~~~~~~~~~~ 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:3206:45: 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ingenwin.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn2ff.h:113, from ../include/ingenwin.h:58, from ingenwin.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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: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:7552:13: warning: ‘Ing_ItemtoNetwork’ defined but not used [-Wunused-function] static void Ing_ItemtoNetwork(IteM i){ ^~~~~~~~~~~~~~~~~ ingenwin.c:6717:13: warning: ‘Ing_BspListProc’ defined but not used [-Wunused-function] static void Ing_BspListProc(IteM i) ^~~~~~~~~~~~~~~ ingenwin.c:5535:16: warning: ‘Ing_KeywordAlreadyInList’ defined but not used [-Wunused-function] static Boolean Ing_KeywordAlreadyInList (ValNodePtr head, CharPtr kwd) ^~~~~~~~~~~~~~~~~~~~~~~~ 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:1610:18: warning: ‘Ing_OldMakeLocListFromSAP’ defined but not used [-Wunused-function] static SeqLocPtr Ing_OldMakeLocListFromSAP(SeqAlignPtr sap) ^~~~~~~~~~~~~~~~~~~~~~~~~ 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) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../include/netblap3.h:134:0, from ../include/ingenwin.h:62, from ingenwin.c:45: ../include/blstspc.h:229:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/blstspc.h:228:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/blstspc.h:227:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^~~ ../include/blstspc.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "blstspc.h23"; ^~~~~~~~~~~ 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_PropagateReport’: ingenwin.c:5224:12: warning: ‘j’ may be used uninitialized in this function [-Wmaybe-uninitialized] last_pos = j; ~~~~~~~~~^~~ ingenwin.c:5137:17: note: ‘j’ was declared here Int4 i, j, k, row; ^ ingenwin.c: In function ‘Ing_FileOpenSpecial’: ingenwin.c:3290:12: 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF macrodlg.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objseq.h:48, from macrodlg.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF biosrc.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from ../include/biosrc.h:48, from biosrc.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ biosrc.c: In function ‘CreateBioSourceDialog’: biosrc.c:3506:18: warning: variable ‘y’ set but not used [-Wunused-but-set-variable] PrompT y; ^ At top level: biosrc.c:3182:26: warning: ‘EnumListFromQualNameAssoc’ defined but not used [-Wunused-function] static EnumFieldAssocPtr EnumListFromQualNameAssoc (Nlm_QualNameAssocPtr qp) ^~~~~~~~~~~~~~~~~~~~~~~~~ biosrc.c:2991:16: warning: ‘SubsourceDialogToSubSourcePtr’ defined but not used [-Wunused-function] static Pointer SubsourceDialogToSubSourcePtr (DialoG d) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ biosrc.c:2568:13: warning: ‘SubSourcePtrToSubsourceDialog’ defined but not used [-Wunused-function] static void SubSourcePtrToSubsourceDialog (DialoG d, Pointer data) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ biosrc.c:2508:16: warning: ‘OrgmodDialogToOrgModPtr’ defined but not used [-Wunused-function] static Pointer OrgmodDialogToOrgModPtr (DialoG d) ^~~~~~~~~~~~~~~~~~~~~~~ biosrc.c:2459:13: warning: ‘OrgModPtrToOrgmodDialog’ defined but not used [-Wunused-function] static void OrgModPtrToOrgmodDialog (DialoG d, Pointer data) ^~~~~~~~~~~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF cdrgn.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from ../include/cdrgn.h:89, from cdrgn.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~ At top level: cdrgn.c:6854:13: warning: ‘ConvertRnaRefNameToProductQual’ defined but not used [-Wunused-function] static void ConvertRnaRefNameToProductQual (SeqFeatPtr sfp) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cdrgn.c:6792:13: warning: ‘RemoveQualByName’ defined but not used [-Wunused-function] static void RemoveQualByName (SeqFeatPtr sfp, CharPtr qual_name) ^~~~~~~~~~~~~~~~ cdrgn.c:6773:18: warning: ‘FindOrAddQual’ defined but not used [-Wunused-function] static GBQualPtr FindOrAddQual (SeqFeatPtr sfp, CharPtr qual_name) ^~~~~~~~~~~~~ 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:6253:14: warning: ‘check_rna_type’ defined but not used [-Wunused-function] static Uint1 check_rna_type (Uint1 type) ^~~~~~~~~~~~~~ cdrgn.c:2174:13: warning: ‘AccessionToGi’ defined but not used [-Wunused-function] static Int4 AccessionToGi (CharPtr string) ^~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF import.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from ../include/import.h:48, from import.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF pubdesc.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from ../include/pubdesc.h:48, from pubdesc.c:44: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF seqsub.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from ../include/seqsub.h:58, from seqsub.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF mapgene.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from mapgene.c:2: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~ At top level: 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:1788:13: warning: ‘adjust_slp_list’ defined but not used [-Wunused-function] static void adjust_slp_list(ValNodePtr slp_list) ^~~~~~~~~~~~~~~ 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: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:200:13: warning: ‘get_center_pointer’ defined but not used [-Wunused-function] static Int4 get_center_pointer(SeqLocPtr slp) ^~~~~~~~~~~~~~~~~~ mapgene.c:27:13: warning: ‘print_this_id’ defined but not used [-Wunused-function] static void print_this_id (SeqIdPtr sip) ^~~~~~~~~~~~~ mapgene.c: In function ‘PrintContigForOneMap’: mapgene.c:3181:4: warning: ‘yac_num’ may be used uninitialized in this function [-Wmaybe-uninitialized] PrintHTMLContigAlign(band_name, contig_name, anp_list, fp, db, fish_list, yac_list, yac_num); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mapgene.c:3152:7: note: ‘yac_num’ was declared here Int4 yac_num; ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF prtgene.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/tofile.h:66, from ../include/prtgene.h:3, from prtgene.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ prtgene.c: In function ‘print_sfp_ext’: prtgene.c:108:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(ufp->choice == 2) /*integer */ ^~ prtgene.c:110:7: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ print_store_buf(temp, buf, buf_size, &len, fp); ^~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ddvclick.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ddvclick.c:248: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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: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:611:13: warning: ‘DDV_GetSeqAlignCoordGivenCol’ defined but not used [-Wunused-function] static Int4 DDV_GetSeqAlignCoordGivenCol(DdvMainPtr dmp, Int4 Disp_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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ddvgraph.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ddvgraph.c:210: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ddvopen.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ddvopen.c:372: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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_StartMainWin_Slave’: ddvopen.c:2411:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ ddvopen.c:2417:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ if (!w) return(NULL); ^~ 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:2111:16: warning: ‘DDV_IsInt’ defined but not used [-Wunused-function] static Boolean DDV_IsInt(CharPtr szAccess) ^~~~~~~~~ ddvopen.c:1285:13: warning: ‘DDV_NoConvert’ defined but not used [-Wunused-function] static void DDV_NoConvert(ButtoN g) { ^~~~~~~~~~~~~ ddvopen.c:1272:13: warning: ‘DDV_Convert’ defined but not used [-Wunused-function] static void DDV_Convert(ButtoN g) { ^~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ddvpanel.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ddvpanel.c:389: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:3377:13: warning: ‘write_annot’ defined but not used [-Wunused-function] static void write_annot(SeqAlignPtr align) ^~~~~~~~~~~ ddvpanel.c:3296:13: warning: ‘DDV_MoveRightBoundaryRight’ defined but not used [-Wunused-function] static void DDV_MoveRightBoundaryRight(IteM i) ^~~~~~~~~~~~~~~~~~~~~~~~~~ ddvpanel.c:3290:13: warning: ‘DDV_MoveRightBoundaryLeft’ defined but not used [-Wunused-function] static void DDV_MoveRightBoundaryLeft(IteM i) ^~~~~~~~~~~~~~~~~~~~~~~~~ ddvpanel.c:3284:13: warning: ‘DDV_MoveLeftBoundaryRight’ defined but not used [-Wunused-function] static void DDV_MoveLeftBoundaryRight(IteM i) ^~~~~~~~~~~~~~~~~~~~~~~~~ ddvpanel.c:3278:13: warning: ‘DDV_MoveLeftBoundaryLeft’ defined but not used [-Wunused-function] static void DDV_MoveLeftBoundaryLeft(IteM i) ^~~~~~~~~~~~~~~~~~~~~~~~ ddvpanel.c:3272:13: warning: ‘DDV_MoveRowRight’ defined but not used [-Wunused-function] static void DDV_MoveRowRight(IteM i) ^~~~~~~~~~~~~~~~ ddvpanel.c:3266:13: warning: ‘DDV_MoveRowLeft’ defined but not used [-Wunused-function] static void DDV_MoveRowLeft(IteM i) ^~~~~~~~~~~~~~~ ddvpanel.c:3024:13: warning: ‘DDV_DeleteRow’ defined but not used [-Wunused-function] static void DDV_DeleteRow(IteM i) ^~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF corematx.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from corematx.c:135: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF dvncode.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from dvncode.c:69: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objmmdb1.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objmmdb1.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objmmdb2.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objmmdb2.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objmmdb3.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objmmdb3.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objcn3d.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objcn3d.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF mmdbapi.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/mmdbapi1.h:232, from ../include/mmdbapi.h:92, from mmdbapi.c:116: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF mmdbapi1.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from mmdbapi1.c:294: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF mmdbapi2.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from mmdbapi2.c:159: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF mmdbapi3.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from mmdbapi3.c:207: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mmdbapi3.c: In function ‘WritePDBHeader’: mmdbapi3.c:840:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(org) ^~ mmdbapi3.c:845:9: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ src = orgstring; ^~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF mmdbapi4.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/mmdbapi1.h:232, from ../include/mmdbapi.h:92, from mmdbapi4.c:106: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF mmdbentr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from mmdbentr.c:65: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF prunebsc.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/prunebsc.h:10, from prunebsc.c:34: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:562:9: 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objcdd.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objcdd.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF cddutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from cddutil.c:336: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘CddCalculateTriangle’: cddutil.c:3534:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (sip1) SeqIdFree(sip1); if (bsp1) bsp1 = NULL; ^~ cddutil.c:3534:31: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (sip1) SeqIdFree(sip1); if (bsp1) bsp1 = NULL; ^~ cddutil.c: In function ‘CddCalculateQuerySim’: cddutil.c:3653:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (sip1) SeqIdFree(sip1); if (bsp1) bsp1 = NULL; ^~ cddutil.c:3653:31: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (sip1) SeqIdFree(sip1); if (bsp1) bsp1 = NULL; ^~ 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 ../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)); ^~~~~~~~~~~~~~~~~~~~~~~~~~ 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:4661:16: warning: ‘CddtakeMatrixCheckpoint’ defined but not used [-Wunused-function] static Boolean CddtakeMatrixCheckpoint(compactSearchItems *compactSearch, ^~~~~~~~~~~~~~~~~~~~~~~ In file included from cddutil.c:349:0: ../include/cdd.h:343:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/cdd.h:342:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/cdd.h:341:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^~~ ../include/cdd.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "cdd.h24"; ^~~~~~~~~~~ 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; ~~~~~~~~~~~~~~^~~~~ cddutil.c: In function ‘CddDenDiagCposComp2KBP’: cddutil.c:4974:11: warning: ‘pssm’ may be used uninitialized in this function [-Wmaybe-uninitialized] return(pssm); ^ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF cddposutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from cddposutil.c:119: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF objmime.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objmime.c:73: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF strucapi.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from strucapi.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrdalgs.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrdatd.c thrdatd.c: In function ‘atd’: thrdatd.c:859:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(i=0;ial[i]); printf("sai->al\n"); ^~~ thrdatd.c:859:46: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(i=0;ial[i]); printf("sai->al\n"); ^~~~~~ thrdatd.c:860:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(i=0;inmt;i++) printf("%d ",sai->sq[i]); printf("sai->sq\n"); ^~~ thrdatd.c:860:51: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(i=0;inmt;i++) printf("%d ",sai->sq[i]); printf("sai->sq\n"); ^~~~~~ thrdatd.c:862:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(i=0;ino[i]); printf("sli->no\n"); ^~~ thrdatd.c:862:46: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(i=0;ino[i]); printf("sli->no\n"); ^~~~~~ thrdatd.c:863:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(i=0;ico[i]); printf("sli->co\n"); ^~~ thrdatd.c:863:46: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(i=0;ico[i]); printf("sli->co\n"); ^~~~~~ thrdatd.c:864:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(i=0;inlp;i++) printf("%d ",sli->lp[i]); printf("sli->lp\n"); ^~~ thrdatd.c:864:51: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(i=0;inlp;i++) printf("%d ",sli->lp[i]); printf("sli->lp\n"); ^~~~~~ thrdatd.c:865:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(i=0;inmt;i++) printf("%d ",sli->cr[i]); printf("sli->cr\n"); ^~~ thrdatd.c:865:51: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(i=0;inmt;i++) printf("%d ",sli->cr[i]); printf("sli->cr\n"); ^~~~~~ thrdatd.c:1014:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(k=0;kal[k]); printf("sai->al\n"); ^~~ thrdatd.c:1014:46: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(k=0;kal[k]); printf("sai->al\n"); ^~~~~~ thrdatd.c:1015:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(k=0;ksq[k]); printf("sai->sq\n"); ^~~ thrdatd.c:1015:46: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(k=0;ksq[k]); printf("sai->sq\n"); ^~~~~~ thrdatd.c:1017:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(i=0;ino[i]); printf("sli->no\n"); ^~~ thrdatd.c:1017:46: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(i=0;ino[i]); printf("sli->no\n"); ^~~~~~ thrdatd.c:1018:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(i=0;ico[i]); printf("sli->co\n"); ^~~ thrdatd.c:1018:46: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(i=0;ico[i]); printf("sli->co\n"); ^~~~~~ thrdatd.c:1019:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(i=0;ilp[i]); printf("sli->lp\n"); ^~~ thrdatd.c:1019:46: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(i=0;ilp[i]); printf("sli->lp\n"); ^~~~~~ thrdatd.c:1020:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(i=0;icr[i]); printf("sli->cr\n"); ^~~ thrdatd.c:1020:46: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(i=0;icr[i]); printf("sli->cr\n"); ^~~~~~ thrdatd.c:1244:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(i=0;igss[i]); free(spe->gss); ^~~ thrdatd.c:1244:39: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(i=0;igss[i]); free(spe->gss); ^~~~ thrdatd.c:1251:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(i=0; inrr[i]); free(spn->nrr); ^~~ thrdatd.c:1251:41: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(i=0; inrr[i]); free(spn->nrr); ^~~~ thrdatd.c:1255:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(i=0; inrp[i]); free(spn->nrp); ^~~ thrdatd.c:1255:41: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(i=0; inrp[i]); free(spn->nrp); ^~~~ thrdatd.c:1259:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(i=0; inrf[i]); free(spn->nrf); ^~~ thrdatd.c:1259:41: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(i=0; inrf[i]); free(spn->nrf); ^~~~ thrdatd.c:1260:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(i=0; ifrf[i]); free(spn->frf); ^~~ thrdatd.c:1260:41: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(i=0; ifrf[i]); free(spn->frf); ^~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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:102:13: warning: ‘nt’ may be used uninitialized in this function [-Wmaybe-uninitialized] ct=ttb->mx; for(i=0; i<=nt; i++) { ^~~ 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++) { ^~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrdrsmp.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrdsal0.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrdsalr.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrdsgoi.c thrdsgoi.c: In function ‘sgoi’: thrdsgoi.c:98:3: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(i=0; i>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrdslo0.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrdslor.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrdspci.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF thrdttbi.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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] } ^ thrdzsc.c:357:39: warning: ‘tg_max’ may be used uninitialized in this function [-Wmaybe-uninitialized] ttb->zsc[i_max]=ScalingFactor*(tg_max-avg)/disp; ~~~~~~~^~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF csim.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/simutil.h:77, from csim.c:74: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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**/ ^~~~~~~~~~~~~~~~~~~~~~~~~ At top level: csim.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: csim.c,v 6.2 2003/05/30 17:25:36 coulouri Exp $"; ^~~~~ csim.c: In function ‘SIM’: csim.c:1071:56: warning: ‘dj’ may be used uninitialized in this function [-Wmaybe-uninitialized] if ( ! cflag && ( ci > rl && cj > cl || di > rl && dj > cl ~~~~~~~~^~~~~~~~~~ csim.c:928:23: note: ‘dj’ was declared here register Int4 di, dj; /* end-point associated with d */ ^~ csim.c:1071:45: warning: ‘di’ may be used uninitialized in this function [-Wmaybe-uninitialized] if ( ! cflag && ( ci > rl && cj > cl || di > rl && dj > cl ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ csim.c:928:19: note: ‘di’ was declared here register Int4 di, dj; /* end-point associated with d */ ^~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF db_slist.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/list.h:56, from db_slist.c:97: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ db_slist.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: db_slist.c,v 6.2 2003/05/30 17:25:36 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF dust.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from dust.c:102: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ dust.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: dust.c,v 6.5 2003/05/30 17:25:36 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_dust.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from blast_dust.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ blast_dust.c:39:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF falign.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/simutil.h:77, from falign.c:92: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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]) { ^~ At top level: falign.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: falign.c,v 6.3 2003/05/30 17:25:36 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF g_any.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from g_any.c:89: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ g_any.c: In function ‘k_align’: g_any.c:212:10: warning: array subscript has type ‘char’ [-Wchar-subscripts] va = vv[A[i+1]]; ^ g_any.c:229:26: warning: array subscript has type ‘char’ [-Wchar-subscripts] if (j < J2) c = s + va[B[j+1]]; ^ g_any.c:319:10: warning: array subscript has type ‘char’ [-Wchar-subscripts] b2 = PP[t1][b1]; ^ g_any.c:322:10: warning: array subscript has type ‘char’ [-Wchar-subscripts] t2 = PT[t1][b1]; ^ g_any.c: In function ‘z_ALIGN’: g_any.c:367:7: warning: variable ‘check_score’ set but not used [-Wunused-but-set-variable] Int4 check_score; ^~~~~~~~~~~ g_any.c: In function ‘CHECK_SCORE’: g_any.c:492:13: warning: array subscript has type ‘char’ [-Wchar-subscripts] score = vv[A[++i]][B[++j]] + score; ^ g_any.c:492:21: warning: array subscript has type ‘char’ [-Wchar-subscripts] score = vv[A[++i]][B[++j]] + score; ^ At top level: g_any.c:428:35: warning: ‘CLINE’ defined but not used [-Wunused-variable] static Char ALINE[51], BLINE[51], CLINE[51]; ^~~~~ g_any.c:428:24: warning: ‘BLINE’ defined but not used [-Wunused-variable] static Char ALINE[51], BLINE[51], CLINE[51]; ^~~~~ g_any.c:428:13: warning: ‘ALINE’ defined but not used [-Wunused-variable] static Char ALINE[51], BLINE[51], CLINE[51]; ^~~~~ g_any.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: g_any.c,v 6.5 2003/05/30 17:25:36 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF sim2.c sim2.c: In function ‘SIM2’: sim2.c:19:16: warning: unused variable ‘compB’ [-Wunused-variable] CharPtr A, B, compB = NULL; ^~~~~ sim2.c:17:26: warning: unused variable ‘sapC’ [-Wunused-variable] SeqAlignPtr sap = NULL, sapC=NULL, out_sap, out_sapC; ^~~~ At top level: sim2.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: sim2.c,v 6.1 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF sim3.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/simutil.h:77, from sim3.c:28: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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++]; ^ At top level: 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:1056:13: warning: ‘get_current_pos’ defined but not used [-Wunused-function] static Int4 get_current_pos(Int4Ptr pos, Int4 length) ^~~~~~~~~~~~~~~ sim3.c:1048:13: warning: ‘get_start_pos’ defined but not used [-Wunused-function] static Int4 get_start_pos(SeqLocPtr slp) ^~~~~~~~~~~~~ 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:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: sim3.c,v 6.2 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF sim4.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from sim4.c:18: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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) ~~~~~~~^~~~~~~~~ At top level: 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:2563:13: warning: ‘S2A’ defined but not used [-Wunused-function] static void S2A(EditScriptPtr head, Int4Ptr S) ^~~ 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:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: sim4.c,v 6.5 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF simutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/simutil.h:77, from simutil.c:103: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ simutil.c: In function ‘make_align’: simutil.c:495:9: warning: variable ‘strand’ set but not used [-Wunused-but-set-variable] Uint1 strand; ^~~~~~ At top level: simutil.c:848:16: warning: ‘is_alu_seq’ defined but not used [-Wunused-function] static Boolean is_alu_seq(CharPtr name) ^~~~~~~~~~ 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: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:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: simutil.c,v 6.8 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF slist.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/list.h:56, from slist.c:101: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ slist.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: slist.c,v 6.2 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF sec.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/simutil.h:77, from sec.c:67: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ sec.c: In function ‘Region’: sec.c:268:19: warning: array subscript has type ‘char’ [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:268:28: warning: array subscript has type ‘char’ [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:292:19: warning: array subscript has type ‘char’ [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:292:28: warning: array subscript has type ‘char’ [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:321:19: warning: array subscript has type ‘char’ [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:321:28: warning: array subscript has type ‘char’ [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:345:19: warning: array subscript has type ‘char’ [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:345:28: warning: array subscript has type ‘char’ [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:428:35: warning: array subscript has type ‘char’ [-Wchar-subscripts] diag_score = diag_score + V[seq1[i]][seq2[j]]; ^ sec.c:428:44: warning: array subscript has type ‘char’ [-Wchar-subscripts] diag_score = diag_score + V[seq1[i]][seq2[j]]; ^ At top level: sec.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: sec.c,v 6.1 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ sec.c: In function ‘Region’: 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; ^~ sec.c:462:16: warning: ‘bi’ may be used uninitialized in this function [-Wmaybe-uninitialized] MemFree(LB+bi); ^ sec.c:463:16: warning: ‘RB’ may be used uninitialized in this function [-Wmaybe-uninitialized] MemFree(RB+bi); ~~^~~ sec.c:462:16: warning: ‘LB’ may be used uninitialized in this function [-Wmaybe-uninitialized] MemFree(LB+bi); ~~^~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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; ^~~~~~ 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, ^~~~~~~~~~~~~~~~~~~~ tfuns.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: tfuns.c,v 6.14 2007/10/10 16:10:17 bollin Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF toasn3.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/gather.h:166, from toasn3.c:10: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~ At top level: toasn3.c:1572:16: warning: ‘GetQualValue’ defined but not used [-Wunused-function] static CharPtr GetQualValue(GBQualPtr gbqual, CharPtr qual) ^~~~~~~~~~~~ In file included from ../include/asn2ff6.h:142:0, from toasn3.c:19: ../include/asnprt.h:61:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/asnprt.h:60:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/asnprt.h:59:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^~~ ../include/asnprt.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^~~~~~~~~~~ toasn3.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: toasn3.c,v 6.133 2012/06/04 20:04:10 kans Exp $"; ^~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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; ^~~~ At top level: toporg.c:3010:13: warning: ‘BarCodeTechToKeyword’ defined but not used [-Wunused-function] static void BarCodeTechToKeyword (BioseqPtr bsp, Pointer userdata) ^~~~~~~~~~~~~~~~~~~~ toporg.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: toporg.c,v 6.197 2012/05/10 21:20:48 kans Exp $"; ^~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF pobutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, 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: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~~~~~~~ At top level: pobutil.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: pobutil.c,v 6.10 2007/05/07 13:30:54 kans Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF stsutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from stsutil.c:88: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~ At top level: stsutil.c:892:13: warning: ‘STSHashInitFree’ defined but not used [-Wunused-function] static void STSHashInitFree(STSHashInitPtr sts) ^~~~~~~~~~~~~~~ stsutil.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: stsutil.c,v 6.8 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF suggadj.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from suggadj.c:47: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^ At top level: suggadj.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: suggadj.c,v 6.3 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF suggest.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from suggest.c:199: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ suggest.c: In function ‘get_frames’: suggest.c:458:12: warning: array subscript has type ‘char’ [-Wchar-subscripts] val = vx[t[0]]*16 + vx[t[1]]*4 + vx[(t==t_max)?'N':t[2]]; ^ suggest.c:458:26: warning: array subscript has type ‘char’ [-Wchar-subscripts] val = vx[t[0]]*16 + vx[t[1]]*4 + vx[(t==t_max)?'N':t[2]]; ^ At top level: suggest.c:1331:13: warning: ‘ReportSuggestIntervalsError’ defined but not used [-Wunused-function] static void ReportSuggestIntervalsError (SeqRecPtr srp, CharPtr gen_txt) ^~~~~~~~~~~~~~~~~~~~~~~~~~~ suggest.c:1222:1: warning: ‘fprintf_m_stk_entry’ defined but not used [-Wunused-function] fprintf_m_stk_entry(FILE *fp, Int4 index, char *msg) ^~~~~~~~~~~~~~~~~~~ suggest.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: suggest.c,v 6.14 2009/04/10 17:22:14 kans Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF suggslp.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from suggslp.c:53: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ suggslp.c: In function ‘MakeReverseSequence’: suggslp.c:190:11: warning: array subscript has type ‘char’ [-Wchar-subscripts] *t++ = r[*--s]; ^ At top level: suggslp.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: suggslp.c,v 6.6 2009/04/16 18:35:41 kans Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from blast.c:2572: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘BlastReapPartialHitlistByEvalue’: blast.c:6486:10: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ blast.c:6490:6: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ if( !search->mult_queries ) ^~ 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; ^~~~~~~~~~~~ At top level: blast.c:2:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blast.c,v 6.451 2008/01/25 21:15:22 bealer Exp $"; ^~~~~ blast.c: In function ‘BLASTMergeHitLists.isra.3’: 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blastutl.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from blastutl.c:1836: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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"); ^ At top level: blastutl.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blastutl.c,v 6.472 2010/12/10 18:47:12 madden Exp $"; ^~~~~ 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_score2’ may be used uninitialized in this function [-Wmaybe-uninitialized] start_score2 += matrix[(Int4) *(str+index2)][*(words+index2)]; ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ blastutl.c:11717:15: warning: ‘start_score’ may be used uninitialized in this function [-Wmaybe-uninitialized] score += matrix[(Int4) *(str+wordsize-1)][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_score2’ may be used uninitialized in this function [-Wmaybe-uninitialized] start_score2 += posMatrix[offset+index2][*(words+index2)]; ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ blastutl.c:12129:23: warning: ‘start_score’ may be used uninitialized in this function [-Wmaybe-uninitialized] score += posMatrix[offset+wordsize-1][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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blastool.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from blastool.c:946: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ blastool.c: In function ‘BlastScaleMatrix’: blastool.c:3032:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ blastool.c:3035:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ if (new_lambda > lambda) ^~ blastool.c: In function ‘OOFBlastHSPGetNumIdentical’: blastool.c:6081:9: warning: variable ‘context’ set but not used [-Wunused-but-set-variable] Int2 context; ^~~~~~~ At top level: blastool.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blastool.c,v 6.292 2007/03/15 20:39:17 madden Exp $"; ^~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blastconcat.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from blastconcat.c:89: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ blastconcat.c: In function ‘BlastMakeFakeBspConcat’: blastconcat.c:648:12: warning: variable ‘slp’ set but not used [-Wunused-but-set-variable] SeqLocPtr slp = NULL; ^~~ At top level: blastconcat.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blastconcat.c,v 1.14 2007/05/07 13:30:54 kans Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF splutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from splutil.c:52: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ splutil.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: splutil.c,v 6.7 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF gapxdrop.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/gapxdrop.h:150, from gapxdrop.c:368: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gapxdrop.c: In function ‘ALIGN_EX’: gapxdrop.c:864:10: warning: suggest explicit braces to avoid ambiguous ‘else’ [-Wparentheses] if (s == 1) ^ gapxdrop.c:867:10: warning: suggest explicit braces to avoid ambiguous ‘else’ [-Wparentheses] if (s == 2) ^ At top level: gapxdrop.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: gapxdrop.c,v 6.76 2003/11/07 21:52:52 dondosha Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF bandalg0.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/bandalgn.h:73, from bandalg0.c:36: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ bandalg0.c: In function ‘g_band0_align’: bandalg0.c:273:9: warning: suggest explicit braces to avoid ambiguous ‘else’ [-Wparentheses] if(leftd >= 1) ^ At top level: bandalg0.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: bandalg0.c,v 6.3 2003/05/30 17:25:35 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF bandalg1.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/bandalgn.h:73, from bandalg1.c:36: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ bandalg1.c: In function ‘gband_quadratic’: bandalg1.c:54:14: warning: variable ‘j’ set but not used [-Wunused-but-set-variable] Int4 c, i, j; ^ bandalg1.c: In function ‘g_band1_align’: bandalg1.c:205:7: warning: suggest explicit braces to avoid ambiguous ‘else’ [-Wparentheses] if(leftd >= 1) ^ At top level: bandalg1.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: bandalg1.c,v 6.3 2003/05/30 17:25:35 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF bandalg2.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/bandalgn.h:73, from bandalg2.c:36: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ bandalg2.c: In function ‘gb_linear_align’: bandalg2.c:208:24: warning: variable ‘misma’ set but not used [-Wunused-but-set-variable] register Int4 match, misma; ^~~~~ bandalg2.c:208:17: warning: variable ‘match’ set but not used [-Wunused-but-set-variable] register Int4 match, misma; ^~~~~ bandalg2.c:207:18: warning: variable ‘AA’ set but not used [-Wunused-but-set-variable] register Uint1 AA; ^~ At top level: bandalg2.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: bandalg2.c,v 6.5 2003/05/30 17:25:35 coulouri Exp $"; ^~~~~ bandalg2.c: In function ‘gb_linear_align’: bandalg2.c:577:12: warning: ‘Y’ may be used uninitialized in this function [-Wmaybe-uninitialized] _INS(N - Y); ^ bandalg2.c:575:10: warning: ‘X’ may be used uninitialized in this function [-Wmaybe-uninitialized] _DEL(M - X) ^ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF bandalg3.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/bandalgn.h:73, from bandalg3.c:37: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ bandalg3.c: In function ‘gband_linear_qgap’: bandalg3.c:54:14: warning: variable ‘j’ set but not used [-Wunused-but-set-variable] Int4 c, i, j; ^ At top level: bandalg3.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: bandalg3.c,v 6.4 2003/05/30 17:25:36 coulouri Exp $"; ^~~~~ bandalg3.c: In function ‘gband_linear_qgap’: bandalg3.c:314:16: warning: ‘Y’ may be used uninitialized in this function [-Wmaybe-uninitialized] else if(Y != rightd) _INS(rightd-Y) ^ bandalg3.c:185:28: note: ‘Y’ was declared here Int4 ib, best=MININT, X, Y; ^ bandalg3.c:313:21: warning: ‘X’ may be used uninitialized in this function [-Wmaybe-uninitialized] if(X != M) _DEL(M - X) ^ bandalg3.c:185:25: note: ‘X’ was declared here Int4 ib, best=MININT, X, Y; ^ bandalg3.c:217:8: warning: ‘c’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (d > c || ib <= 0) { ^ bandalg3.c:180:17: note: ‘c’ was declared here register Int4 c, d, e, x; ^ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF bandalg4.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/bandalgn.h:73, from bandalg4.c:37: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ bandalg4.c: In function ‘g_band4_align_small’: bandalg4.c:826:8: warning: suggest explicit braces to avoid ambiguous ‘else’ [-Wparentheses] if (e == 1) ^ bandalg4.c:829:8: warning: suggest explicit braces to avoid ambiguous ‘else’ [-Wparentheses] if (e == 2) ^ bandalg4.c:630:8: warning: variable ‘band’ set but not used [-Wunused-but-set-variable] Int4 band, j; ^~~~ At top level: bandalg4.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: bandalg4.c,v 6.4 2003/05/30 17:25:36 coulouri Exp $"; ^~~~~ bandalg4.c: In function ‘g_band4_align’: bandalg4.c:534:17: warning: ‘Y’ may be used uninitialized in this function [-Wmaybe-uninitialized] if(X != M || Y != N) regA = regB = 1; ~~~~~~~^~~~~~~~~ bandalg4.c:534:9: 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, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ MAX(-r, low), rmid - 1, tb, 2, legA, legB, 1, 1, data); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF bandalg5.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/bandalgn.h:73, from bandalg5.c:36: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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) ^ At top level: bandalg5.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: bandalg5.c,v 6.3 2003/05/30 17:25:36 coulouri Exp $"; ^~~~~ bandalg5.c: In function ‘gband_q3gap’: bandalg5.c:320:6: warning: ‘Y’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (Y != rightd) _INS(rightd - Y); ^ bandalg5.c:146:28: note: ‘Y’ was declared here Int4 ib, best=MININT, X, Y; ^ bandalg5.c:319:22: warning: ‘X’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (X != M) _DEL(M - X); ^ bandalg5.c:146:25: note: ‘X’ was declared here Int4 ib, best=MININT, X, Y; ^ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF bandalgn.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/seqport.h:47, from bandalgn.c:118: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ bandalgn.c: In function ‘ExtendSeqAlign’: bandalgn.c:1113:22: warning: variable ‘ddp’ set but not used [-Wunused-but-set-variable] DenseDiagPtr ddp; ^~~ bandalgn.c: In function ‘CC_ExtendSeqAlign’: bandalgn.c:1188:22: warning: variable ‘ddp’ set but not used [-Wunused-but-set-variable] DenseDiagPtr ddp; ^~~ At top level: bandalgn.c:699:14: warning: ‘HSblastna_to_ncbi4na’ defined but not used [-Wunused-variable] static Uint1 HSblastna_to_ncbi4na[] = { 1, /* A, 0 */ ^~~~~~~~~~~~~~~~~~~~ bandalgn.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: bandalgn.c,v 6.17 2003/05/30 17:25:36 coulouri Exp $"; ^~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blastkar.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from blastkar.c:648: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ blastkar.c:2373:25: warning: ‘Altschul_prob’ defined but not used [-Wunused-variable] static BLAST_LetterProb Altschul_prob[] = { ^~~~~~~~~~~~~ blastkar.c:2347:25: warning: ‘Dayhoff_prob’ defined but not used [-Wunused-variable] static BLAST_LetterProb Dayhoff_prob[] = { ^~~~~~~~~~~~ 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: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:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blastkar.c,v 6.115 2006/12/14 17:08:19 madden Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF actutils.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/actutils.h:103, from actutils.c:232: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:3132:13: warning: ‘DumpAlignments’ defined but not used [-Wunused-function] static void DumpAlignments (SeqAlignPtr salp) ^~~~~~~~~~~~~~ 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: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: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: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: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:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: actutils.c,v 6.56 2008/10/22 17:19:22 bollin Exp $"; ^~~~~ 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; ^~~~~~~ actutils.c: In function ‘ACT_FindPeakScores’: actutils.c:1342:31: warning: ‘ats_newprev’ may be used uninitialized in this function [-Wmaybe-uninitialized] ats_newprev->next = ats_new; ~~~~~~~~~~~~~~~~~~^~~~~~~~~ actutils.c:1321:28: warning: ‘ats_prev’ may be used uninitialized in this function [-Wmaybe-uninitialized] ats_prev->next = ats; ~~~~~~~~~~~~~~~^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF posit.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from posit.c:402: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ At top level: posit.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: posit.c,v 6.88 2011/10/25 14:33:16 boratyng Exp $"; ^~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF lookup.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from lookup.c:308: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~~~~~~ At top level: lookup.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: lookup.c,v 6.59 2005/07/28 14:57:10 coulouri Exp $"; ^~~~~ lookup.c: In function ‘MegaBlastBuildLookupTable’: lookup.c:975:10: warning: ‘word_weight’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (word_weight >= 12) { ^ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF readdb.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/readdb.h:757, from readdb.c:2052: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:3162:33: 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 ‘IndexFileExists’: readdb.c:3315:9: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (rdfp->cih) ^~ readdb.c:3321:13: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (rdbap->first_oid > 0) { ^~ readdb.c:3395:9: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (rdfp->cih && rdfp->aliasfilebit == 0) ^~ readdb.c:3401:13: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (rdbap->first_oid > 0) { ^~ 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:8608:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if ((tsip->version > 0) && (tsip->release == NULL)) ^~ readdb.c:8610:9: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ break; ^~~~~ readdb.c:8613:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (tsip->version > 0) ^~ readdb.c:8615:9: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ break; ^~~~~ 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 ‘FindDBbyGI’: readdb.c:11392:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (gi > cih->maxgi) ^~ readdb.c:11395:5: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ cigi = cih->ci + gi; ^~~~ readdb.c: In function ‘Fastacmd_Search_ex’: readdb.c:12075:22: warning: variable ‘guess_gi’ set but not used [-Wunused-but-set-variable] Int4 guess_gi = -1; ^~~~~~~~ readdb.c: In function ‘DumpOneSequence’: readdb.c:12412:14: warning: unused variable ‘numeric_id’ [-Wunused-variable] Boolean numeric_id = GetAccessionVersionFromSeqId(accn, &gi, &id, TRUE); ^~~~~~~~~~ In file included from ../include/sqnutils.h:51:0, from readdb.c:2062: readdb.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)); ^~~~~~~~~~~~~~~~~~~~~ readdb.c:12824:1: warning: ‘readdb_preload_index’ defined but not used [-Wunused-function] readdb_preload_index (ReadDBFILEPtr rdfp, Int4 first_db_seq, ^~~~~~~~~~~~~~~~~~~~ In file included from readdb.c:2055:0: ../include/ncbisami.h:191:14: warning: ‘OneBit’ defined but not used [-Wunused-variable] static Uint1 OneBit[] = {0x80 , 0x40, 0x20, 0x10, 0x8, 0x4, 0x2, 0x1}; ^~~~~~ ../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, ^~~~~~~~~~~ readdb.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: readdb.c,v 6.548 2012/03/14 20:09:35 camacho Exp $"; ^~~~~ readdb.c: In function ‘readdb_get_taxonomy_names’: readdb.c:5674:28: warning: ‘ufp_last’ may be used uninitialized in this function [-Wmaybe-uninitialized] ufp_last->next = ufp; ~~~~~~~~~~~~~~~^~~~~ In file included from ../include/ncbi.h:59:0, from ../include/readdb.h:757, from readdb.c:2052: readdb.c: In function ‘readdb_get_descriptor’: ../include/ncbimem.h:192:21: warning: ‘new_defline_length’ may be used uninitialized in this function [-Wmaybe-uninitialized] #define Nlm_MemCpy memcpy ^~~~~~ readdb.c:6617:26: note: ‘new_defline_length’ was declared here Int4 defline_length, new_defline_length; ^~~~~~~~~~~~~~~~~~ readdb.c: In function ‘GetAccList’: readdb.c:11816:29: warning: ‘AccListLast’ may be used uninitialized in this function [-Wmaybe-uninitialized] AccListLast->next = AccListTmp; ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbisam.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ncbisam.c:198: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ ncbisam.c: In function ‘ISAMMakeStringIndex’: ncbisam.c:842:22: warning: unused variable ‘file_pos’ [-Wunused-variable] Int4 file_pos = ftell(data->db_fd); ^~~~~~~~ ncbisam.c: In function ‘ISAMInitSearch’: ncbisam.c:1399:10: warning: variable ‘reserved2’ set but not used [-Wunused-but-set-variable] Int4 reserved2; ^~~~~~~~~ At top level: ncbisam.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: ncbisam.c,v 6.34 2007/11/06 19:20:06 coulouri Exp $"; ^~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbisort.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ncbisort.h:62, from ../include/ncbisrti.h:60, from ncbisort.c:83: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: ncbisort.c,v 6.8 2006/05/10 20:47:17 camacho Exp $"; ^~~~~ ncbisort.c: In function ‘SORTMergeFPS’: ncbisort.c:1110:10: warning: ‘savealloc’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (savealloc < lines[ord[0]].lines[cur[ord[0]]].length + 1) { ^ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF salign.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/salign.h:10, from salign.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ salign.c: In function ‘BandAlignTwoSeqLocsFunc’: salign.c:173:13: warning: variable ‘is_prot’ set but not used [-Wunused-but-set-variable] Boolean is_prot; ^~~~~~~ salign.c: In function ‘SortBlastHits’: salign.c:391:15: warning: variable ‘totalvalmax’ set but not used [-Wunused-but-set-variable] totalvalmax = INT4_MAX, ^~~~~~~~~~~ salign.c: In function ‘link_solution’: salign.c:1188:15: warning: unused variable ‘first’ [-Wunused-variable] Boolean first = TRUE; ^~~~~ At top level: salign.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: salign.c,v 6.11 2009/01/21 17:09:18 bollin Exp $"; ^~~~~ salign.c: In function ‘SortBlastHits’: salign.c:455:6: warning: ‘salpdup’ may be used uninitialized in this function [-Wmaybe-uninitialized] SeqAlignSetFree (salpdup); ^~~~~~~~~~~~~~~~~~~~~~~~~ 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.isra.4’: 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: ‘master_slp’ may be used uninitialized in this function [-Wmaybe-uninitialized] salpblast = BlastTwoSeqLocs (master_slp, slp, is_prot, msp); ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF salptool.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from salptool.c:3: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~ salptool.c: In function ‘extend_dsp_ends’: salptool.c:1329:21: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ salptool.c:1331:4: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ if(extend_len > 0) ^~ salptool.c:1346:21: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ salptool.c:1348:4: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ if(extend_len > 0) ^~ salptool.c:1363:21: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ salptool.c:1365:4: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ if(extend_len > 0) ^~ salptool.c:1380:21: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ salptool.c:1382:4: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ if(extend_len > 0) ^~ 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:1518:24: warning: ‘OrderBestHits’ defined but not used [-Wunused-function] static int LIBCALLBACK OrderBestHits(Pointer ptr1, Pointer ptr2) ^~~~~~~~~~~~~ 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:1453:13: warning: ‘getlengthforid’ defined but not used [-Wunused-function] static Int4 getlengthforid (SeqIdPtr sip) ^~~~~~~~~~~~~~ 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:838:13: warning: ‘SeqLocTrimPolyATail’ defined but not used [-Wunused-function] static void SeqLocTrimPolyATail(SeqLocPtr loc_2, BioseqPtr bsp_2) { ^~~~~~~~~~~~~~~~~~~ salptool.c:46:13: warning: ‘SeqAnnotWrite’ defined but not used [-Wunused-function] static void SeqAnnotWrite(SeqAlignPtr align) ^~~~~~~~~~~~~ salptool.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: salptool.c,v 6.57 2008/07/07 18:52:31 bollin Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF urkutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/accentr.h:125, from urkutil.c:59: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ urkutil.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: urkutil.c,v 6.5 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF urkpcc.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/urkpcc.h:54, from urkpcc.c:56: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ urkpcc.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: urkpcc.c,v 6.13 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF urkptpf.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objres.h:73, from urkptpf.c:65: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ urkptpf.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: urkptpf.c,v 6.33 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF urkepi.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/urkepi.h:54, from urkepi.c:59: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^ At top level: urkepi.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: urkepi.c,v 6.19 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ urkepi.c: In function ‘FilterEpi’: urkepi.c:1053:21: warning: ‘right’ may be used uninitialized in this function [-Wmaybe-uninitialized] cfap->right = right; ~~~~~~~~~~~~^~~~~~~ urkepi.c:936:56: note: ‘right’ was declared here Int4 i, n, j, k, start, stop, loop, fact, left, right; ^~~~~ urkepi.c:1052:20: warning: ‘left’ may be used uninitialized in this function [-Wmaybe-uninitialized] cfap->left = left; ~~~~~~~~~~~^~~~~~ urkepi.c:936:50: note: ‘left’ was declared here Int4 i, n, j, k, start, stop, loop, fact, left, right; ^~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF urkfltr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/urkfltr.h:51, from urkfltr.c:56: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ urkfltr.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: urkfltr.c,v 6.8 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF urkdust.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/urkdust.h:51, from urkdust.c:56: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ urkdust.c: In function ‘DustMe_h’: urkdust.c:196:42: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses] (dcvp->curlevel <= newlevel) && dcvp->curend == loop+1) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ urkdust.c: In function ‘DustForGraph’: urkdust.c:776:17: warning: variable ‘drphead’ set but not used [-Wunused-but-set-variable] DustRegionPtr drphead; ^~~~~~~ At top level: urkdust.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: urkdust.c,v 6.10 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF urksigu.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/urksigu.h:57, from urksigu.c:59: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ urksigu.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: urksigu.c,v 6.5 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF seg.c seg.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: seg.c,v 6.19 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ seg.c: In function ‘getprob’: seg.c:935:15: warning: ‘ans2’ may be used uninitialized in this function [-Wmaybe-uninitialized] ans = ans1 + ans2 - totseq; ~~~~~^~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF urkbias.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from urkbias.c:56: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ urkbias.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: urkbias.c,v 6.7 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF urkcnsrt.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/urkcnsrt.h:60, from urkcnsrt.c:80: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ urkcnsrt.c:1203:13: warning: ‘ScanFrame’ defined but not used [-Wunused-function] static void ScanFrame (BioseqPtr bsp, SeqLocPtr slp, Int4 frame, ^~~~~~~~~ urkcnsrt.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: urkcnsrt.c,v 6.21 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ urkcnsrt.c: In function ‘Scan3Frames’: urkcnsrt.c:1312:34: warning: ‘length’ may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 i, n, start, stop, length, chunk; ^~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF urktree.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/urktree.h:51, from urktree.c:53: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ urktree.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: urktree.c,v 6.6 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF pseed3.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from pseed3.c:176: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^ At top level: pseed3.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: pseed3.c,v 6.54 2008/10/31 18:51:07 madden Exp $"; ^~~~~ pseed3.c: In function ‘seedParallelFill’: pseed3.c:712:68: warning: iteration 100 invokes undefined behavior [-Waggressive-loop-optimizations] returnData->seedSearch->name_space[i] = seedSearch->name_space[i]; ~~~~~~~~~~~~~~~~~~~~~~^~~ pseed3.c:711:4: note: within this loop for( i = 0; i <= BUF_SIZE; i++) ^~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF pattern1.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from pattern1.c:80: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘pat_output’: pattern1.c:1637:2: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ pattern1.c:1639:11: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ ValNodeCopyStr(info_vnp, 0, buffer); ^~~~~~~~~~~~~~ At top level: pattern1.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: pattern1.c,v 6.22 2006/08/04 21:11:17 papadopo Exp $"; ^~~~~ pattern1.c: In function ‘get_patL’: pattern1.c:1348:42: warning: ‘j’ may be used uninitialized in this function [-Wmaybe-uninitialized] *end = wordIndex*BITS_PACKED_PER_WORD+j; ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ pattern1.c: In function ‘align’: pattern1.c:1158:8: warning: ‘CDrow’ may be used uninitialized in this function [-Wmaybe-uninitialized] score = (CDrow-1)->CC; ~~~~~~^~~~~~~~~~~~~~~ pattern1.c: In function ‘get_patLL’: pattern1.c:1393:5: warning: ‘pos’ may be used uninitialized in this function [-Wmaybe-uninitialized] for (j = 0; j < pos; j+= wordIndex) { ^~~ pattern1.c: In function ‘init_pattern’: pattern1.c:192:11: warning: ‘tj’ may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 tj; /*temporary copy of j*/ ^~ pattern1.c: In function ‘align_of_pattern’: pattern1.c:1562:19: warning: ‘data’ may be used uninitialized in this function [-Wmaybe-uninitialized] local_score += ALIGN_B(querySeq-1, dbSeq-1, queryMatchOffset, dbMatchOffset, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ BAND_LOW, BAND_HIGH, matrix, gap_open, gap_extend, alignScript, data); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF impatool.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from impatool.c:73: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ impatool.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: impatool.c,v 6.16 2006/06/30 18:44:40 camacho Exp $"; ^~~~~ impatool.c: In function ‘IMPALAPrintHelp’: impatool.c:301:20: warning: ‘ret_buffer’ may be used uninitialized in this function [-Wmaybe-uninitialized] ret_buffer = MemFree(ret_buffer); ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF posit2.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from posit2.c:78: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ posit2.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: posit2.c,v 6.12 2006/09/18 20:54:27 kans Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF mbalign.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/mbalign.h:4, from mbalign.c:176: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mbalign.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: mbalign.c,v 6.43 2006/02/02 17:57:34 papadopo Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF vecscrn.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vecscrn.h:74, from vecscrn.c:103: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ vecscrn.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: vecscrn.c,v 6.137 2005/12/27 14:46:44 madden Exp $"; ^~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF mblast.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from mblast.c:710: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~ At top level: mblast.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: mblast.c,v 6.215 2006/09/21 13:42:37 madden Exp $"; ^~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF rpsutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/rpsutil.h:128, from rpsutil.c:281: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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])); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ At top level: rpsutil.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: rpsutil.c,v 6.76 2007/05/07 13:30:54 kans Exp $"; ^~~~~ rpsutil.c: In function ‘RPSAlignTraceBack’: rpsutil.c:1444:32: warning: ‘posMatrix’ may be used uninitialized in this function [-Wmaybe-uninitialized] search->sbp->posMatrix = posMatrix; ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ rpsutil.c:1433:22: warning: ‘rev_subject_length’ may be used uninitialized in this function [-Wmaybe-uninitialized] seqalign = BlastGetGapAlgnTbck (search, 0, TRUE, FALSE, ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ subject, subject_length, ~~~~~~~~~~~~~~~~~~~~~~~~ rev_subject, rev_subject_length); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ rpsutil.c: In function ‘RPSCalcEValue’: rpsutil.c:1269:30: warning: ‘posMatrix’ may be used uninitialized in this function [-Wmaybe-uninitialized] search->sbp->posMatrix = posMatrix; ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF kappa.c kappa.c: In function ‘Kappa_SequenceGetProteinRange’: kappa.c:1399:7: warning: unused variable ‘i’ [-Wunused-variable] int i; ^ kappa.c: At top level: kappa.c:2203:5: warning: initialization from incompatible pointer type [-Wincompatible-pointer-types] Kappa_SequenceGetRange, ^~~~~~~~~~~~~~~~~~~~~~ kappa.c:2203:5: note: (near initialization for ‘redo_align_callbacks.get_range’) kappa.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: kappa.c,v 6.93 2012/04/30 12:45:01 camacho Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF xmlblast.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/xmlblast.h:89, from xmlblast.c:171: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ xmlblast.c: In function ‘PSIXmlInit’: xmlblast.c:1239:13: warning: variable ‘retval’ set but not used [-Wunused-but-set-variable] Boolean retval = FALSE; ^~~~~~ At top level: xmlblast.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: xmlblast.c,v 6.41 2007/05/07 13:30:54 kans Exp $"; ^~~~~ 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, ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ is_ooframe, mask_loc)) == NULL) ~~~~~~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF bxmlobj.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from bxmlobj.c:3: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~~~ At top level: bxmlobj.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: bxmlobj.c,v 6.11 2006/09/18 15:20:39 bealer Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF dotseq.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/seqport.h:47, from ../include/tofasta.h:47, from ../include/dotseq.h:63, from dotseq.c:86: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: dotseq.c,v 6.14 2006/07/13 17:16:20 bollin Exp $"; ^~~~~ dotseq.c: In function ‘DOT_BuildHitList’: dotseq.c:1286:9: warning: ‘index’ may be used uninitialized in this function [-Wmaybe-uninitialized] while (i>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF spidey.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/spidey.h:102, from spidey.c:259: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ spidey.c: In function ‘SPI_PrintResult’: spidey.c:1736:21: warning: variable ‘offset’ set but not used [-Wunused-but-set-variable] Int4 offset; ^~~~~~ spidey.c: In function ‘SPI_AlnSinglemRNAToPieces’: spidey.c:2850:19: warning: suggest parentheses around comparison in operand of ‘==’ [-Wparentheses] if (spot->from == 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)); ^~~~~~~~~~~~~~~ spidey.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: spidey.c,v 6.73 2006/06/01 14:55:31 kskatz Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF motif.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/motif.h:45, from motif.c:47: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ motif.c: In function ‘MOT_FindPolyA’: motif.c:86:18: warning: variable ‘buf’ set but not used [-Wunused-but-set-variable] Uint1 buf[MOT_WINSIZE]; ^~~ motif.c: In function ‘MOT_FindKozak’: motif.c:216:18: warning: variable ‘buf’ set but not used [-Wunused-but-set-variable] Uint1 buf[MOT_WINSIZE]; ^~~ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from ../include/actutils.h:105, from ../include/motif.h:48, from motif.c:47: motif.c: At top level: ../include/objalignloc.h:80:27: warning: ‘Loc_locFree’ declared ‘static’ but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^~~~~~~~~~~ ../include/objalignloc.h:81:27: warning: ‘Loc_locAsnRead’ declared ‘static’ but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^~~~~~~~~~~~~~ ../include/objalignloc.h:82:24: warning: ‘Loc_locAsnWrite’ declared ‘static’ but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^~~~~~~~~~~~~~~ motif.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: motif.c,v 6.7 2007/05/07 13:30:54 kans Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blfmtutl.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from blfmtutl.c:172: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ blfmtutl.c: In function ‘CBStatisticsGetReference’: blfmtutl.c:590:4: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] } else ^~~~ blfmtutl.c:592:4: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ add_string_to_bufferEx("Schaffer, Alejandro A., L. Aravind, Thomas L. Madden,", &ret_buffer, &ret_buffer_length, TRUE); ^~~~~~~~~~~~~~~~~~~~~~ At top level: blfmtutl.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blfmtutl.c,v 1.43 2011/10/28 14:24:13 coulouri Exp $"; ^~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF matrix_frequency_data.c matrix_frequency_data.c:31:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF compo_mode_condition.c compo_mode_condition.c:34:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF composition_adjustment.c composition_adjustment.c:32:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF nlm_linear_algebra.c nlm_linear_algebra.c:31:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF optimize_target_freq.c optimize_target_freq.c:86:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF compo_heap.c compo_heap.c:33:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF smith_waterman.c smith_waterman.c:32:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF redo_alignment.c redo_alignment.c:33:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF unified_pvalues.c unified_pvalues.c:33:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF gdfontg.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbistd.h:103, from ../include/gifgen.h:115, from gdfontg.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF gdfontmb.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbistd.h:103, from ../include/gifgen.h:115, from gdfontmb.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF gdfontt.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbistd.h:103, from ../include/gifgen.h:115, from gdfontt.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF pictogif.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from pictogif.c:50: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF gdfontl.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbistd.h:103, from ../include/gifgen.h:115, from gdfontl.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF gdfonts.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbistd.h:103, from ../include/gifgen.h:115, from gdfonts.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -DWIN_GIF -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbidrwg.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ncbidrwg.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF algorend.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/viewer3d.h:125, from algorend.c:584: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:2265:13: warning: ‘LabelGroupOnOffProc’ defined but not used [-Wunused-function] static void LabelGroupOnOffProc(GrouP g) ^~~~~~~~~~~~~~~~~~~ algorend.c:717:16: warning: ‘Cn3d_CopyToNode’ defined but not used [-Wunused-variable] static Boolean Cn3d_CopyToNode = FALSE; ^~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF cn3dmsel.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from cn3dmsel.c:60: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF cn3dopen.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from cn3dopen.c:394: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:431:15: warning: ‘Cn3D_bOpenBrowse’ defined but not used [-Wunused-variable] static ButtoN Cn3D_bOpenBrowse; ^~~~~~~~~~~~~~~~ cn3dopen.c:430:15: warning: ‘Cn3D_wOpen’ defined but not used [-Wunused-variable] static WindoW Cn3D_wOpen; ^~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF cn3dsave.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from cn3dsave.c:157: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from cn3dsave.c:171: cn3dsave.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)); ^~~~~~~~~~~~~~~ cn3dsave.c:184:15: warning: ‘Cn3D_bFeatOn’ defined but not used [-Wunused-variable] static ButtoN Cn3D_bFeatOn; ^~~~~~~~~~~~ In file included from cn3dsave.c:165:0: ../include/asnmime.h:119:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/asnmime.h:118:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/asnmime.h:117:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^~~ ../include/asnmime.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "asnmime.h12"; ^~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF cn3dxprt.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from cn3dxprt.c:81: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF cn3dwin.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from cn3dwin.c:647: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:1626:13: warning: ‘HLmolecule_MA’ defined but not used [-Wunused-function] static void HLmolecule_MA(MAPtr ma, ^~~~~~~~~~~~~ cn3dwin.c:1428:13: warning: ‘HLatom_MA’ defined but not used [-Wunused-function] static void HLatom_MA(MAPtr ma, ^~~~~~~~~ cn3dwin.c:929:13: warning: ‘Cn3D_MoveCB’ defined but not used [-Wunused-function] static void Cn3D_MoveCB(IteM i) ^~~~~~~~~~~ cn3dwin.c:922:13: warning: ‘Cn3D_ZoomCB’ defined but not used [-Wunused-function] static void Cn3D_ZoomCB(IteM i) ^~~~~~~~~~~ cn3dwin.c:688:13: warning: ‘Cn3D_iModelCtrl’ defined but not used [-Wunused-variable] static IteM Cn3D_iModelCtrl = NULL; ^~~~~~~~~~~~~~~ cn3dwin.c:682:13: warning: ‘Cn3D_iLabelCtrl’ defined but not used [-Wunused-variable] static IteM Cn3D_iLabelCtrl = NULL; ^~~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF cn3dentr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/cn3dmain.h:182, from cn3dentr.c:81: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF cn3dmsg.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from cn3dmsg.c:254: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF cn3dmatn.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from cn3dmatn.c:173: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF cn3dmodl.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from cn3dmodl.c:302: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF cn3dshim.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/cn3dmain.h:182, from cn3dshim.c:131: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF cn3dmesh.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from cn3dmesh.c:46: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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), ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &(Mesh.NumTri)); ~~~~~~~~~~~~~~~ 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", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &(Mesh.Vertices[i].Vertex[0]), ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &(Mesh.Vertices[i].Vertex[1]), ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &(Mesh.Vertices[i].Vertex[2]), ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &(Mesh.Vertices[i].Normal[0]), ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &(Mesh.Vertices[i].Normal[1]), ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &(Mesh.Vertices[i].Normal[2]), &fDummy, &fDummy, &fDummy, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &lDummy, &lDummy, &lDummy); ~~~~~~~~~~~~~~~~~~~~~~~~~~ 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], ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &Mesh.Edges[i].Vertex[1], &lDummy, &lDummy, &lDummy); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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], ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &Mesh.Tri[i].Edge[1], &Mesh.Tri[i].Edge[2], ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &Mesh.Tri[i].Vertex[0], &Mesh.Tri[i].Vertex[1], ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &Mesh.Tri[i].Vertex[2], &lDummy, &Mesh.Tri[i].Atom, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &lDummy); ~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF cn3dstyl.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from cn3dstyl.c:72: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:456:30: warning: ‘GetThisSpecialAlgorRenderSet’ defined but not used [-Wunused-function] static SpecialFeatureInfoPtr GetThisSpecialAlgorRenderSet(Int2 id) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ cn3dstyl.c:149:15: warning: ‘bResetFeatureTitle’ defined but not used [-Wunused-variable] static ButtoN bResetFeatureTitle; ^~~~~~~~~~~~~~~~~~ cn3dstyl.c:144:14: warning: ‘Cn3D_pupModelStyleItem’ defined but not used [-Wunused-variable] static PopuP Cn3D_pupModelStyleItem; ^~~~~~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF seqcons.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from seqcons.c:112: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:263:19: warning: ‘CSC_Blosum62Fields’ defined but not used [-Wunused-const-variable=] static const char CSC_Blosum62Fields[CSC_BLOSUMSIZE] = ^~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL algorend.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/shim3d.h:153, from algorend.c:582: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:789:21: warning: ‘currentIndex’ defined but not used [-Wunused-variable] static Nlm_Int2 currentIndex = -1, currentSize = -1; ^~~~~~~~~~~~ algorend.c:789:40: warning: ‘currentSize’ defined but not used [-Wunused-variable] static Nlm_Int2 currentIndex = -1, currentSize = -1; ^~~~~~~~~~~ algorend.c:790:24: warning: ‘currentBold’ defined but not used [-Wunused-variable] static Nlm_Boolean currentBold = FALSE, currentItalic = FALSE, ^~~~~~~~~~~ algorend.c:790:45: warning: ‘currentItalic’ defined but not used [-Wunused-variable] static Nlm_Boolean currentBold = FALSE, currentItalic = FALSE, ^~~~~~~~~~~~~ algorend.c:791:24: warning: ‘currentUnderlined’ defined but not used [-Wunused-variable] currentUnderlined = FALSE; ^~~~~~~~~~~~~~~~~ algorend.c:2265:13: warning: ‘LabelGroupOnOffProc’ defined but not used [-Wunused-function] static void LabelGroupOnOffProc(GrouP g) ^~~~~~~~~~~~~~~~~~~ algorend.c:717:16: warning: ‘Cn3d_CopyToNode’ defined but not used [-Wunused-variable] static Boolean Cn3d_CopyToNode = FALSE; ^~~~~~~~~~~~~~~ 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:3449:41: warning: ‘fZTo’ may be used uninitialized in this function [-Wmaybe-uninitialized] fXt = (fYCen - fYFrom) * (fZCen - fZTo) - (fZCen - fZFrom) * (fYCen - fYTo); ~~~~~~~^~~~~~~ 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:3449:58: warning: ‘fZFrom’ may be used uninitialized in this function [-Wmaybe-uninitialized] fXt = (fYCen - fYFrom) * (fZCen - fZTo) - (fZCen - fZFrom) * (fYCen - fYTo); ~~~~~~~^~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dmsel.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from cn3dmsel.c:60: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv cn3dmsel.o cn3dmsel.glo mv cn3dmsel.tmp cn3dmsel.o mv cn3dopen.o cn3dopen.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dopen.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from cn3dopen.c:394: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:431:15: warning: ‘Cn3D_bOpenBrowse’ defined but not used [-Wunused-variable] static ButtoN Cn3D_bOpenBrowse; ^~~~~~~~~~~~~~~~ cn3dopen.c:430:15: warning: ‘Cn3D_wOpen’ defined but not used [-Wunused-variable] static WindoW Cn3D_wOpen; ^~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dsave.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from cn3dsave.c:157: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from cn3dsave.c:171: cn3dsave.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)); ^~~~~~~~~~~~~~~ cn3dsave.c:184:15: warning: ‘Cn3D_bFeatOn’ defined but not used [-Wunused-variable] static ButtoN Cn3D_bFeatOn; ^~~~~~~~~~~~ In file included from cn3dsave.c:165:0: ../include/asnmime.h:119:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/asnmime.h:118:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/asnmime.h:117:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^~~ ../include/asnmime.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "asnmime.h12"; ^~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dxprt.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from cn3dxprt.c:81: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dwin.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from cn3dwin.c:647: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:1626:13: warning: ‘HLmolecule_MA’ defined but not used [-Wunused-function] static void HLmolecule_MA(MAPtr ma, ^~~~~~~~~~~~~ cn3dwin.c:1428:13: warning: ‘HLatom_MA’ defined but not used [-Wunused-function] static void HLatom_MA(MAPtr ma, ^~~~~~~~~ cn3dwin.c:1349:25: warning: ‘DoHighlightSeg’ defined but not used [-Wunused-function] static void LIBCALLBACK DoHighlightSeg(PFB pfbThis, ^~~~~~~~~~~~~~ cn3dwin.c:979:13: warning: ‘Cn3D_Default_HLColor’ defined but not used [-Wunused-function] static void Cn3D_Default_HLColor(IteM i) ^~~~~~~~~~~~~~~~~~~~ cn3dwin.c:953:13: warning: ‘Cn3D_BgColor’ defined but not used [-Wunused-function] static void Cn3D_BgColor(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:929:13: warning: ‘Cn3D_MoveCB’ defined but not used [-Wunused-function] static void Cn3D_MoveCB(IteM i) ^~~~~~~~~~~ cn3dwin.c:922:13: warning: ‘Cn3D_ZoomCB’ defined but not used [-Wunused-function] static void Cn3D_ZoomCB(IteM i) ^~~~~~~~~~~ cn3dwin.c:719:14: warning: ‘Cn3D_gViewCtrl’ defined but not used [-Wunused-variable] static GrouP Cn3D_gViewCtrl; ^~~~~~~~~~~~~~ cn3dwin.c:713:14: warning: ‘Cn3D_gViewer’ defined but not used [-Wunused-variable] static GrouP Cn3D_gViewer; ^~~~~~~~~~~~ cn3dwin.c:688:13: warning: ‘Cn3D_iModelCtrl’ defined but not used [-Wunused-variable] static IteM Cn3D_iModelCtrl = NULL; ^~~~~~~~~~~~~~~ cn3dwin.c:682:13: warning: ‘Cn3D_iLabelCtrl’ defined but not used [-Wunused-variable] static IteM Cn3D_iLabelCtrl = NULL; ^~~~~~~~~~~~~~~ cn3dwin.c:676:14: warning: ‘Cn3D_Vy’ defined but not used [-Wunused-variable] static Uint2 Cn3D_Vy, Cn3D_Rx; ^~~~~~~ mv cn3dwin.o cn3dwin.glo mv cn3dwin.tmp cn3dwin.o mv cn3dentr.o cn3dentr.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dentr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/cn3dmain.h:182, from cn3dentr.c:81: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv cn3dentr.o cn3dentr.glo mv cn3dentr.tmp cn3dentr.o mv cn3dmsg.o cn3dmsg.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dmsg.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from cn3dmsg.c:254: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dmatn.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from cn3dmatn.c:173: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dmodl.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from cn3dmodl.c:302: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dshim.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/cn3dmain.h:182, from cn3dshim.c:131: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 2 invokes undefined behavior [-Waggressive-loop-optimizations] BoundBox->x[i] = pflvDataThis[i / (int) 2]; ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ cn3dshim.c:390:17: note: within this loop for (i = 0; i < 6; i++) { ^~~ cn3dshim.c:399:36: warning: iteration 1 invokes undefined behavior [-Waggressive-loop-optimizations] BoundBox->x[i + 1]) BoundBox->x[i + 1] = ~~~~~~~~~~~^~~~~~~ cn3dshim.c:395:17: note: within this 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dmesh.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from cn3dmesh.c:46: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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), ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &(Mesh.NumTri)); ~~~~~~~~~~~~~~~ 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", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &(Mesh.Vertices[i].Vertex[0]), ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &(Mesh.Vertices[i].Vertex[1]), ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &(Mesh.Vertices[i].Vertex[2]), ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &(Mesh.Vertices[i].Normal[0]), ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &(Mesh.Vertices[i].Normal[1]), ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &(Mesh.Vertices[i].Normal[2]), &fDummy, &fDummy, &fDummy, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &lDummy, &lDummy, &lDummy); ~~~~~~~~~~~~~~~~~~~~~~~~~~ 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], ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &Mesh.Edges[i].Vertex[1], &lDummy, &lDummy, &lDummy); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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], ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &Mesh.Tri[i].Edge[1], &Mesh.Tri[i].Edge[2], ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &Mesh.Tri[i].Vertex[0], &Mesh.Tri[i].Vertex[1], ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &Mesh.Tri[i].Vertex[2], &lDummy, &Mesh.Tri[i].Atom, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &lDummy); ~~~~~~~~ mv cn3dmesh.o cn3dmesh.glo mv cn3dmesh.tmp cn3dmesh.o mv cn3dstyl.o cn3dstyl.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dstyl.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from cn3dstyl.c:72: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:456:30: warning: ‘GetThisSpecialAlgorRenderSet’ defined but not used [-Wunused-function] static SpecialFeatureInfoPtr GetThisSpecialAlgorRenderSet(Int2 id) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ cn3dstyl.c:149:15: warning: ‘bResetFeatureTitle’ defined but not used [-Wunused-variable] static ButtoN bResetFeatureTitle; ^~~~~~~~~~~~~~~~~~ cn3dstyl.c:144:14: warning: ‘Cn3D_pupModelStyleItem’ defined but not used [-Wunused-variable] static PopuP Cn3D_pupModelStyleItem; ^~~~~~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF -D_OPENGL seqcons.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from seqcons.c:112: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:263:19: warning: ‘CSC_Blosum62Fields’ defined but not used [-Wunused-const-variable=] static const char CSC_Blosum62Fields[CSC_BLOSUMSIZE] = ^~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF aa_ungapped.c aa_ungapped.c:32:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_diagnostics.c blast_diagnostics.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_engine.c blast_engine.c:57:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_extend.c blast_extend.c:32:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_filter.c blast_filter.c:32:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_gapalign.c blast_gapalign.c:34:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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; ^~~~~~~ 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) ^~~~~~~~~~~~~~~~~~~ blast_hits.c:34:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_itree.c blast_itree.c:35:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_lookup.c blast_lookup.c:34:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_message.c blast_message.c:33:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_options.c blast_options.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_seg.c blast_seg.c:38:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_seqsrc.c blast_seqsrc.c:38:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_sw.c blast_sw.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_setup.c blast_setup.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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; ^~~~ 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_) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ blast_stat.c:52:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_traceback.c blast_traceback.c:52:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ 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, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ hsp->context, hsp->query.frame, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ hsp->subject.frame, 0, &new_esp, &new_hsp); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ blast_traceback.c:365:22: note: ‘qe’ was declared here Int4 qs, qe, ss, se, es, ee, os; ^~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_util.c blast_util.c: In function ‘BlastProgram2Number’: blast_util.c:309:10: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] else if (strcasecmp("phiblastp", program) == 0) ^~ blast_util.c:312:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ return 0; ^~~~~~ At top level: blast_util.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF gapinfo.c gapinfo.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF greedy_align.c greedy_align.c:38:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF link_hsps.c link_hsps.c: In function ‘s_FwdCompareHSPs’: link_hsps.c:138:10: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] else if (h1->context > h2->context) ^~ link_hsps.c:141:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (h1->query.offset < h2->query.offset) ^~ At top level: link_hsps.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF lookup_wrap.c lookup_wrap.c:39:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF na_ungapped.c na_ungapped.c:32:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_math.c ncbi_math.c:32:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF ncbi_std.c ncbi_std.c:33:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF pattern.c pattern.c:58:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF phi_extend.c phi_extend.c:35:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF phi_lookup.c phi_lookup.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF lookup_util.c lookup_util.c:32:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_encoding.c blast_encoding.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_psi.c blast_psi.c:2:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_psi_priv.c blast_psi_priv.c:2:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_kappa.c blast_kappa.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF matrix_freq_ratios.c matrix_freq_ratios.c:2:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_hspstream.c blast_hspstream.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_parameters.c blast_parameters.c:32:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_posit.c blast_posit.c:2:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF phi_gapalign.c phi_gapalign.c:57:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_program.c blast_program.c:2:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_query_info.c blast_query_info.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_tune.c blast_tune.c:37:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_aalookup.c blast_aalookup.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_nalookup.c blast_nalookup.c:38:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_aascan.c blast_aascan.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_nascan.c blast_nascan.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_dynarray.c blast_dynarray.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF split_query.c split_query.c:34:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF gencode_singleton.c gencode_singleton.c:35:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF index_ungapped.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF hspfilter_collector.c hspfilter_collector.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_api.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/algo/blast/api/blast_tabular.h:42, from ../include/algo/blast/api/blast_api.h:47, from blast_api.c:38: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_input.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objloc.h:85, from blast_input.c:34: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ blast_input.c:2:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blast_input.c,v 1.32 2008/06/09 17:28:41 madden Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_format.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/algo/blast/api/blast_format.h:45, from blast_format.c:38: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ blast_format.c: In function ‘s_MBXmlInit’: blast_format.c:255:13: warning: variable ‘retval’ set but not used [-Wunused-but-set-variable] Boolean retval = FALSE; ^~~~~~ blast_format.c: In function ‘s_LoadMatrix’: blast_format.c:673:20: warning: array subscript has type ‘char’ [-Wchar-subscripts] ss[pchars[i]][pchars[j]] = pack_matrix->scores[(i*dim)+j]; ^ blast_format.c:673:31: warning: array subscript has type ‘char’ [-Wchar-subscripts] ss[pchars[i]][pchars[j]] = pack_matrix->scores[(i*dim)+j]; ^ At top level: blast_format.c:35:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blast_format.c,v 1.119 2011/05/26 20:59:45 camacho Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_mtlock.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbistd.h:103, from ../include/ncbithr.h:87, from blast_mtlock.c:39: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ blast_mtlock.c:35:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_options_api.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_prelim.c blast_prelim.c: In function ‘Blast_PrelimSearchThreadRun’: blast_prelim.c:100:9: warning: variable ‘status’ set but not used [-Wunused-but-set-variable] Int2 status = 0; ^~~~~~ At top level: blast_prelim.c:34:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blast_prelim.c,v 1.8 2006/05/24 21:17:50 camacho Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_returns.c blast_returns.c:32:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blast_returns.c,v 1.39 2010/06/10 13:44:46 madden Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_seq.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/seqport.h:47, from blast_seq.c:34: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ blast_seq.c: In function ‘s_SeqLocFillSequenceBuffer’: blast_seq.c:529:10: warning: variable ‘seq_code’ set but not used [-Wunused-but-set-variable] Uint1 seq_code, strand; ^~~~~~~~ At top level: blast_seq.c:2:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blast_seq.c,v 1.89 2008/06/09 17:29:14 madden Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_seqalign.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/readdb.h:757, from ../include/algo/blast/api/blast_seqalign.h:42, from blast_seqalign.c:35: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ blast_seqalign.c: In function ‘s_HSPListToSeqAlignUngapped’: blast_seqalign.c:343:26: warning: variable ‘hspset_cnt_old’ set but not used [-Wunused-but-set-variable] Int4 hsp_cnt, index2, hspset_cnt_old; ^~~~~~~~~~~~~~ At top level: blast_seqalign.c:32:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blast_seqalign.c,v 1.64 2010/02/12 20:54:54 maning Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_tabular.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/algo/blast/api/blast_tabular.h:42, from blast_tabular.c:35: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ blast_tabular.c:32:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blast_tabular.c,v 1.41 2009/06/01 14:33:38 maning Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF repeats_filter.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objloc.h:85, from ../include/algo/blast/api/repeats_filter.h:41, from repeats_filter.c:41: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ repeats_filter.c:2:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: repeats_filter.c,v 1.19 2007/12/19 21:56:48 camacho Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF seqsrc_multiseq.c seqsrc_multiseq.c:33:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: seqsrc_multiseq.c,v 1.28 2011/05/26 20:59:45 camacho Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF seqsrc_readdb.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/readdb.h:757, from ../include/algo/blast/api/seqsrc_readdb.h:38, from seqsrc_readdb.c:35: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ seqsrc_readdb.c: In function ‘s_ReaddbGetNextChunk’: seqsrc_readdb.c:375:11: warning: variable ‘real_readdb_entries’ set but not used [-Wunused-but-set-variable] Uint4 real_readdb_entries; ^~~~~~~~~~~~~~~~~~~ At top level: seqsrc_readdb.c:32:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: seqsrc_readdb.c,v 1.60 2011/05/26 20:59:45 camacho Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF dust_filter.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objloc.h:85, from ../include/algo/blast/api/dust_filter.h:41, from dust_filter.c:41: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~~~~~~~~~~ At top level: dust_filter.c:2:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: dust_filter.c,v 1.12 2007/12/19 22:05:56 camacho Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF blast_message_api.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from blast_message_api.c:33: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -D_PNG -I../include -DWIN_MOTIF hspfilter_queue.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbistd.h:103, from ../include/ncbithr.h:87, from hspfilter_queue.c:41: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ hspfilter_queue.c: In function ‘s_BlastHSPQueueInit’: hspfilter_queue.c:65:24: warning: unused variable ‘q_data’ [-Wunused-variable] BlastHSPQueueData * q_data = data; ^~~~~~ At top level: hspfilter_queue.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from asnbuild.h:70, from asntool.c:64: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from asnbuild.h:70, from asncode.c:52: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~~~~~ At top level: asncode.c:291:17: warning: ‘defbyte’ defined but not used [-Wunused-variable] static CharPtr defbyte = "ASNCODE_BYTEVAL_SLOT"; ^~~~~~~ asncode.c:290:17: warning: ‘defbool’ defined but not used [-Wunused-variable] static CharPtr defbool = "ASNCODE_BOOLVAL_SLOT"; ^~~~~~~ asncode.c:289:17: warning: ‘defreal’ defined but not used [-Wunused-variable] static CharPtr defreal = "ASNCODE_REALVAL_SLOT"; ^~~~~~~ asncode.c:288:17: warning: ‘defbigint’ defined but not used [-Wunused-variable] static CharPtr defbigint = "ASNCODE_BIGINTVAL_SLOT"; ^~~~~~~~~ asncode.c:286:17: warning: ‘defptr’ defined but not used [-Wunused-variable] static CharPtr defptr = "ASNCODE_PTRVAL_SLOT"; ^~~~~~ ../lib/libncbi.a(ncbifile.o): In function `Nlm_TmpNam': ./build/ncbifile.c:1209: warning: the use of `tempnam' is dangerous, better use `mkstemp' cp -p asntool ../bin make[2]: Leaving directory '/<>/build' /usr/bin/make -C build -f makenet.unx LCL=lnx CC="gcc " LDFLAGS1="-g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='\"Aug 12 2016\"' -DBUILD_TIME='\"20:29:37\"' -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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='\"Aug 12 2016\"' -DBUILD_TIME='\"20:29:37\"' -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 '/<>/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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" ni_lib_.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ni_types.h:84, from ../include/ncbinet.h:84, from ni_lib_.c:76: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" ni_debug.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ni_debug.c:55: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" ni_service.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ni_service.c:122: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ ni_service.c: In function ‘s_GenericGetService’: ni_service.c:199:19: warning: unused variable ‘c’ [-Wunused-variable] CONNECTOR c; ^ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" ni_error.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ni_types.h:84, from ../include/ncbinet.h:84, from ../include/ni_error.h:76, from ni_error.c:72: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" netentr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/accentr.h:125, from netentr.c:161: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" netlib.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from netlib.c:82: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ netlib.c: In function ‘BoolExprAsnWrite’: netlib.c:307:16: warning: unused variable ‘n’ [-Wunused-variable] static int n = 0; ^ At top level: netlib.c:307:16: warning: ‘n’ defined but not used [-Wunused-variable] netlib.c:96:16: warning: ‘loaded’ defined but not used [-Wunused-variable] static Boolean loaded = FALSE; ^~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" objneten.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/asnneten.h:9, from objneten.c:86: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ objneten.c: In function ‘NetEntAsnLoad’: objneten.c:106:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (loaded) ^~ objneten.c:108:9: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ loaded = TRUE; ^~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" -D_NETENT_ Naccentr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/accentr.h:125, from Naccentr.c:297: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~~ Naccentr.c: In function ‘EntrezGIForSeqIdFunc’: Naccentr.c:3283:9: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! gi) return OM_MSG_RET_OK; ^~ Naccentr.c:3285:5: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ sip2 = ValNodeNew(NULL); ^~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" -D_NET_AND_CD_ Caccentr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/accentr.h:125, from Caccentr.c:297: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~~ Caccentr.c: In function ‘EntrezGIForSeqIdFunc’: Caccentr.c:3283:9: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! gi) return OM_MSG_RET_OK; ^~ Caccentr.c:3285:5: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ sip2 = ValNodeNew(NULL); ^~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" netcnfg.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from netcnfg.c:41: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" trmlst.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from trmlst.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" docsum.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from docsum.c:252: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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: In function ‘LaunchStructureViewer’: docsum.c:4192:3: warning: ignoring return value of ‘system’, declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^~~~~~~~~~~~~ At top level: docsum.c:439:15: warning: ‘checkmark’ defined but not used [-Wunused-variable] static Uint1 checkmark [] = { ^~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" -DNLM_OBJ_INCL=\"mapmla.h\" objmla.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objmla.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" medarch.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ni_types.h:84, from ../include/ncbinet.h:84, from medarch.c:122: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ medarch.c:758:8: warning: ‘s_MedArchPubSetEntryGetUid’ defined but not used [-Wunused-function] /*FCN*/s_MedArchPubSetEntryGetUid ( ^~~~~~~~~~~~~~~~~~~~~~~~~~ medarch.c:710:8: warning: ‘s_MedArchPubSetEntryGetPmId’ defined but not used [-Wunused-function] /*FCN*/s_MedArchPubSetEntryGetPmId ( ^~~~~~~~~~~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" medutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/medutil.h:79, from medutil.c:58: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" objblst3.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objblst3.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" netblap3.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ni_types.h:84, from ../include/ncbinet.h:84, from netblap3.c:359: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:135:0, from netblap3.c:364: netblap3.c: At top level: ../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:452:1: warning: ‘BlastResetOldHook’ defined but not used [-Wunused-function] BlastResetOldHook(void) ^~~~~~~~~~~~~~~~~ netblap3.c:445:1: warning: ‘BlastGetErrorStatus’ defined but not used [-Wunused-function] BlastGetErrorStatus(void) ^~~~~~~~~~~~~~~~~~~ netblap3.c:438:1: warning: ‘BlastSetErrorStatus’ defined but not used [-Wunused-function] BlastSetErrorStatus(Boolean status) ^~~~~~~~~~~~~~~~~~~ netblap3.c:430:1: warning: ‘BlastSetErrorHook’ defined but not used [-Wunused-function] BlastSetErrorHook(void) ^~~~~~~~~~~~~~~~~ In file included from ../include/netblap3.h:134:0, from netblap3.c:364: ../include/blstspc.h:229:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/blstspc.h:228:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/blstspc.h:227:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^~~ ../include/blstspc.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "blstspc.h23"; ^~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" objtax1.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objtax1.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" taxutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/utilpub.h:4, from taxutil.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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; ^~~ 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:1619:22: warning: ‘lst’ may be used uninitialized in this function [-Wmaybe-uninitialized] lst->next= src; ~~~~~~~~~^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" -c -o txcdproc.o -DTAXSERVICE txcdproc.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ni_types.h:84, from ../include/ncbinet.h:84, from txcdproc.c:116: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" parttree.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/txclient.h:70, from parttree.c:79: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" taxcs.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" taxblast.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from taxblast.c:158: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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: In function ‘RDTaxLookupReset’: taxblast.c:1985:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ At top level: taxblast.c:1902:13: warning: ‘getTotalTaxIdCount’ defined but not used [-Wunused-function] static Int4 getTotalTaxIdCount(TreeCursorPtr cursor) ^~~~~~~~~~~~~~~~~~ taxblast.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: taxblast.c,v 6.30 2008/07/18 19:26:35 madden Exp $"; ^~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" id1gen.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from id1gen.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" id1arch.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from id1arch.c:31: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:563:47: warning: spurious trailing ‘%’ in format [-Wformat=] fprintf(fp,"%-20d%-20s%",old_gi,repl_date); ^ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -fPIC -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" accid1.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objmgr.h:51, from ../include/seqmgr.h:48, from accid1.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 '/<>/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': ./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 '/<>/shlib' rm -f ../shlib/*.a make[2]: Leaving directory '/<>/build' /usr/bin/make -C build clean make[2]: Entering directory '/<>/build' rm -f *.[acho] *.glo make[2]: Leaving directory '/<>/build' /usr/bin/make -C build all LCL=lnx CC="gcc " LDFLAGS1="-g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='\"Aug 12 2016\"' -DBUILD_TIME='\"20:29:37\"' -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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='\"Aug 12 2016\"' -DBUILD_TIME='\"20:29:37\"' -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 '/<>/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. 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbithr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbistd.h:103, from ncbithr.c:289: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbimain.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ncbimain.c:56: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ ncbimain.c:82:1: warning: return type defaults to ‘int’ [-Wimplicit-int] main(int argc, char *argv[]) ^~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbibs.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ncbibs.c:55: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ ncbibs.c: In function ‘Nlm_BSSeek’: ncbibs.c:448:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (sp == bsp->seekptr) /* already in right position */ ^~ ncbibs.c:451:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ bsp->seekptr = sp; ^~~ In file included from ../include/ncbierr.h:105:0, from ../include/ncbimsg.h:78, from ../include/ncbi.h:60, from ncbibs.c:55: ncbibs.c: In function ‘Nlm_BSGetUint2’: ../include/ncbimisc.h:344:31: warning: statement with no effect [-Wunused-value] #define Nlm_SwapUint2(value) (value) ^ ncbibs.c:937:2: note: in expansion of macro ‘Nlm_SwapUint2’ Nlm_SwapUint2(retval); ^~~~~~~~~~~~~ ncbibs.c: In function ‘Nlm_BSGetUint4’: ../include/ncbimisc.h:348:31: warning: statement with no effect [-Wunused-value] #define Nlm_SwapUint4(value) (value) ^ ncbibs.c:947:2: note: in expansion of macro ‘Nlm_SwapUint4’ Nlm_SwapUint4(retval); ^~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF wwwutils.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ncbiwww.h:106, from wwwutils.c:150: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbierr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from corepriv.h:85, from ncbierr.c:235: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ In file included from /usr/include/string.h:635:0, 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/s390x-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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbienv.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from corepriv.h:85, from ncbienv.c:306: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbifile.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbifile.c:48: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbiprop.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from corepriv.h:85, from ncbiprop.c:104: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbimath.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ncbimath.h:69, from ncbimath.c:90: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbimem.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ncbimem.c:163: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbimisc.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ncbimisc.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbimsg.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from corepriv.h:85, from ncbimsg.c:167: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbistr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ncbistr.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbisgml.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ncbisgml.c:80: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ In file included from /usr/include/string.h:635:0, 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/s390x-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/s390x-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/s390x-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/s390x-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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbitime.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ncbitime.c:77: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbilang.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ncbilang.c:57: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF asnbufo.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from asnbufo.c:62: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF asndebin.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from asnbuild.h:70, from asndebin.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ asndebin.c: In function ‘AsnBinReadVal’: asndebin.c:545:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ asndebin.c:548:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ if (atp == NULL) ^~ asndebin.c:614:13: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else /* empty sequence written */ ^~~~ asndebin.c:616:7: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ while (atp2 != NULL) ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF asnenbin.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from asnbuild.h:70, from asnenbin.c:88: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF asngen.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from asnbuild.h:70, from asngen.c:80: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF asnio.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from asnbuild.h:70, from asnio.c:150: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ asnio.c: In function ‘AsnIoWriteBlock’: asnio.c:765:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else /* use alternative write function */ ^~~~ asnio.c:768:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ if (retval != bytes_to_write) ^~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF asnlex.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from asnbuild.h:70, from asnlex.c:104: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ asnlex.c: In function ‘AsnTxtReadId’: asnlex.c:250:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if ((token == END_STRUCT) && ((isa == SEQ_TYPE) || (isa == SET_TYPE))) ^~ asnlex.c:253:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (token != IDENT) ^~ asnlex.c: In function ‘AsnTxtReadVal’: asnlex.c:397:13: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else /* empty sequence written */ ^~~~ asnlex.c:399:7: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ while (atp2 != NULL) ^~~~~ At top level: asnlex.c:1322:13: warning: ‘AsnLexWordUTF8’ defined but not used [-Wunused-function] static Int2 AsnLexWordUTF8 (AsnIoPtr aip) ^~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF asnlext.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from asnbuild.h:70, from asnlext.c:57: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF asnout.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from asnbuild.h:70, from asnout.c:79: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ asnout.c: In function ‘AsnOutput’: asnout.c:159:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ asnout.c:162:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ for (i = 0; i < 12; i++) ^~~ asnout.c:213:9: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! loader) ^~ asnout.c:216:3: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ attvp = p.root_tmpvalue.next; ^~~~~ asnout.c:270:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! loader) ^~ asnout.c:273:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ attp = p.root_tmptype.next; ^~~~ asnout.c:450:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! loader) ^~ asnout.c:453:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ i = 1; ^ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF asnprint.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from asnbuild.h:70, from asnprint.c:53: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF asntypes.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from asnbuild.h:70, from asntypes.c:111: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ asntypes.c: In function ‘AsnEnumTypeStr’: asntypes.c:1383:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if ((atp->type->isa != ENUM_TYPE) && (atp->type->isa != INTEGER_TYPE)) ^~ asntypes.c:1386:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ avnp = (AsnValxNodePtr) atp->branch; ^~~~ 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", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &isa, name, &tagclass, &tagnumber, bools, bools+1, bools+2, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ bools+3, bools+4, &defaultvalue, &type, &branch, &next); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF asngenob.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from asngenob.c:72: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF gifgen.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from gifgen.c:137: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF togif.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from togif.c:111: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbithrs.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbistd.h:103, from ncbithrs.c:289: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF tsprintf.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbiargs.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ncbiargs.c:82: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF tree.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/treemgr.h:67, from tree.c:79: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF matrix.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/matrix.h:44, from matrix.c:41: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbi_socket.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_ansi_ext.h:37, from ncbi_socket.c:37: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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/s390x-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/s390x-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/s390x-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/s390x-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/s390x-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/s390x-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/s390x-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/s390x-linux-gnu/sys/socket.h:280:0, from ncbi_socketp.h:53, from ncbi_connssl.h:37, from ncbi_socket.c:38: /usr/include/s390x-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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbi_buffer.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbi_types.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbi_core.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_ansi_ext.h:37, from ncbi_core.c:33: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbi_core_c.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_ansi_ext.h:37, from ncbi_core_c.c:36: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbi_util.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_ansi_ext.h:37, from ncbi_util.c:33: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbi_priv.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_assert.h:35, from ncbi_priv.h:55, from ncbi_priv.c:33: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbi_ansi_ext.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_ansi_ext.h:37, from ncbi_ansi_ext.c:33: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbi_connection.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_assert.h:35, from ncbi_priv.h:55, from ncbi_connection.c:34: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbi_connector.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_assert.h:35, from ncbi_priv.h:55, from ncbi_connector.c:34: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbi_connutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_ansi_ext.h:37, from ncbi_connutil.c:34: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbi_file_connector.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_ansi_ext.h:37, from ncbi_file_connector.c:36: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbi_heapmgr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_assert.h:35, from ncbi_priv.h:55, from ncbi_heapmgr.c:114: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbi_http_connector.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_ansi_ext.h:37, from ncbi_http_connector.c:36: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbi_memory_connector.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbi_lbsmd_stub.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbi_host_info.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbi_server_info.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_ansi_ext.h:37, from ncbi_server_info.c:33: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbi_service.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_ansi_ext.h:37, from ncbi_service.c:33: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbi_version.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_version.h:37, from ncbi_version.c:33: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbi_service_connector.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_ansi_ext.h:37, from ncbi_service_connector.c:33: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbi_ftp_connector.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_ansi_ext.h:37, from ncbi_ftp_connector.c:48: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbi_dispd.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_ansi_ext.h:37, from ncbi_dispd.c:34: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbi_lb.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbi_local.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_ansi_ext.h:37, from ncbi_local.c:34: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbi_socket_connector.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_ansi_ext.h:37, from ncbi_socket_connector.c:36: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF urlquery.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from asnbuild.h:70, from urlquery.c:42: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF binary.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/binary.h:60, from binary.c:59: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbi_sendmail.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ncbi_config.h:38, from ncbi_ansi_ext.h:37, from ncbi_sendmail.c:33: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbi_base64.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF asn_connection.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF raw_scoremat.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF drwnflpt.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from drwnflpt.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF drwnfspc.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from drwnfspc.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF drwnmfls.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from drwnmfls.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objacces.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/asnacces.h:9, from objacces.c:62: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ objacces.c: In function ‘LinkSetAsnWrite’: objacces.c:137:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objacces.c:140:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (lsp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objacces.c: In function ‘LinkSetAsnRead’: objacces.c:211:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objacces.c:214:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ lsp = LinkSetNew(); ^~~ objacces.c:215:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (lsp == NULL) ^~ objacces.c:218:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) /* read the start struct */ ^~ objacces.c:221:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objacces.c:223:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) /* get the num */ ^~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objalign.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objalign.h:103, from objalign.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘SeqAlignAsnRead’: objalign.c:595:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objalign.c:598:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ sap = SeqAlignNew(); ^~~ objalign.c:599:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (sap == NULL) ^~ objalign.c:602:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) goto erret; /* read the start struct */ ^~ objalign.c: In function ‘DenseDiagAsnWrite’: objalign.c:1018:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objalign.c:1021:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (ddp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objalign.c: In function ‘DenseDiagAsnRead’: objalign.c:1108:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objalign.c:1111:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ ddp = DenseDiagNew(); ^~~ objalign.c:1112:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (ddp == NULL) ^~ objalign.c:1115:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) goto erret; /* read the start struct */ ^~ objalign.c: In function ‘DenseSegAsnWrite’: objalign.c:1264:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objalign.c:1267:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (dsp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objalign.c: In function ‘DenseSegAsnRead’: objalign.c:1368:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objalign.c:1371:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ dsp = DenseSegNew(); ^~~ objalign.c:1372:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (dsp == NULL) ^~ objalign.c:1375:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) goto erret; /* read the start struct */ ^~ objalign.c: In function ‘StdSegAsnWrite’: objalign.c:1553:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objalign.c:1556:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (ssp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objalign.c:1573:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! SeqLocSetAsnWrite(ssp->loc, aip, STD_SEG_loc, STD_SEG_loc_E)) ^~ objalign.c:1576:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (ssp->scores != NULL) ^~ objalign.c: In function ‘StdSegAsnRead’: objalign.c:1618:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objalign.c:1621:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ ssp = StdSegNew(); ^~~ objalign.c:1622:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (ssp == NULL) ^~ objalign.c:1625:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) goto erret; /* read the start struct */ ^~ objalign.c: In function ‘SeqAlignSetAsnWrite’: objalign.c:1696:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objalign.c:1700:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ oldsap = sap; ^~~~~~ objalign.c: In function ‘PackSegAsnWrite’: objalign.c:1884:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objalign.c:1887:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (psp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objalign.c:1916:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! AsnCloseStruct(aip, PACKED_SEG_starts, (Pointer)psp->starts)) ^~ objalign.c:1919:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ av.ptrvalue = psp->present; ^~ objalign.c: In function ‘PackSegAsnRead’: objalign.c:1989:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objalign.c:1992:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ psp = PackSegNew(); ^~~ objalign.c:1993:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (psp == NULL) ^~ objalign.c:1996:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) goto erret; /* read the start struct */ ^~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objall.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/objall.h:64, from objall.c:63: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objbibli.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/asnbibli.h:9, from objbibli.c:110: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ objbibli.c: In function ‘AffilAsnRead’: objbibli.c:205:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:208:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ afp = AffilNew(); ^~~ objbibli.c: In function ‘AffilAsnWrite’: objbibli.c:293:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:296:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (afp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objbibli.c: In function ‘AuthListFree’: objbibli.c:453:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (alp->affil != NULL) ^~ objbibli.c:455:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ return (AuthListPtr)MemFree(alp); ^~~~~~ objbibli.c: In function ‘AuthListAsnRead’: objbibli.c:484:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:487:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ alp = AuthListNew(); ^~~ objbibli.c: In function ‘AuthListAsnWrite’: objbibli.c:578:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:581:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (alp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objbibli.c:583:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! AsnOpenStruct(aip, atp, (Pointer)alp)) /* open AuthList SEQUENCE */ ^~ objbibli.c:586:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ av.ptrvalue = alp->names; ^~ objbibli.c: In function ‘AuthorFree’: objbibli.c:670:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (ap->affil != NULL) ^~ objbibli.c:672:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ return (AuthorPtr)MemFree(ap); ^~~~~~ objbibli.c: In function ‘AuthorAsnRead’: objbibli.c:700:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:703:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ ap = AuthorNew(); ^~ objbibli.c: In function ‘AuthorAsnWrite’: objbibli.c:772:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:775:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (ap == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objbibli.c: In function ‘CitArtAsnRead’: objbibli.c:916:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:919:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ cap = CitArtNew(); ^~~ objbibli.c: In function ‘CitArtAsnWrite’: objbibli.c:1018:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:1021:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (cap == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objbibli.c:1023:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! AsnOpenStruct(aip, atp, (Pointer)cap)) /* open the SEQUENCE */ ^~ objbibli.c:1026:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (cap->title != NULL) ^~ objbibli.c: In function ‘ImprintAsnRead’: objbibli.c:1141:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:1144:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ ip = ImprintNew(); ^~ objbibli.c: In function ‘ImprintAsnWrite’: objbibli.c:1240:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:1243:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (ip == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objbibli.c: In function ‘CitRetractAsnRead’: objbibli.c:1378:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:1381:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ crp = CitRetractNew(); ^~~ objbibli.c: In function ‘CitRetractAsnWrite’: objbibli.c:1432:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:1435:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (crp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objbibli.c: In function ‘CitJourAsnRead’: objbibli.c:1509:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:1512:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ cjp = CitJourNew(); ^~~ objbibli.c: In function ‘CitJourAsnWrite’: objbibli.c:1561:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:1564:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (cjp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objbibli.c:1570:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! ImprintAsnWrite(cjp->imp, aip, CIT_JOUR_imp)) ^~ objbibli.c:1572:5: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (! AsnCloseStruct(aip, atp, (Pointer)cjp)) /* end SEQUENCE */ ^~ objbibli.c: In function ‘CitBookAsnRead’: objbibli.c:1661:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:1664:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ cbp = CitBookNew(); ^~~ objbibli.c: In function ‘CitBookAsnWrite’: objbibli.c:1729:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:1732:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (cbp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objbibli.c:1745:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! ImprintAsnWrite(cbp->imp, aip, CIT_BOOK_imp)) ^~ objbibli.c:1747:5: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (! AsnCloseStruct(aip, atp, (Pointer)cbp)) /* end SEQUENCE */ ^~ objbibli.c: In function ‘CitProcAsnWrite’: objbibli.c:1864:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:1867:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (cpp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objbibli.c:1884:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! AsnCloseStruct(aip, CIT_PROC_meet, (Pointer)cpp->otherdata)) ^~ objbibli.c:1886:5: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (! AsnCloseStruct(aip, atp, (Pointer)cpp)) /* end SEQUENCE */ ^~ objbibli.c: In function ‘CitLetAsnWrite’: objbibli.c:1978:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:1981:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (clp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objbibli.c: In function ‘CitPatAsnRead’: objbibli.c:2072:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:2075:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ cpp = CitPatNew(); ^~~ objbibli.c: In function ‘CitPatAsnWrite’: objbibli.c:2194:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:2197:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (cpp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objbibli.c: In function ‘IdPatAsnRead’: objbibli.c:2325:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:2328:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ idp = IdPatNew(); ^~~ objbibli.c: In function ‘IdPatAsnWrite’: objbibli.c:2391:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:2394:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (idp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objbibli.c: In function ‘CitGenAsnRead’: objbibli.c:2523:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:2526:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ cgp = CitGenNew(); ^~~ objbibli.c: In function ‘CitGenAsnWrite’: objbibli.c:2604:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:2607:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (cgp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objbibli.c: In function ‘TitleAsnWrite’: objbibli.c:2800:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:2803:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (tp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objbibli.c: In function ‘CitSubFree’: objbibli.c:2882:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (csp == NULL) ^~ objbibli.c:2885:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ AuthListFree(csp->authors); ^~~~~~~~~~~~ objbibli.c: In function ‘CitSubAsnRead’: objbibli.c:2916:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:2919:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ csp = CitSubNew(); ^~~ objbibli.c:2931:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:2934:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (atp == CIT_SUB_imp) ^~ objbibli.c: In function ‘CitSubAsnWrite’: objbibli.c:3002:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:3005:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (csp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objbibli.c:3009:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! AuthListAsnWrite(csp->authors, aip, CIT_SUB_authors)) ^~ objbibli.c:3012:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (csp->imp != NULL) ^~ objbibli.c: In function ‘PatPrioritySetAsnRead’: objbibli.c:3665:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (ppp == NULL) ^~ objbibli.c:3668:3: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (head == NULL) ^~ objbibli.c:3686:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:3688:3: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ ppp->date = DateAsnRead(aip, atp); ^~~ objbibli.c: In function ‘PatPrioritySetAsnWrite’: objbibli.c:3724:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! AsnOpenStruct(aip, set, (Pointer)ppp)) /* open the SEQUENCE OF */ ^~ objbibli.c:3727:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ for (tmp = ppp; tmp != NULL; tmp = tmp->next) ^~~ objbibli.c: In function ‘ArticleIdAsnRead’: objbibli.c:3818:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:3821:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ aidp = ArticleIdNew(); ^~~~ objbibli.c: In function ‘ArticleIdAsnWrite’: objbibli.c:3894:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:3897:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (aidp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objbibli.c: In function ‘PubStatusDateAsnRead’: objbibli.c:4006:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:4009:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ psdp = PubStatusDateNew(); ^~~~ objbibli.c: In function ‘PubStatusDateAsnWrite’: objbibli.c:4058:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objbibli.c:4061:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (psdp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objfeat.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objfeat.h:48, from objfeat.c:53: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘OrgNameMatch’: objfeat.c:5890:28: warning: self-comparison always evaluates to false [-Wtautological-compare] || onp2->mgcode != onp2->mgcode ^~ objfeat.c: In function ‘TaxElementAsnWrite’: objfeat.c:7320:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! AsnOpenStruct(aip, atp, (Pointer)tep)) ^~ objfeat.c:7323:9: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ av.intvalue = (Int4)(tep->fixed_level); ^~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objgen.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/asngen.h:9, from objgen.c:47: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ objgen.c: In function ‘DateClean’: objgen.c:161:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (dp == NULL) ^~ objgen.c:164:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ memset(dp, 0, sizeof(NCBI_Date)); ^~~~~~ objgen.c: In function ‘DateAsnWrite’: objgen.c:399:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objgen.c:402:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (dp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objgen.c: In function ‘DateAsnRead’: objgen.c:492:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objgen.c:495:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ dp = DateNew(); ^~ objgen.c:496:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (dp == NULL) ^~ objgen.c:499:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) goto erret; /* read the CHOICE value (nothing) */ ^~ objgen.c: In function ‘DbtagFree’: objgen.c:750:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (dbt == NULL) ^~ objgen.c:753:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ dbt->tag = ObjectIdFree(dbt->tag); ^~~ objgen.c: In function ‘DbtagAsnRead’: objgen.c:782:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objgen.c:785:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ dbt = DbtagNew(); ^~~ objgen.c:786:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (dbt == NULL) ^~ objgen.c:789:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) goto erret; /* read the START_STRUCT */ ^~ objgen.c:797:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (dbt->tag == NULL) ^~ objgen.c:800:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ atp = AsnReadId(aip, amp, atp); if (atp == NULL) goto erret; /* END_STRUCT */ ^~~ objgen.c: In function ‘DbtagAsnWrite’: objgen.c:831:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objgen.c:834:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (dbt == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objgen.c: In function ‘ObjectIdAsnRead’: objgen.c:976:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objgen.c:979:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) goto erret; /* read the CHOICE value (nothing) */ ^~ objgen.c:985:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (oid == NULL) ^~ objgen.c:987:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (atp == OBJECT_ID_id) ^~ objgen.c: In function ‘ObjectIdAsnWrite’: objgen.c:1020:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objgen.c:1023:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (oid == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objgen.c: In function ‘NameStdFree’: objgen.c:1153:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (nsp == NULL) ^~ objgen.c:1156:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ for (i = 0; i < 7; i++) ^~~ objgen.c: In function ‘NameStdAsnRead’: objgen.c:1187:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objgen.c:1190:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ nsp = NameStdNew(); ^~~ objgen.c:1191:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (nsp == NULL) ^~ objgen.c:1194:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) goto erret; /* read the START_STRUCT */ ^~ objgen.c: In function ‘NameStdAsnWrite’: objgen.c:1250:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objgen.c:1253:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (nsp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objgen.c: In function ‘PersonIdFree’: objgen.c:1345:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (pid == NULL) ^~ objgen.c:1348:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (pid->choice == 1) /* Dbtag */ ^~ objgen.c: In function ‘PersonIdAsnWrite’: objgen.c:1441:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objgen.c:1444:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (pid == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objgen.c: In function ‘IntFuzzAsnRead’: objgen.c:1657:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objgen.c:1660:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ ifp = IntFuzzNew(); ^~~ objgen.c:1661:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (ifp == NULL) ^~ objgen.c:1664:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) goto erret; /* read the CHOICE (nothing) */ ^~ objgen.c: In function ‘UserFieldAsnRead’: objgen.c:1915:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objgen.c:1918:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ ufp = UserFieldNew(); ^~~ objgen.c: In function ‘UserObjectAsnRead’: objgen.c:2395:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objgen.c:2398:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ uop = UserObjectNew(); ^~~ objgen.c:2399:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (uop == NULL) ^~ objgen.c:2402:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) goto erret; /* read the start struct */ ^~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objloc.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objloc.h:85, from objloc.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ objloc.c: In function ‘SeqIdAsnWrite’: objloc.c:313:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:316:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (anp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objloc.c: In function ‘SeqIdAsnRead’: objloc.c:441:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:444:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ anp = ValNodeNew(NULL); ^~~ objloc.c: In function ‘SeqIdDup’: objloc.c:585:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (oldid == NULL) ^~ objloc.c:588:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ newid = ValNodeNew(NULL); ^~~~~ objloc.c: In function ‘SeqIdSetAsnRead’: objloc.c:749:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (AsnReadVal(aip, atp, &av) <= 0) /* end struct */ ^~ objloc.c:751:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (first == NULL) ^~ objloc.c: In function ‘SeqIdSetAsnWrite’: objloc.c:783:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp2 == NULL) ^~ objloc.c:786:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (anp == NULL) { AsnNullValueMsg(aip, settype); goto erret; } ^~ objloc.c: In function ‘TextSeqIdAsnWrite’: objloc.c:861:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:864:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (tsip == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objloc.c: In function ‘TextSeqIdAsnRead’: objloc.c:929:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:932:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ tsip = TextSeqIdNew(); ^~~~ objloc.c:933:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (tsip == NULL) ^~ objloc.c:936:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if ((AsnReadVal(aip, oldtype, &av)) <= 0) /* read the START_STRUCT */ ^~ objloc.c: In function ‘PatentSeqIdAsnWrite’: objloc.c:1013:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:1016:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (psip == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objloc.c: In function ‘PatentSeqIdAsnRead’: objloc.c:1061:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:1064:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ psip = PatentSeqIdNew(); ^~~~ objloc.c:1065:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (psip == NULL) ^~ objloc.c:1068:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) /* read the START_STRUCT */ ^~ objloc.c: In function ‘GiimAsnWrite’: objloc.c:1144:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:1147:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (gip == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objloc.c: In function ‘GiimAsnRead’: objloc.c:1207:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (gip == NULL) ^~ objloc.c:1210:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, oldtype, &av) <= 0) /* read the START_STRUCT */ ^~ objloc.c: In function ‘PDBSeqIdAsnWrite’: objloc.c:1295:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:1298:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (pdbsip == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objloc.c: In function ‘PDBSeqIdAsnRead’: objloc.c:1356:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:1359:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ pdbsip = PDBSeqIdNew(); ^~~~~~ objloc.c:1360:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (pdbsip == NULL) ^~ objloc.c:1363:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if ((AsnReadVal(aip, oldtype, &av)) <= 0) /* read the START_STRUCT */ ^~ objloc.c: In function ‘SeqLocAsnWrite’: objloc.c:1508:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:1511:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (anp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objloc.c: In function ‘SeqLocAsnRead’: objloc.c:1602:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:1605:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ anp = ValNodeNew(NULL); ^~~ objloc.c:1606:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (anp == NULL) ^~ objloc.c:1609:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) /* read the CHOICE value (nothing) */ ^~ objloc.c: In function ‘SeqLocMixAsnWrite’: objloc.c:1716:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:1719:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (anp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objloc.c: In function ‘SeqLocEquivAsnWrite’: objloc.c:1783:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:1786:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (anp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objloc.c: In function ‘SeqLocSetAsnWrite’: objloc.c:1851:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp2 == NULL) ^~ objloc.c:1854:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (anp == NULL) { AsnNullValueMsg(aip, set); goto erret; } ^~ objloc.c: In function ‘SeqLocSetAsnRead’: objloc.c:1918:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (AsnReadVal(aip, atp, &av) <= 0) /* read END_STRUCT */ ^~ objloc.c:1920:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (first == NULL) ^~ objloc.c: In function ‘SeqIntAsnWrite’: objloc.c:2000:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:2003:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (sip == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objloc.c: In function ‘SeqIntAsnRead’: objloc.c:2071:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:2074:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ sip = SeqIntNew(); ^~~ objloc.c:2075:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (sip == NULL) ^~ objloc.c:2078:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, oldtype, &av) <= 0) /* read the START_STRUCT */ ^~ objloc.c: In function ‘PackSeqIntAsnWrite’: objloc.c:2155:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:2157:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ oldsip = sip; ^~~~~~ objloc.c:2161:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! AsnOpenStruct(aip, atp, (Pointer)oldsip)) ^~ objloc.c:2163:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ for ( ;sip != NULL; sip = sip->next) ^~~ objloc.c: In function ‘SeqPntAsnWrite’: objloc.c:2285:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:2288:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (spp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objloc.c: In function ‘SeqPntAsnRead’: objloc.c:2348:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:2351:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ spp = SeqPntNew(); ^~~ objloc.c:2352:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (spp == NULL) ^~ objloc.c:2355:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, oldtype, &av) <= 0) /* read the START_STRUCT */ ^~ objloc.c: In function ‘PackSeqPntAsnWrite’: objloc.c:2453:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:2456:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (pspp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objloc.c: In function ‘PackSeqPntAsnRead’: objloc.c:2525:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:2528:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ pspp = PackSeqPntNew(); ^~~~ objloc.c:2529:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (pspp == NULL) ^~ objloc.c:2532:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, oldtype, &av) <= 0) /* read the START_STRUCT */ ^~ objloc.c: In function ‘SeqBondAsnWrite’: objloc.c:2696:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:2699:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (sbp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objloc.c: In function ‘SeqBondAsnRead’: objloc.c:2748:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objloc.c:2751:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ sbp = SeqBondNew(); ^~~ objloc.c:2752:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (sbp == NULL) ^~ objloc.c:2755:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, oldtype, &av) <= 0) /* read the START_STRUCT */ ^~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objmedli.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objmedli.h:80, from objmedli.c:101: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ objmedli.c: In function ‘MedlineMeshAsnRead’: objmedli.c:245:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objmedli.c:248:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ mmp = MedlineMeshNew(); ^~~ objmedli.c: In function ‘DocRefFree’: objmedli.c:1177:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (drp == NULL) ^~ objmedli.c:1180:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ return (DocRefPtr)MemFree(drp); ^~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objpub.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objpub.h:70, from objpub.c:122: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ objpub.c: In function ‘PubSetAsnRead’: objpub.c:824:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (AsnReadVal(aip, settype, &av) <= 0) /* read START_STRUCT */ ^~ objpub.c:827:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (settype == PUB_SET_pub) ^~ objpub.c:894:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (AsnReadVal(aip, settype, &av) <= 0) /* read END_STRUCT for SET OF */ ^~ objpub.c:896:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (anp == NULL) ^~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objres.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objres.h:73, from objres.c:81: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objscoremat.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objscoremat.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objseq.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objseq.h:48, from objseq.c:56: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘AnnotIdAsnWrite’: objseq.c:4806:9: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ objseq.c:4808:13: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ break; ^~~~~ objseq.c:4814:9: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ objseq.c:4816:13: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ break; ^~~~~ objseq.c: In function ‘AnnotDescAsnWrite’: objseq.c:5191:9: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ objseq.c:5193:12: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ break; ^~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objblock.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objblock.h:70, from objblock.c:71: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ objblock.c: In function ‘EMBLBlockFree’: objblock.c:891:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (ebp == NULL) ^~ objblock.c:894:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ DateFree(ebp->creation_date); ^~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objcode.h:64, from objcode.c:102: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objsset.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from objsset.c:54: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ objsset.c: In function ‘BioseqSetFree’: objsset.c:363:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (bsp == NULL) ^~ objsset.c:366:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (bsp->idx.parentptr == NULL || bsp->idx.parenttype == OBJ_SEQSUB) { ^~ objsset.c: In function ‘SeqEntryFree’: objsset.c:876:10: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] else if (sep->choice == 2) ^~ objsset.c:879:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ return (SeqEntryPtr)MemFree(sep); ^~~~~~ objsset.c: In function ‘SeqEntryFreeComponents’: objsset.c:896:10: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] else if (sep->choice == 2) ^~ objsset.c:899:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ return sep; ^~~~~~ objsset.c: In function ‘SeqEntryAsnGet’: objsset.c:1071:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (retcode == 1) /* just after a Bioseq */ ^~ objsset.c:1073:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ av.ptrvalue = (Pointer) osp; ^~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objsub.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/asnsubmt.h:9, from objsub.c:81: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ objsub.c: In function ‘SubmitAsnLoad’: objsub.c:338:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (loaded) ^~ objsub.c:341:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (! SeqSetAsnLoad ()) ^~ objsub.c:344:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (AsnLoad()) ^~ objsub.c:347:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ ObjMgrTypeLoad(OBJ_SEQSUB, "Seq-submit", seqsubtypename, "Sequence Data Submission", ^~~~~~~~~~~~~~ objsub.c: In function ‘SeqSubmitAsnWrite’: objsub.c:452:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objsub.c:455:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (ssp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objsub.c:457:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! AsnOpenStruct(aip, atp, (Pointer)ssp)) ^~ objsub.c:460:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (! SubmitBlockAsnWrite(ssp->sub, aip, SEQ_SUBMIT_sub)) goto erret; ^~ objsub.c: In function ‘SeqSubmitAsnRead’: objsub.c:534:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objsub.c:537:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ ssp = SeqSubmitNew(); ^~~ objsub.c:538:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (ssp == NULL) ^~ objsub.c:541:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) /* read the start struct */ ^~ objsub.c: In function ‘SubmitBlockAsnWrite’: objsub.c:677:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objsub.c:680:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (sbp == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objsub.c:682:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! AsnOpenStruct(aip, atp, (Pointer)sbp)) ^~ objsub.c:685:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (! ContactInfoAsnWrite(sbp->contact, aip, SUBMIT_BLOCK_contact)) ^~ objsub.c: In function ‘SubmitBlockAsnRead’: objsub.c:763:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objsub.c:766:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ oldatp = atp; ^~~~~~ objsub.c:768:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (sbp == NULL) ^~ objsub.c:771:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) /* read the start struct */ ^~ objsub.c: In function ‘ContactInfoAsnWrite’: objsub.c:935:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objsub.c:938:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (cip == NULL) { AsnNullValueMsg(aip, atp); goto erret; } ^~ objsub.c:940:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! AsnOpenStruct(aip, atp, (Pointer)cip)) ^~ objsub.c:943:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (cip->name != NULL) ^~ objsub.c: In function ‘ContactInfoAsnRead’: objsub.c:1059:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (atp == NULL) ^~ objsub.c:1061:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ oldatp = atp; ^~~~~~ objsub.c:1064:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (cip == NULL) ^~ objsub.c:1067:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (AsnReadVal(aip, atp, &av) <= 0) /* read the start struct */ ^~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objprt.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objprt.h:67, from objprt.c:78: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objfdef.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objfeat.h:48, from ../include/objfdef.h:48, from objfdef.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objalignloc.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objalignloc.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objtable.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objtable.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objpubme.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objpubme.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objmdrs.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objmdrs.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objproj.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objproj.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ~~~~~~~~~~~~^~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objgbseq.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objgbseq.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objtseq.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objtseq.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objinsdseq.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objinsdseq.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objmacro.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objmacro.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objent2.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objent2.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ent2api.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ent2api.h:45, from ent2api.c:42: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF pmfapi.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from pmfapi.c:42: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objtax3.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objtax3.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF tax3api.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from tax3api.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~ At top level: tax3api.c:3003:13: warning: ‘AddBioSourcesToChecklist’ defined but not used [-Wunused-function] static void AddBioSourcesToChecklist (ValNodePtr biop_list, ValNodePtr check_list) ^~~~~~~~~~~~~~~~~~~~~~~~ tax3api.c:2345:16: warning: ‘StringIsExactMatchForOrgRef’ defined but not used [-Wunused-function] static Boolean StringIsExactMatchForOrgRef (CharPtr str, OrgRefPtr org) ^~~~~~~~~~~~~~~~~~~~~~~~~~~ tax3api.c:1886:16: warning: ‘EndsWithSp’ defined but not used [-Wunused-function] static Boolean EndsWithSp (CharPtr str) ^~~~~~~~~~ tax3api.c:616:28: warning: ‘TaxFixItemOrigIsOk’ defined but not used [-Wunused-function] static Boolean LIBCALLBACK TaxFixItemOrigIsOk (ValNodePtr vnp) ^~~~~~~~~~~~~~~~~~ tax3api.c:361:16: warning: ‘HasMisspellingFlag’ defined but not used [-Wunused-function] static Boolean HasMisspellingFlag (T3DataPtr t) ^~~~~~~~~~~~~~~~~~ tax3api.c:297:13: warning: ‘SaveTaxon3Request’ defined but not used [-Wunused-function] static void SaveTaxon3Request (Taxon3RequestPtr t3rp, CharPtr path) ^~~~~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objegkludge.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objegkludge.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objentgene.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objentgene.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objmla2.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objmla2.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF mla2api.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/mla2api.h:45, from mla2api.c:42: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF qblastapi.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from qblastapi.c:120: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF vecscnapi.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from vecscnapi.c:42: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objmim.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objmim.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objvalid.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objvalid.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF mimapi.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from mimapi.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF cddapi.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from cddapi.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF seqport.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/seqport.h:47, from seqport.c:54: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF sequtil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from sequtil.c:53: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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) { ^~~~~~~~~~~~~~~~~~~~~~~~~~~ sequtil.c: In function ‘SeqLocCompareEx’: sequtil.c:5792:29: warning: assuming signed overflow does not occur when assuming that (X + c) < X is always false [-Wstrict-overflow] for (i = 0; i < num; i++) ^~~ sequtil.c:5792:29: warning: assuming signed overflow does not occur when assuming that (X + c) < X is always false [-Wstrict-overflow] gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF prtutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objprt.h:67, from ../include/prtutil.h:69, from prtutil.c:81: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ prtutil.c: In function ‘StdFormatPrint’: prtutil.c:1422:10: warning: unused variable ‘ptr’ [-Wunused-variable] CharPtr ptr = NULL; ^~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF simple.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/simple.h:63, from simple.c:68: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF tofasta.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/seqport.h:47, from ../include/tofasta.h:47, from tofasta.c:44: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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: In function ‘CreateDefLineExEx’: tofasta.c:4801:13: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (vnp != NULL) ^~ tofasta.c:4803:15: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (title != NULL) { ^~ 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); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ At top level: tofasta.c:3479:19: warning: ‘GatherGenesForCDS’ defined but not used [-Wunused-function] static ValNodePtr GatherGenesForCDS(SeqLocPtr slp) ^~~~~~~~~~~~~~~~~ tofasta.c:3445:19: warning: ‘GatherSeqFeatProt’ defined but not used [-Wunused-function] static SeqFeatPtr GatherSeqFeatProt(BioseqPtr bsp) ^~~~~~~~~~~~~~~~~ tofasta.c:3359:19: warning: ‘GetCDSProtUnindexed’ defined but not used [-Wunused-function] static SeqFeatPtr GetCDSProtUnindexed ( ^~~~~~~~~~~~~~~~~~~ tofasta.c:3196:19: warning: ‘IndexedGatherDescrOnBioseq’ defined but not used [-Wunused-function] static ValNodePtr IndexedGatherDescrOnBioseq (ItemInfoPtr iip, BioseqPtr bsp, Uint1 choice) ^~~~~~~~~~~~~~~~~~~~~~~~~~ tofasta.c:3101:16: warning: ‘get_descr’ defined but not used [-Wunused-function] static Boolean get_descr (GatherContextPtr gcp) ^~~~~~~~~ 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: 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF tofile.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from tofile.c:78: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF tomedlin.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objmedli.h:80, from tomedlin.c:150: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF valid.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from valid.c:54: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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: In function ‘SortSeqGraphProc’: valid.c:28260:26: warning: self-comparison always evaluates to false [-Wtautological-compare] } else if (gip2->right < gip2->right) { ^ At top level: valid.c:24281:16: warning: ‘CouldExtendPartial’ defined but not used [-Wunused-function] static Boolean CouldExtendPartial (SeqLocPtr slp, Boolean partial5) ^~~~~~~~~~~~~~~~~~ valid.c:18342:28: warning: ‘MultiGeneOverlapFree’ defined but not used [-Wunused-function] static MultiGeneOverlapPtr MultiGeneOverlapFree (MultiGeneOverlapPtr m) ^~~~~~~~~~~~~~~~~~~~ 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:13056:16: warning: ‘CountryIsClosestToLatLon’ defined but not used [-Wunused-function] static Boolean CountryIsClosestToLatLon ( ^~~~~~~~~~~~~~~~~~~~~~~~ valid.c:12959:16: warning: ‘LatLonInRange’ defined but not used [-Wunused-function] static Boolean LatLonInRange ( ^~~~~~~~~~~~~ valid.c:12157:16: warning: ‘LatLonIsValid’ defined but not used [-Wunused-function] static Boolean LatLonIsValid (CharPtr name) ^~~~~~~~~~~~~ valid.c:9394:16: warning: ‘ConsistentWithC’ defined but not used [-Wunused-function] static Boolean ConsistentWithC (Char ch) ^~~~~~~~~~~~~~~ valid.c:6450:13: warning: ‘ReportLongSeqId’ defined but not used [-Wunused-function] static void ReportLongSeqId (SeqIdPtr sip, ValidStructPtr vsp, Int4 max_len) ^~~~~~~~~~~~~~~ valid.c:5438:13: warning: ‘CheckMutSetSources’ defined but not used [-Wunused-function] static void CheckMutSetSources (BioSourcePtr biop, Pointer userdata) ^~~~~~~~~~~~~~~~~~ valid.c:4089:13: warning: ‘FindLongIdsThatCollideWhenTruncated’ defined but not used [-Wunused-function] static void FindLongIdsThatCollideWhenTruncated (SeqEntryPtr sep, ValidStructPtr vsp, Int4 trunc_len) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ valid.c:1415:16: warning: ‘IsNotUnclassifiedExcept’ defined but not used [-Wunused-function] static Boolean IsNotUnclassifiedExcept (ValidStructPtr vsp) ^~~~~~~~~~~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF valapi.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from valapi.c:50: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF alignmgr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/alignmgr.h:261, from alignmgr.c:584: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:10572:16: warning: ‘am_merge_after_edit’ defined but not used [-Wunused-function] static Boolean am_merge_after_edit (SeqAlignPtr sap) ^~~~~~~~~~~~~~~~~~~ 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:6123:18: warning: ‘AlnMgrConstructOverlaps’ defined but not used [-Wunused-function] static AMmsmsPtr AlnMgrConstructOverlaps(AMmsmsPtr ams_head) ^~~~~~~~~~~~~~~~~~~~~~~ alignmgr.c:5405:13: warning: ‘AlnMgrMergeNeighbors’ defined but not used [-Wunused-function] static void AlnMgrMergeNeighbors(SeqAlignPtr salp) ^~~~~~~~~~~~~~~~~~~~ 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:5865:10: warning: ‘sip_head’ may be used uninitialized in this function [-Wmaybe-uninitialized] while (sip && !done) ^ alignmgr.c:5845:18: note: ‘sip_head’ was declared here SeqIdPtr sip_head; ^~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF aliparse.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/aliparse.h:12, from aliparse.c:9: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ aliparse.c: In function ‘s_IsInterleaved’: aliparse.c:929:37: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses] (s_configInfo.useMaybes == FALSE) && ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ (seqLinePtr->maybe == 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) && ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ (s_configInfo.useMaybes == 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, ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ previousLength, ~~~~~~~~~~~~~~~ s_configInfo.declaredInfo.seqLength); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ seqLinePtr->rowNum, ~~~~~~~~~~~~~~~~~~~ cLineType, ~~~~~~~~~~ seqLinePtr->sequence); ~~~~~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF aliread.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from aliread.c:3: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF alignval.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from alignval.c:46: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:1891:13: warning: ‘CheckAlnSeqLens’ defined but not used [-Wunused-function] static void CheckAlnSeqLens (SeqAlignPtr salp) ^~~~~~~~~~~~~~~ alignval.c:1476:16: warning: ‘IsSipContainedInStdseg’ defined but not used [-Wunused-function] static Boolean IsSipContainedInStdseg(SeqIdPtr sip, StdSegPtr ssp) ^~~~~~~~~~~~~~~~~~~~~~ alignval.c:568:13: warning: ‘delete_bioseqs’ defined but not used [-Wunused-function] static void delete_bioseqs (ValNodePtr ids, Uint2 entityID) ^~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF sqnutil1.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/sqnutils.h:48, from sqnutil1.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 && ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ StringICmp (last->subname, omp->subname) == 0 || ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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:10364:16: warning: ‘CleanUpSgml’ defined but not used [-Wunused-function] static CharPtr CleanUpSgml ( ^~~~~~~~~~~ sqnutil1.c:10250:13: warning: ‘SortGoTermsSfp’ defined but not used [-Wunused-function] static void SortGoTermsSfp ( ^~~~~~~~~~~~~~ sqnutil1.c:7645:16: warning: ‘IsStringSingleToken’ defined but not used [-Wunused-function] static Boolean IsStringSingleToken (CharPtr str) ^~~~~~~~~~~~~~~~~~~ sqnutil1.c:5290:13: warning: ‘CleanupConsSplice’ defined but not used [-Wunused-function] static void CleanupConsSplice (GBQualPtr gbq) ^~~~~~~~~~~~~~~~~ sqnutil1.c:2509:16: warning: ‘GeneExtendFunc’ defined but not used [-Wunused-function] static Boolean GeneExtendFunc (GatherContextPtr gcp) ^~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF sqnutil2.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/sqnutils.h:48, from sqnutil2.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘SortSeqGraphProc’: sqnutil2.c:12908:26: warning: self-comparison always evaluates to false [-Wtautological-compare] } else if (gip2->right < gip2->right) { ^ 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:16055:13: warning: ‘RevCompFeatsOnBioseq’ defined but not used [-Wunused-function] static void RevCompFeatsOnBioseq (BioseqPtr bsp) ^~~~~~~~~~~~~~~~~~~~ sqnutil2.c:8266:16: warning: ‘DoesSeqEntryAccessionMatchList’ defined but not used [-Wunused-function] static Boolean DoesSeqEntryAccessionMatchList (SeqEntryPtr sep, ValNodePtr accn_list) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sqnutil2.c:4661:16: warning: ‘IsNonSeqChar’ defined but not used [-Wunused-function] static Boolean IsNonSeqChar (Char ch, Boolean is_prot) ^~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF sqnutil3.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/sqnutils.h:48, from sqnutil3.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘OrgNameMatchExceptOldName’: sqnutil3.c:13089:28: warning: self-comparison always evaluates to false [-Wtautological-compare] || onp2->mgcode != onp2->mgcode ^~ 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: In function ‘FillInMissingTraces’: sqnutil3.c:31968:5: warning: ignoring return value of ‘system’, declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^~~~~~~~~~~~~ At top level: sqnutil3.c:33544:13: warning: ‘TestLatLonFormatting’ defined but not used [-Wunused-function] static void TestLatLonFormatting (FILE *fp) ^~~~~~~~~~~~~~~~~~~~ sqnutil3.c:31404:1: warning: ‘BarcodeTestForSeqEntry’ defined but not used [-Wunused-function] BarcodeTestForSeqEntry ^~~~~~~~~~~~~~~~~~~~~~ sqnutil3.c:31396:13: warning: ‘FindBadGPS’ defined but not used [-Wunused-function] static void FindBadGPS (BioseqPtr bsp, Pointer userdata) ^~~~~~~~~~ sqnutil3.c:23725:13: warning: ‘FindSuspectrRNAProductsCallback’ defined but not used [-Wunused-function] static void FindSuspectrRNAProductsCallback (SeqFeatPtr sfp, Pointer data) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sqnutil3.c:19971:16: warning: ‘FeatureCountHasNumFeats’ defined but not used [-Wunused-function] static Boolean FeatureCountHasNumFeats (ValNodePtr vnp, Pointer data) ^~~~~~~~~~~~~~~~~~~~~~~ sqnutil3.c:18676:24: warning: ‘SortVnpByHaplotypeThenSequenceAllowNDiff’ defined but not used [-Wunused-function] static int LIBCALLBACK SortVnpByHaplotypeThenSequenceAllowNDiff (VoidPtr ptr1, VoidPtr ptr2) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sqnutil3.c:16581:24: warning: ‘IntervalPairFree’ defined but not used [-Wunused-function] static IntervalPairPtr IntervalPairFree (IntervalPairPtr i) ^~~~~~~~~~~~~~~~ sqnutil3.c:13399:16: warning: ‘ContainsBracketsOrParentheses’ defined but not used [-Wunused-function] static Boolean ContainsBracketsOrParentheses (CharPtr pattern, CharPtr search) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sqnutil3.c:10252:13: warning: ‘ExtractVnpByStringSearch’ defined but not used [-Wunused-function] static void ExtractVnpByStringSearch (ValNodePtr PNTR list, CharPtr search) ^~~~~~~~~~~~~~~~~~~~~~~~ sqnutil3.c:9755:13: warning: ‘GeneLocusTagDiscrepancyCallback’ defined but not used [-Wunused-function] static void GeneLocusTagDiscrepancyCallback (ValNodePtr item_list, Pointer userdata) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sqnutil3.c:9672:25: warning: ‘InconsistentLocusTagPrefix’ defined but not used [-Wunused-function] static ClickableItemPtr InconsistentLocusTagPrefix (PrefixCheckPtr pcp) ^~~~~~~~~~~~~~~~~~~~~~~~~~ sqnutil3.c:9621:19: warning: ‘FreePrefixCheckList’ defined but not used [-Wunused-function] static ValNodePtr FreePrefixCheckList (ValNodePtr prefix_list) ^~~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF sqnutil4.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/sqnutils.h:48, from sqnutil4.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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] if (sfp != NULL && sfp->idx.subtype == FEATDEF_misc_feature ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ && (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:15901:13: warning: ‘TESTDisplayList’ defined but not used [-Wunused-function] static void TESTDisplayList (ValNodePtr new_list) ^~~~~~~~~~~~~~~ sqnutil4.c:15872:19: warning: ‘ExpandOneComboListUsingAllPresentQuals’ defined but not used [-Wunused-function] static ValNodePtr ExpandOneComboListUsingAllPresentQuals (QualComboPtr q) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sqnutil4.c:15584:16: warning: ‘RemoveFieldFromUniqBioSrcGrpList’ defined but not used [-Wunused-function] static Boolean RemoveFieldFromUniqBioSrcGrpList (ValNodePtr list, FieldTypePtr field) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sqnutil4.c:9705:19: warning: ‘RemoveAllButLastCDS’ defined but not used [-Wunused-function] static ValNodePtr RemoveAllButLastCDS ( ^~~~~~~~~~~~~~~~~~~ sqnutil4.c:9674:13: warning: ‘SmashTallClauses’ defined but not used [-Wunused-function] static void SmashTallClauses ( ^~~~~~~~~~~~~~~~ sqnutil4.c:9510:13: warning: ‘RemoveFeats’ defined but not used [-Wunused-function] static void RemoveFeats ( ^~~~~~~~~~~ sqnutil4.c:4945:13: warning: ‘CountFeatures’ defined but not used [-Wunused-function] static Int4 CountFeatures ( ^~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF subutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/objsub.h:76, from ../include/subutil.h:50, from subutil.c:54: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~ At top level: subutil.c:3546:20: warning: ‘TranslateCdRegionNew’ defined but not used [-Wunused-function] static SeqEntryPtr TranslateCdRegionNew ( ^~~~~~~~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF edutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/seqport.h:47, from ../include/edutil.h:188, from edutil.c:365: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF asn2ff1.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objmgr.h:51, from ../include/seqmgr.h:48, from asn2ff1.c:42: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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) { At top level: asn2ff1.c:2189:13: warning: ‘PrintStatusLine’ defined but not used [-Wunused-function] static void PrintStatusLine(Asn2ffJobPtr ajp, GBEntryPtr gbp) ^~~~~~~~~~~~~~~ asn2ff1.c:2171:16: warning: ‘find_user_object’ defined but not used [-Wunused-function] static Boolean find_user_object(BioseqPtr bsp) ^~~~~~~~~~~~~~~~ asn2ff1.c:816:19: warning: ‘SeqEntryToLinkStrEx’ defined but not used [-Wunused-function] static LinkStrPtr SeqEntryToLinkStrEx(Asn2ffJobPtr ajp, SeqEntryPtr sep, LinkStrPtr lsp, Uint1 format) ^~~~~~~~~~~~~~~~~~~ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from asn2ff1.c:45: ../include/asnprt.h:61:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/asnprt.h:60:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/asnprt.h:59:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^~~ ../include/asnprt.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF asn2ff2.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/gather.h:166, from asn2ff2.c:216: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~ At top level: asn2ff2.c:1190:16: warning: ‘GetSPBlock’ defined but not used [-Wunused-function] static CharPtr GetSPBlock (Asn2ffJobPtr ajp, GBEntryPtr gbp) ^~~~~~~~~~ asn2ff2.c:680:16: warning: ‘GetEvidence’ defined but not used [-Wunused-function] static CharPtr GetEvidence(Asn2ffJobPtr ajp, GBEntryPtr gbp) ^~~~~~~~~~~ asn2ff2.c:232:16: warning: ‘has_comment’ defined but not used [-Wunused-variable] static Boolean has_comment; ^~~~~~~~~~~ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from asn2ff2.c:218: ../include/asnprt.h:61:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/asnprt.h:60:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/asnprt.h:59:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^~~ ../include/asnprt.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF asn2ff3.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/asn2ffg.h:200, from ../include/asn2ffp.h:372, from asn2ff3.c:628: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:3306:24: 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; ^~ At top level: 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/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from asn2ff3.c:628: ../include/asnprt.h:61:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/asnprt.h:60:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/asnprt.h:59:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^~~ ../include/asnprt.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^~~~~~~~~~~ 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:2208:9: warning: ‘seq_code’ may be used uninitialized in this function [-Wmaybe-uninitialized] ptr = Get3LetterSymbol(seq_code, table, trna->aa, error_msgs); ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF asn2ff4.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/asn2ffg.h:200, from ../include/asn2ffp.h:372, from asn2ff4.c:273: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 */ ^~~ asn2ff4.c: In function ‘SortOrganizeFeat’: asn2ff4.c:2457:2: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (ofp == NULL) ^~ asn2ff4.c:2459:3: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (ofp->sfpListsize > 0 && ofp->sortListsize < ofp->sfpListsize) { ^~ asn2ff4.c: In function ‘OrganizeSeqFeat’: asn2ff4.c:2578:2: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (ajp->ignore_top) ^~ asn2ff4.c:2580:3: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ gsc.seglevels = 1; ^~~ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from asn2ff4.c:273: At top level: ../include/asnprt.h:61:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/asnprt.h:60:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/asnprt.h:59:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^~~ ../include/asnprt.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF asn2ff5.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/asn2ffg.h:200, from ../include/asn2ffp.h:372, from asn2ff5.c:177: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~~~~~~~ asn2ff5.c: At top level: asn2ff5.c:188:26: warning: ‘GetSubmitterName’ declared ‘static’ but never defined [-Wunused-function] static CharPtr /*UNUSED*/GetSubmitterName PROTO ((Uint1 format, ValNodePtr pub)); ^~~~~~~~~~~~~~~~ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from asn2ff5.c:177: ../include/asnprt.h:61:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/asnprt.h:60:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/asnprt.h:59:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^~~ ../include/asnprt.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^~~~~~~~~~~ asn2ff5.c: In function ‘FlatJournal’: 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:1162:31: warning: ‘afp’ may be used uninitialized in this function [-Wmaybe-uninitialized] temp = StringMove(temp,afp -> street); ~~~~^~~~~~~~~ asn2ff5.c:1051:11: note: ‘afp’ was declared here AffilPtr afp; ^~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF asn2ff6.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/asn2ff6.h:134, from asn2ff6.c:347: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘FlatOrganelle’: asn2ff6.c:1483:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! retval ) ^~ asn2ff6.c:1486:7: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ break; ^~~~~ 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; ^~~~ At top level: asn2ff6.c:2883:13: warning: ‘ValidateOtherAccession’ defined but not used [-Wunused-function] static Int2 ValidateOtherAccession(CharPtr new_buf, CharPtr orig_buf) ^~~~~~~~~~~~~~~~~~~~~~ In file included from ../include/asn2ff6.h:142:0, from asn2ff6.c:347: ../include/asnprt.h:61:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/asnprt.h:60:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/asnprt.h:59:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^~~ ../include/asnprt.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF asn2gnb1.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from asn2gnb1.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘s_LocusGetBaseName’: asn2gnb1.c:2240:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ asn2gnb1.c:2242:7: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ newLength = segNameLen - deleteChars; ^~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF asn2gnb2.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from asn2gnb2.c:42: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF asn2gnb3.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from asn2gnb3.c:42: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF asn2gnb4.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from asn2gnb4.c:42: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF asn2gnb5.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from asn2gnb5.c:42: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF asn2gnb6.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from asn2gnb6.c:42: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ asn2gnb6.c: In function ‘FlatLocElement’: asn2gnb6.c:2386:27: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses] if (sintp->to > 0 && ~~~~~~~~~~~~~~^~ (sintp->to != sintp->from || ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sintp->if_from != NULL || ~~~~~~~~~~~~~~~~~~~~~~~~~ sintp->if_to != NULL) || ~~~~~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ftusrstr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ftusrstr.c:34: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF gbftglob.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF gbparint.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/parsegb.h:57, from gbparint.c:99: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF utilpub.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objmgr.h:51, from utilpub.c:13: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ffprint.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/asn2ffg.h:200, from ../include/asn2ffp.h:372, from ffprint.c:127: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ ffprint.c: In function ‘FFBSPrint’: ffprint.c:347:19: warning: unused variable ‘byte_sp’ [-Wunused-variable] ByteStorePtr byte_sp = NULL; ^~~~~~~ At top level: ffprint.c:420:16: warning: ‘ff_print_insert’ defined but not used [-Wunused-function] static CharPtr ff_print_insert(CharPtr str, CharPtr ins) ^~~~~~~~~~~~~~~ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from ffprint.c:127: ../include/asnprt.h:61:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/asnprt.h:60:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/asnprt.h:59:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^~~ ../include/asnprt.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF wprint.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from wprint.c:46: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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]; ^~~~ At top level: wprint.c:1692:34: warning: ‘temp’ defined but not used [-Wunused-variable] wprint.c:79:13: warning: ‘link_gdb_map’ defined but not used [-Wunused-variable] static Char link_gdb_map[MAX_WWWBUF]; ^~~~~~~~~~~~ wprint.c:77:13: warning: ‘link_pir’ defined but not used [-Wunused-variable] static Char link_pir[MAX_WWWBUF]; ^~~~~~~~ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from wprint.c:51: ../include/asnprt.h:61:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/asnprt.h:60:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/asnprt.h:59:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^~~ ../include/asnprt.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^~~~~~~~~~~ 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; ^~~~ In file included from ../include/ncbi.h:62:0, from wprint.c:46: wprint.c: In function ‘www_xref_button’: ../include/ncbistr.h:331:19: warning: ‘prefix’ may be used uninitialized in this function [-Wmaybe-uninitialized] #define StringLen Nlm_StringLen ^~~~~~~~~~~~~ wprint.c:1398:19: 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:1398:13: 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF satutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/satutil.h:12, from satutil.c:87: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ satutil.c: In function ‘CopyFeatureFromAlign’: satutil.c:1011:10: warning: variable ‘check_gap’ set but not used [-Wunused-but-set-variable] Boolean check_gap; ^~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF seqmgr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/explore.h:49, from seqmgr.c:55: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘GetUniGeneIDForSeqId’: seqmgr.c:3676:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(StringCmp(db_tag->db, "BSNR") == 0) ^~ seqmgr.c:3678:9: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if(StringCmp(db_tag->db, "HUMGEN") == 0) ^~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objmgr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objmgr.h:51, from objmgr.c:51: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ objmgr.c: In function ‘ObjMgrReapOne’: objmgr.c:2727:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (omp->reaping) /* protect against recursion caused by ObjMgrSendMsg */ ^~ objmgr.c:2730:9: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ lowest = UINT4_MAX; ^~~~~~ objmgr.c: In function ‘ObjMgrDeSelectStructFunc’: objmgr.c:3767:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (next != NULL) ^~ objmgr.c:3770:9: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ ObjMgrSendDeSelMsg (omp, ssp->entityID, ssp->itemID, ssp->itemtype, ssp->regiontype, ssp->region); ^~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF gather.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/gather.h:166, from gather.c:44: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:1560:40: warning: ‘newid’ may be used uninitialized in this function [-Wmaybe-uninitialized] gcp->new_loc = SeqLocReMap(newid, slp, head, offset, rev); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gather.c:1495:17: warning: ‘numcheck’ may be used uninitialized in this function [-Wmaybe-uninitialized] for (j = 0; ((j < numcheck) && (! takeit) && (!stop_now)); j++) ^~~ 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:1560:40: warning: ‘offset’ may be used uninitialized in this function [-Wmaybe-uninitialized] gcp->new_loc = SeqLocReMap(newid, slp, head, offset, rev); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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:2278:11: warning: ‘h_stop’ may be used uninitialized in this function [-Wmaybe-uninitialized] if(!(h_stop < m_start || h_start > m_stop)) /*it is within the range*/ ^ gather.c:2284:12: warning: ‘h_start’ may be used uninitialized in this function [-Wmaybe-uninitialized] if(!(h_stop < m_start || h_start > m_stop)) /*it is within the range*/ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gather.c:2219:15: warning: ‘master_loc’ may be used uninitialized in this function [-Wmaybe-uninitialized] SeqLocPtr master_loc, m_loc; ^~~~~~~~~~ gather.c:2218:10: warning: ‘mag_val’ may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 mag_val; /*the magnification value */ ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF accmmdbs.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/accentr.h:125, from accmmdbs.c:120: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF acccn3ds.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/accentr.h:125, from acccn3ds.c:62: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF lsqfetch.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objmgr.h:51, from ../include/seqmgr.h:48, from ../include/lsqfetch.h:110, from lsqfetch.c:44: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF findrepl.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from findrepl.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF codon.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/codon.h:61, from codon.c:2: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF jzcoll.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/maputil.h:113, from ../include/jzcoll.h:123, from jzcoll.c:54: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘collseqfunc’: jzcoll.c:3768:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(omtp->labelfunc !=NULL) ^~ jzcoll.c:3770:7: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ fnp->landmark = check_feature_for_landmark(chp->thislabel, chp->gdata, sfp, gcp, chp->priority); ^~~ 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; ^~~ At top level: 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:1654:16: warning: ‘collect_sequence_label’ defined but not used [-Wunused-function] static Boolean collect_sequence_label(Uint1 format) ^~~~~~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF jzmisc.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/jzmisc.h:86, from jzmisc.c:23: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF maputil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/maputil.h:113, from maputil.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF mconsist.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/mconsist.h:4, from mconsist.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF macroapi.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from macroapi.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~~ At top level: macroapi.c:35102:16: warning: ‘IsFieldTypeProteinDesc’ defined but not used [-Wunused-function] static Boolean IsFieldTypeProteinDesc (FieldTypePtr ft) ^~~~~~~~~~~~~~~~~~~~~~ macroapi.c:26150:13: warning: ‘GetDescriptorTypeFromDescriptorChoice’ defined but not used [-Wunused-function] static Int4 GetDescriptorTypeFromDescriptorChoice (Uint1 descriptor_choice) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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:15632:13: warning: ‘InitBatchExtraForAECRActionAndObjectList’ defined but not used [-Wunused-function] static void InitBatchExtraForAECRActionAndObjectList (BatchExtraPtr batch_extra, AECRActionPtr action, ValNodePtr object_list) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ macroapi.c:10224:16: warning: ‘HasMultiplePrimerSets’ defined but not used [-Wunused-function] static Boolean HasMultiplePrimerSets (CharPtr value) ^~~~~~~~~~~~~~~~~~~~~ macroapi.c:5435:16: warning: ‘DoesLocationMatchConstraint’ defined but not used [-Wunused-function] static Boolean DoesLocationMatchConstraint (SeqLocPtr slp, LocationConstraintPtr lcp) ^~~~~~~~~~~~~~~~~~~~~~~~~~~ macroapi.c:4543:13: warning: ‘TestAdvancedStringMatch’ defined but not used [-Wunused-function] static void TestAdvancedStringMatch (void) ^~~~~~~~~~~~~~~~~~~~~~~ macroapi.c:2760:13: warning: ‘OriginFromOriginName’ defined but not used [-Wunused-function] static Int4 OriginFromOriginName (CharPtr origin_name) ^~~~~~~~~~~~~~~~~~~~ macroapi.c:1189:16: warning: ‘IsObjectAppropriateForFieldPair’ defined but not used [-Wunused-function] static Boolean IsObjectAppropriateForFieldPair (Uint1 choice, Pointer data, FieldPairTypePtr fieldpair) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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 ‘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:11184:25: warning: ‘subfield’ may be used uninitialized in this function [-Wmaybe-uninitialized] tmp = GetThreeFieldSubfield (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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF salpedit.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from salpedit.c:2: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~ At top level: 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) ^~~~~~~~~~~~~~~~~~~~~ salpedit.c:4073:17: warning: ‘get_best_id’ defined but not used [-Wunused-function] static SeqIdPtr get_best_id(BioseqPtr bsp) ^~~~~~~~~~~ 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:4016:18: warning: ‘dup_mul_locs’ defined but not used [-Wunused-function] static SeqLocPtr dup_mul_locs(SeqLocPtr slp) ^~~~~~~~~~~~ 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:3937:13: warning: ‘reverse_seqloc’ defined but not used [-Wunused-function] static void reverse_seqloc (SeqLocPtr s_loc) ^~~~~~~~~~~~~~ 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:3836:13: warning: ‘get_align_list_len’ defined but not used [-Wunused-function] static Int4 get_align_list_len(SeqAlignPtr align) ^~~~~~~~~~~~~~~~~~ salpedit.c:2939:20: warning: ‘open_annot’ defined but not used [-Wunused-function] static SeqAnnotPtr open_annot(CharPtr f_name) ^~~~~~~~~~ salpedit.c:2835:13: warning: ‘SeqAnnotWrite’ defined but not used [-Wunused-function] static void SeqAnnotWrite(SeqAlignPtr align) ^~~~~~~~~~~~~ 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: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:1605:16: warning: ‘is_overlap’ defined but not used [-Wunused-function] static Boolean is_overlap(BoolPtr status, Int4 from, Int4 len) ^~~~~~~~~~ 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: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: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: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: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: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:254:16: warning: ‘is_gap_segment’ defined but not used [-Wunused-function] static Boolean is_gap_segment(Int4Ptr c_starts, Int2 dim) ^~~~~~~~~~~~~~ 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) ^~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF salpstat.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from salpstat.c:34: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:172:20: 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:363:33: warning: ‘spp_1’ may be used uninitialized in this function [-Wmaybe-uninitialized] res_1 = SeqPortGetResidue(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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF salpacc.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/salpacc.h:33, from salpacc.c:40: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF salprop.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/salsa.h:48, from ../include/salprop.h:46, from salprop.c:42: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ salprop.c: In function ‘CopySeqLocFromSeqAlign’: salprop.c:398:13: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ salprop.c:401:16: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ if(crp != NULL) /*for coding region features*/ ^~ 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 ../include/sqnutils.h:51:0, from salprop.c:46: salprop.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 salprop.c:42:0: ../include/salprop.h:50:16: warning: ‘GBFeat’ defined but not used [-Wunused-variable] static CharPtr GBFeat[number_GBFeat] = { ^~~~~~ 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:737:12: warning: ‘ppp.p3’ may be used uninitialized in this function [-Wmaybe-uninitialized] SetSeqLocPartial (sfp->location, afp->noLeft, afp->noRight); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ salprop.c:679:17: note: ‘ppp.p3’ was declared here ParTials ppp; ^~~ salprop.c:861:33: warning: ‘entityID’ may be used uninitialized in this function [-Wmaybe-uninitialized] if ((val2=is_id_unique (entityID, SeqLocId(sfp->product)))) ^ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF salsap.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/salsa.h:48, from ../include/salsap.h:57, from salsap.c:44: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:3631:13: warning: ‘FindSeqAlignCallback’ defined but not used [-Wunused-function] static void FindSeqAlignCallback (SeqEntryPtr sep, Pointer mydata, ^~~~~~~~~~~~~~~~~~~~ salsap.c:2157:16: warning: ‘AreDenseSegSegmentsValid’ defined but not used [-Wunused-function] static Boolean AreDenseSegSegmentsValid (DenseSegPtr dsp, Int4 start, Int4 num) ^~~~~~~~~~~~~~~~~~~~~~~~ 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; j>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF salstruc.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/salsa.h:48, from ../include/salstruc.h:56, from salstruc.c:33: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ salstruc.c: In function ‘data_collect_arrange’: salstruc.c:1338:22: warning: variable ‘maxscroll’ set but not used [-Wunused-but-set-variable] Int4 maxscroll; ^~~~~~~~~ salstruc.c: In function ‘ShowAlignmentText’: salstruc.c:2203:29: warning: variable ‘itemtype’ set but not used [-Wunused-but-set-variable] Uint2 entityID, itemtype; ^~~~~~~~ In file included from ../include/sqnutils.h:51:0, from salstruc.c:40: salstruc.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 salstruc.c:41: ../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)); ^~~~~~~~~~~~~~~ salstruc.c: In function ‘prot_to_rputprot’: salstruc.c:707:11: warning: ‘j’ may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 j, k; ^ salstruc.c: In function ‘data_collect_arrange’: salstruc.c:967:29: warning: ‘entityID’ may be used uninitialized in this function [-Wmaybe-uninitialized] drawfeat = is_feature_to_buffer(vnpfeat, itemID, entityID, fromseq, length, salp, adp->input_format, adp->sqloc_list); ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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:2258:16: warning: ‘bspsip’ may be used uninitialized in this function [-Wmaybe-uninitialized] print_line (fout, tdp->label, bufstr, leftmargin, adp->columnpcell, bspsip, html_option, FALSE); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF salutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from salutil.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF udvseq.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/explore.h:49, from ../include/udvseq.h:100, from udvseq.c:112: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:990:9: warning: ‘PosFeat’ may be used uninitialized in this function [-Wmaybe-uninitialized] (Uint2)PosFeat-decal,(Uint2)0)); ^~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blocks.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/blocks.h:88, from blocks.c:93: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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/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:2912:13: warning: ‘DDV_PrintFastaGappedSequence’ defined but not used [-Wunused-function] static void DDV_PrintFastaGappedSequence(CharPtr szSequence,FILE *fp) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ pgppop.c:2865:13: warning: ‘DDV_GetGappedSequence’ defined but not used [-Wunused-function] static void DDV_GetGappedSequence(SegmentPtr segp,CharPtr szSequence, ^~~~~~~~~~~~~~~~~~~~~ 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: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, ^~~~~~~~~~~~~~~~~~~~~ In file included from ../include/asn2ff6.h:142:0, from pgppop.c:300: ../include/asnprt.h:61:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/asnprt.h:60:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/asnprt.h:59:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^~~ ../include/asnprt.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF samutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbistd.h:103, from ../include/samutil.h:230, from samutil.c:280: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ samutil.c: In function ‘SAM_AlignIdComp’: samutil.c:1034:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if ((a == NULL) || (b == NULL)) ^~ samutil.c:1037:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ choice = a->choice; ^~~~~~ samutil.c: In function ‘SAM_AlignIdDup’: samutil.c:1090:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (oldid == NULL) ^~ samutil.c:1093:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ newid = ValNodeNew(NULL); ^~~~~ 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:2914:11: warning: ‘last_vnp’ may be used uninitialized in this function [-Wmaybe-uninitialized] else if ((ptxtList == tail) && (!Before)) { ^ 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] msap = (MsaTxtDispPtr) vnp->data.ptrvalue; ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ddvcolor.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ddvcolor.c:160: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF viewmgr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/viewmgr.h:111, from viewmgr.c:165: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ddvcreate.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ddvcreate.h:142, from ddvcreate.c:245: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:2362:16: warning: ‘DDV_DisplayBlastSAP’ defined but not used [-Wunused-function] static Boolean DDV_DisplayBlastSAP(SeqAlignPtr sap, ValNodePtr mask, ^~~~~~~~~~~~~~~~~~~ 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: 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, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ LineSize,hFile,byteSpp,matrix,gclr,NULL); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF jsavlt.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/jsavlt.h:4, from jsavlt.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF needleman.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/needleman.h:40, from needleman.c:78: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF txalign.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/maputil.h:113, from ../include/jzcoll.h:123, from ../include/txalign.h:228, from txalign.c:559: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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: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:6655:33: warning: ‘st’ defined but not used [-Wunused-variable] tmp[10] = " ", *st; ^~ txalign.c:6581:9: warning: ‘tmp’ defined but not used [-Wunused-variable] tmp[10] = " ", *st; ^~~ txalign.c:6581:33: warning: ‘st’ defined but not used [-Wunused-variable] tmp[10] = " ", *st; ^~ txalign.c:3433:1: warning: ‘get_seq_id’ defined but not used [-Wunused-function] get_seq_id(SeqAlignPtr sap, Int2 index) ^~~~~~~~~~ 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:630:16: warning: ‘getNameInitials’ defined but not used [-Wunused-function] static CharPtr getNameInitials(CharPtr name){ ^~~~~~~~~~~~~~~ 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.10’: txalign.c:6049:16: warning: ‘number’ may be used uninitialized in this function [-Wmaybe-uninitialized] number = number/10; ~~~~~~~^~~~~~~~~~~ txalign.c:6078:16: note: ‘number’ was declared here static Boolean OOFShowSingleAlignment(SeqAlignPtr sap, ValNodePtr mask, ^~~~~~~~~~~~~~~~~~~~~~ txalign.c:6049:16: warning: ‘number’ may be used uninitialized in this function [-Wmaybe-uninitialized] number = number/10; ~~~~~~~^~~~~~~~~~~ txalign.c:6078:16: note: ‘number’ was declared here static Boolean OOFShowSingleAlignment(SeqAlignPtr sap, ValNodePtr mask, ^~~~~~~~~~~~~~~~~~~~~~ txalign.c:6049:16: warning: ‘number’ may be used uninitialized in this function [-Wmaybe-uninitialized] number = number/10; ~~~~~~~^~~~~~~~~~~ txalign.c:6078:16: note: ‘number’ was declared here static Boolean OOFShowSingleAlignment(SeqAlignPtr sap, ValNodePtr mask, ^~~~~~~~~~~~~~~~~~~~~~ txalign.c:6049:16: warning: ‘number’ may be used uninitialized in this function [-Wmaybe-uninitialized] number = number/10; ~~~~~~~^~~~~~~~~~~ txalign.c:6078:16: note: ‘number’ was declared here static Boolean OOFShowSingleAlignment(SeqAlignPtr sap, ValNodePtr mask, ^~~~~~~~~~~~~~~~~~~~~~ txalign.c:6237:12: warning: ‘dna_line_start’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (dna_line_start == 0) ^ txalign.c:6240:11: warning: ‘pro_line_start’ may be used uninitialized in this function [-Wmaybe-uninitialized] if(pro_line_start == 0) ^ 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:2479:5: warning: ‘m_spp’ may be used uninitialized in this function [-Wmaybe-uninitialized] SeqPortFree(m_spp); ^~~~~~~~~~~~~~~~~~ txalign.c:2394:16: note: ‘m_spp’ was declared here SeqPortPtr m_spp, t_spp; ^~~~~ txalign.c: In function ‘ShowAlignNodeText2Ex.isra.11’: 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF fdlobj.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from fdlobj.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF alignmgr2.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/alignmgr2.h:110, from alignmgr2.c:232: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:3540:13: warning: ‘AlnMgr2AddInNewSA’ defined but not used [-Wunused-function] static void AlnMgr2AddInNewSA(SeqAlignPtr parent, SeqAlignPtr sap) ^~~~~~~~~~~~~~~~~ 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:2123:13: warning: ‘AlnMgr2SortVerticesByNumEdges’ defined but not used [-Wunused-function] static void AlnMgr2SortVerticesByNumEdges(AMVertexPtr PNTR vertexarray, Int4 numvertices) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF alnread.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF aceread.c aceread.c:3308:12: warning: ‘s_GetUngappedPosition’ defined but not used [-Wunused-function] static int s_GetUngappedPosition (int gapped_pos, char *seq) ^~~~~~~~~~~~~~~~~~~~~ aceread.c:276:13: warning: ‘AdjustGapInfoFor3Trim’ defined but not used [-Wunused-function] static void AdjustGapInfoFor3Trim (TGapInfoPtr gap_info, int new_len) ^~~~~~~~~~~~~~~~~~~~~ aceread.c:247:13: warning: ‘AdjustGapInfoFor5Trim’ defined but not used [-Wunused-function] static void AdjustGapInfoFor5Trim (TGapInfoPtr gap_info, int trim) ^~~~~~~~~~~~~~~~~~~~~ aceread.c:134:12: warning: ‘s_IsGapChar’ defined but not used [-Wunused-function] static int s_IsGapChar (char ch, char *gap_chars) ^~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF cdentrez.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/accentr.h:125, from cdentrez.c:162: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ cdentrez.c:283:23: warning: ‘CdEntMlSumGet’ declared ‘static’ but never defined [-Wunused-function] static DocSumPtr NEAR CdEntMlSumGet PROTO((Int4 uid)); ^~~~~~~~~~~~~ cdentrez.c:310:23: warning: ‘CdEntSeqSumGet’ declared ‘static’ but never defined [-Wunused-function] static DocSumPtr NEAR CdEntSeqSumGet PROTO((Int4 uid, DocType type)); ^~~~~~~~~~~~~~ cdentrez.c:2935:23: warning: ‘MedSumAsnRead’ defined but not used [-Wunused-function] static DocSumPtr NEAR MedSumAsnRead (AsnIoPtr aip, DocUid uid) ^~~~~~~~~~~~~ cdentrez.c:1616:26: warning: ‘FreePostingList’ defined but not used [-Wunused-function] static ByteStorePtr NEAR FreePostingList (ByteStorePtr lst) ^~~~~~~~~~~~~~~ cdentrez.c:307:20: warning: ‘BIOSEQ_id_E’ defined but not used [-Wunused-variable] static AsnTypePtr BIOSEQ_id_E = NULL; ^~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF cdromlib.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objacces.h:64, from ../include/cdromlib.h:71, from cdromlib.c:73: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF cdnewlib.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objacces.h:64, from ../include/cdromlib.h:71, from cdnewlib.c:208: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~~ At top level: cdnewlib.c:3605:13: warning: ‘Cache_Purge’ defined but not used [-Wunused-function] static void Cache_Purge (Cache *cache) ^~~~~~~~~~~ cdnewlib.c:3592:14: warning: ‘Cache_Peek’ defined but not used [-Wunused-function] static void* Cache_Peek (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:3506:12: warning: ‘Cache_Delete’ defined but not used [-Wunused-function] static int Cache_Delete (Cache *cache, long id) ^~~~~~~~~~~~ cdnewlib.c:638:18: warning: ‘_div’ defined but not used [-Wunused-variable] static DivInfo * _div; ^~~~ cdnewlib.c:582:15: warning: ‘_empty_string’ defined but not used [-Wunused-variable] static char * _empty_string = ""; ^~~~~~~~~~~~~ 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:2362:13: warning: ‘c2’ may be used uninitialized in this function [-Wmaybe-uninitialized] int i, c1, c2; ^~ cdnewlib.c:2375:5: warning: ‘c1’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (c1 == '/') ^ In file included from /usr/include/string.h:635:0, 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/s390x-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/s390x-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/s390x-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:2168:27: warning: ‘term’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (d==0 && len == (int)strlen(term)) ^~~~~~~~~~~~ cdnewlib.c:2168:6: warning: ‘d’ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF casn.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from casn.c:84: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF cdconfig.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from cdconfig.c:75: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objentr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/cdrom.h:9, from objentr.c:102: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ objentr.c: In function ‘CdRomAsnLoad’: objentr.c:170:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (loaded) ^~ objentr.c:172:9: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ loaded = TRUE; ^~~~~~ 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; ^~~~~~~ At top level: objentr.c:806:23: warning: ‘EntrezDivInfo_Destruct’ defined but not used [-Wunused-function] static EntrezDivInfo* EntrezDivInfo_Destruct (EntrezDivInfo *div) ^~~~~~~~~~~~~~~~~~~~~~ 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: 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:856:16: 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF vibbutns.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibbutns.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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.isra.1’: 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF vibextra.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibextra.c:87: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF vibfiles.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibfiles.c:54: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF vibforms.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from vibforms.c:44: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF vibgroup.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibgroup.c:84: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF viblists.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from viblists.c:161: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF vibmenus.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibmenus.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF vibprmpt.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibprmpt.c:78: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF vibsbars.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibsbars.c:128: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF vibslate.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibslate.c:53: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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_ResetPanel’: vibslate.c:1390:5: warning: ‘pdata.reset’ may be used uninitialized in this function [-Wmaybe-uninitialized] rst ((Nlm_PaneL) p); ^~~~~~~~~~~~~~~~~~~ vibslate.c: In function ‘Nlm_SlateDrawCallback’: vibslate.c:2215:10: warning: ‘pdata.click’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:2202:20: note: ‘pdata.click’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2215:31: warning: ‘pdata.drag’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:2202:20: note: ‘pdata.drag’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2223:11: warning: ‘pdata.draw’ may be used uninitialized in this function [-Wmaybe-uninitialized] drw (p); ^~~~~~~ vibslate.c:560:18: note: ‘pdata.draw’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2216:55: warning: ‘pdata.reset’ may be used uninitialized in this function [-Wmaybe-uninitialized] pdata.release != NULL || pdata.draw != NULL || pdata.reset != NULL) { ^ vibslate.c:2202:20: note: ‘pdata.reset’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2216:33: warning: ‘pdata.draw’ may be used uninitialized in this function [-Wmaybe-uninitialized] pdata.release != NULL || pdata.draw != NULL || pdata.reset != NULL) { ^ vibslate.c:2202:20: note: ‘pdata.draw’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2215:75: warning: ‘pdata.release’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:2202:20: note: ‘pdata.release’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2215:53: warning: ‘pdata.hold’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:2202:20: note: ‘pdata.hold’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c: In function ‘Nlm_ResetSlate’: vibslate.c:1354:7: warning: ‘pdata.reset’ may be used uninitialized in this function [-Wmaybe-uninitialized] rst (p); ^~~~~~~ vibslate.c:1347:29: warning: ‘pdata.draw’ may be used uninitialized in this function [-Wmaybe-uninitialized] pdata.release != NULL || pdata.draw != NULL || pdata.reset != NULL) { ^ vibslate.c:1346:71: warning: ‘pdata.release’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:1346:49: warning: ‘pdata.hold’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:1346:27: warning: ‘pdata.drag’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:1346:6: warning: ‘pdata.click’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c: In function ‘Nlm_RemoveSlate’: vibslate.c:1454:7: warning: ‘pdata.reset’ may be used uninitialized in this function [-Wmaybe-uninitialized] rst (p); ^~~~~~~ vibslate.c:1450:29: warning: ‘pdata.draw’ may be used uninitialized in this function [-Wmaybe-uninitialized] pdata.release != NULL || pdata.draw != NULL || pdata.reset != NULL) { ^ vibslate.c:1449:71: warning: ‘pdata.release’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:1449:49: warning: ‘pdata.hold’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:1449:27: warning: ‘pdata.drag’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:1449:6: warning: ‘pdata.click’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c: In function ‘Nlm_SlateClickCallback’: vibslate.c:2048:10: warning: ‘pdata.click’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:2031:20: note: ‘pdata.click’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2048:31: warning: ‘pdata.drag’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:2031:20: note: ‘pdata.drag’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2053:12: warning: ‘pdata.click’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (clk != NULL && Nlm_GetEnabled ((Nlm_GraphiC) p) ^ vibslate.c:524:18: note: ‘pdata.click’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2049:55: warning: ‘pdata.reset’ may be used uninitialized in this function [-Wmaybe-uninitialized] pdata.release != NULL || pdata.draw != NULL || pdata.reset != NULL) { ^ vibslate.c:2031:20: note: ‘pdata.reset’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2049:33: warning: ‘pdata.draw’ may be used uninitialized in this function [-Wmaybe-uninitialized] pdata.release != NULL || pdata.draw != NULL || pdata.reset != NULL) { ^ vibslate.c:2031:20: note: ‘pdata.draw’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2048:75: warning: ‘pdata.release’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:2031:20: note: ‘pdata.release’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2048:53: warning: ‘pdata.hold’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:2031:20: note: ‘pdata.hold’ was declared here Nlm_PanelData pdata; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF vibtexts.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibtexts.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF vibutils.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from vibutils.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF vibwndws.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibwndws.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF vibmain.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibmain.c:40: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ vibmain.c:121:1: warning: return type defaults to ‘int’ [-Wimplicit-int] main (int argc, char *argv[]) ^~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbidraw.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ncbidraw.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ ncbidraw.c: In function ‘s_DoQuadrant’: ncbidraw.c:5614:12: warning: ‘rr.right’ may be used uninitialized in this function [-Wmaybe-uninitialized] Nlm_RecT rr; ^~ ncbidraw.c:5614:12: warning: ‘rr.left’ may be used uninitialized in this function [-Wmaybe-uninitialized] ncbidraw.c:5614:12: warning: ‘rr.bottom’ may be used uninitialized in this function [-Wmaybe-uninitialized] ncbidraw.c:5614:12: warning: ‘rr.top’ may be used uninitialized in this function [-Wmaybe-uninitialized] ncbidraw.c: In function ‘Nlm_CleanUpDrawingTools’: ncbidraw.c:7541:5: warning: ‘fdata.handle’ may be used uninitialized in this function [-Wmaybe-uninitialized] XFreeFont (Nlm_currentXDisplay, fdata.handle); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF drawing.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ncbidraw.h:47, from drawing.c:128: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF mapping.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ncbidraw.h:47, from mapping.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF picture.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ncbidraw.h:47, from picture.c:100: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF viewer.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from viewer.c:120: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF document.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from document.c:44: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF table.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/panels.h:68, from table.c:62: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF palette.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/panels.h:68, from palette.c:62: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF diagnost.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from diagnost.c:44: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF image.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from image.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF pictur3d.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/pictur3d.h:49, from ../include/ppict3d.h:49, from pictur3d.c:47: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ pictur3d.c: In function ‘Nlm_DeleteFromSeg’: pictur3d.c:114:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else seg->first = b->next; ^~~~ pictur3d.c:115:3: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ if ( seg->last == b ) seg->last = bprev; ^~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF prim3d1.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from prim3d1.c:46: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF prim3d2.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from prim3d2.c:65: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF prim3d3.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from prim3d3.c:46: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF prim3d4.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from prim3d4.c:46: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF prim3d5.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from prim3d5.c:66: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF viewer3d.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF vibmouse.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from vibmouse.c:67: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF netscape.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from netscape.c:62: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF imagelst.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/imagelst.h:52, from imagelst.c:61: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF treeview.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/treemgr.h:67, from treeview.c:91: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF odlbox.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from odlbox.c:50: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibbutns.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibbutns.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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.isra.1’: 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibextra.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibextra.c:87: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibfiles.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibfiles.c:54: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv vibfiles.o vibfiles.glo mv vibfiles.tmp vibfiles.o mv vibforms.o vibforms.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibforms.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from vibforms.c:44: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv vibforms.o vibforms.glo mv vibforms.tmp vibforms.o mv vibgroup.o vibgroup.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibgroup.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibgroup.c:84: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv vibgroup.o vibgroup.glo mv vibgroup.tmp vibgroup.o mv viblists.o viblists.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL viblists.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from viblists.c:161: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibmenus.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibmenus.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibprmpt.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibprmpt.c:78: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv vibprmpt.o vibprmpt.glo mv vibprmpt.tmp vibprmpt.o mv vibsbars.o vibsbars.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibsbars.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibsbars.c:128: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv vibsbars.o vibsbars.glo mv vibsbars.tmp vibsbars.o mv vibslate.o vibslate.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibslate.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibslate.c:53: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~~~~~~~~ vibslate.c: In function ‘Nlm_ResetPanel’: vibslate.c:1390:5: warning: ‘pdata.reset’ may be used uninitialized in this function [-Wmaybe-uninitialized] rst ((Nlm_PaneL) p); ^~~~~~~~~~~~~~~~~~~ vibslate.c: In function ‘Nlm_SlateDrawCallback’: vibslate.c:2215:10: warning: ‘pdata.click’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:2202:20: note: ‘pdata.click’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2215:31: warning: ‘pdata.drag’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:2202:20: note: ‘pdata.drag’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2223:11: warning: ‘pdata.draw’ may be used uninitialized in this function [-Wmaybe-uninitialized] drw (p); ^~~~~~~ vibslate.c:560:18: note: ‘pdata.draw’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2216:55: warning: ‘pdata.reset’ may be used uninitialized in this function [-Wmaybe-uninitialized] pdata.release != NULL || pdata.draw != NULL || pdata.reset != NULL) { ^ vibslate.c:2202:20: note: ‘pdata.reset’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2216:33: warning: ‘pdata.draw’ may be used uninitialized in this function [-Wmaybe-uninitialized] pdata.release != NULL || pdata.draw != NULL || pdata.reset != NULL) { ^ vibslate.c:2202:20: note: ‘pdata.draw’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2215:75: warning: ‘pdata.release’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:2202:20: note: ‘pdata.release’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2215:53: warning: ‘pdata.hold’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:2202:20: note: ‘pdata.hold’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c: In function ‘Nlm_ResetSlate’: vibslate.c:1354:7: warning: ‘pdata.reset’ may be used uninitialized in this function [-Wmaybe-uninitialized] rst (p); ^~~~~~~ vibslate.c:1347:29: warning: ‘pdata.draw’ may be used uninitialized in this function [-Wmaybe-uninitialized] pdata.release != NULL || pdata.draw != NULL || pdata.reset != NULL) { ^ vibslate.c:1346:71: warning: ‘pdata.release’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:1346:49: warning: ‘pdata.hold’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:1346:27: warning: ‘pdata.drag’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:1346:6: warning: ‘pdata.click’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c: In function ‘Nlm_RemoveSlate’: vibslate.c:1454:7: warning: ‘pdata.reset’ may be used uninitialized in this function [-Wmaybe-uninitialized] rst (p); ^~~~~~~ vibslate.c:1450:29: warning: ‘pdata.draw’ may be used uninitialized in this function [-Wmaybe-uninitialized] pdata.release != NULL || pdata.draw != NULL || pdata.reset != NULL) { ^ vibslate.c:1449:71: warning: ‘pdata.release’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:1449:49: warning: ‘pdata.hold’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:1449:27: warning: ‘pdata.drag’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:1449:6: warning: ‘pdata.click’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c: In function ‘Nlm_SlateClickCallback’: vibslate.c:2048:10: warning: ‘pdata.click’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:2031:20: note: ‘pdata.click’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2048:31: warning: ‘pdata.drag’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:2031:20: note: ‘pdata.drag’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2053:12: warning: ‘pdata.click’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (clk != NULL && Nlm_GetEnabled ((Nlm_GraphiC) p) ^ vibslate.c:524:18: note: ‘pdata.click’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2049:55: warning: ‘pdata.reset’ may be used uninitialized in this function [-Wmaybe-uninitialized] pdata.release != NULL || pdata.draw != NULL || pdata.reset != NULL) { ^ vibslate.c:2031:20: note: ‘pdata.reset’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2049:33: warning: ‘pdata.draw’ may be used uninitialized in this function [-Wmaybe-uninitialized] pdata.release != NULL || pdata.draw != NULL || pdata.reset != NULL) { ^ vibslate.c:2031:20: note: ‘pdata.draw’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2048:75: warning: ‘pdata.release’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:2031:20: note: ‘pdata.release’ was declared here Nlm_PanelData pdata; ^~~~~ vibslate.c:2048:53: warning: ‘pdata.hold’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (pdata.click != NULL || pdata.drag != NULL || pdata.hold != NULL || ^ vibslate.c:2031:20: note: ‘pdata.hold’ was declared here Nlm_PanelData pdata; ^~~~~ mv vibslate.o vibslate.glo mv vibslate.tmp vibslate.o mv vibtexts.o vibtexts.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibtexts.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibtexts.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibutils.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from vibutils.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibwndws.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibwndws.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibmain.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from vibmain.c:40: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL ncbidraw.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ncbidraw.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ ncbidraw.c: In function ‘s_DoQuadrant’: ncbidraw.c:5614:12: warning: ‘rr.right’ may be used uninitialized in this function [-Wmaybe-uninitialized] Nlm_RecT rr; ^~ ncbidraw.c:5614:12: warning: ‘rr.left’ may be used uninitialized in this function [-Wmaybe-uninitialized] ncbidraw.c:5614:12: warning: ‘rr.bottom’ may be used uninitialized in this function [-Wmaybe-uninitialized] ncbidraw.c:5614:12: warning: ‘rr.top’ may be used uninitialized in this function [-Wmaybe-uninitialized] ncbidraw.c: In function ‘Nlm_CleanUpDrawingTools’: ncbidraw.c:7541:5: warning: ‘fdata.handle’ may be used uninitialized in this function [-Wmaybe-uninitialized] XFreeFont (Nlm_currentXDisplay, fdata.handle); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mv ncbidraw.o ncbidraw.glo mv ncbidraw.tmp ncbidraw.o mv drawing.o drawing.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL drawing.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ncbidraw.h:47, from drawing.c:128: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv drawing.o drawing.glo mv drawing.tmp drawing.o mv mapping.o mapping.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL mapping.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ncbidraw.h:47, from mapping.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL picture.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ncbidraw.h:47, from picture.c:100: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv picture.o picture.glo mv picture.tmp picture.o mv viewer.o viewer.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL viewer.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from viewer.c:120: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv viewer.o viewer.glo mv viewer.tmp viewer.o mv document.o document.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL document.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from document.c:44: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL table.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/panels.h:68, from table.c:62: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv table.o table.glo mv table.tmp table.o mv palette.o palette.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL palette.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/panels.h:68, from palette.c:62: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv palette.o palette.glo mv palette.tmp palette.o mv diagnost.o diagnost.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL diagnost.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from diagnost.c:44: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv diagnost.o diagnost.glo mv diagnost.tmp diagnost.o mv image.o image.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL image.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from image.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL pictur3d.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/pictur3d.h:49, from ../include/ppict3d.h:49, from pictur3d.c:47: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ pictur3d.c: In function ‘Nlm_DeleteFromSeg’: pictur3d.c:114:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else seg->first = b->next; ^~~~ pictur3d.c:115:3: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ if ( seg->last == b ) seg->last = bprev; ^~ mv pictur3d.o pictur3d.glo mv pictur3d.tmp pictur3d.o mv prim3d1.o prim3d1.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL prim3d1.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from prim3d1.c:46: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv prim3d1.o prim3d1.glo mv prim3d1.tmp prim3d1.o mv prim3d2.o prim3d2.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL prim3d2.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from prim3d2.c:65: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv prim3d2.o prim3d2.glo mv prim3d2.tmp prim3d2.o mv prim3d3.o prim3d3.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL prim3d3.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from prim3d3.c:46: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv prim3d3.o prim3d3.glo mv prim3d3.tmp prim3d3.o mv prim3d4.o prim3d4.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL prim3d4.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from prim3d4.c:46: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv prim3d4.o prim3d4.glo mv prim3d4.tmp prim3d4.o mv prim3d5.o prim3d5.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL prim3d5.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from prim3d5.c:66: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv prim3d5.o prim3d5.glo mv prim3d5.tmp prim3d5.o mv viewer3d.o viewer3d.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL vibmouse.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from vibmouse.c:67: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv vibmouse.o vibmouse.glo mv vibmouse.tmp vibmouse.o mv netscape.o netscape.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL netscape.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from netscape.c:62: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL imagelst.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/imagelst.h:52, from imagelst.c:61: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv imagelst.o imagelst.glo mv imagelst.tmp imagelst.o mv treeview.o treeview.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL treeview.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/treemgr.h:67, from treeview.c:91: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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:2369:64: warning: ‘list’ may be used uninitialized in this function [-Wmaybe-uninitialized] 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL odlbox.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from odlbox.c:50: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF accentr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/accentr.h:125, from accentr.c:297: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ accentr.c: In function ‘EntrezBiostrucGet’: accentr.c:2113:17: warning: unused variable ‘retval’ [-Wunused-variable] BiostrucPtr retval = NULL; ^~~~~~ accentr.c: In function ‘EntrezGIForSeqIdFunc’: accentr.c:3283:9: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! gi) return OM_MSG_RET_OK; ^~ accentr.c:3285:5: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ sip2 = ValNodeNew(NULL); ^~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF accutils.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/accentr.h:125, from ../include/accutils.h:119, from accutils.c:149: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF drawseq.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from drawseq.c:3: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~~~~~ At top level: drawseq.c:3525:22: warning: ‘get_ith_arp’ defined but not used [-Wunused-function] static AlignRangePtr get_ith_arp(AlignRangePtr arp, Int2 i) ^~~~~~~~~~~ drawseq.c:3511:18: warning: ‘get_map_pos’ defined but not used [-Wunused-function] static MapPosPtr get_map_pos(MapLayoutPtr mlp, SeqIdPtr sip) ^~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF dotmatrx.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dotmatrx.h:47, from dotmatrx.c:32: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF fea2seg.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from fea2seg.c:74: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF fstyle.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from fstyle.c:55: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF smdlg1.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from smdlg1.c:53: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF smdlg2.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from smdlg2.c:48: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF smdlg3.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from smdlg3.c:48: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF smtools.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from smtools.c:48: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF styleman.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from styleman.c:48: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF stylemui.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from stylemui.c:48: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF glbpic.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from glbpic.c:22: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~ At top level: 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: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: 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: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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF layout.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/maputil.h:113, from ../include/jzcoll.h:123, from ../include/layout.h:3, from layout.c:2: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~ 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: 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: ‘vnp’ may be used uninitialized in this function [-Wmaybe-uninitialized] i = find_align_line_number(anp, vnp->next, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ label_align, &next, &line_status_list, m_right, maxScale); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF saldist.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/salsa.h:48, from ../include/saldist.h:48, from saldist.c:44: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ saldist.c: In function ‘AAcode’: saldist.c:1003:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (car=='A') return(1); if (car=='B') return(2); ^~ saldist.c:1003:29: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (car=='A') return(1); if (car=='B') return(2); ^~ saldist.c:1004:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (car=='C') return(3); if (car=='D') return(4); ^~ saldist.c:1004:29: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (car=='C') return(3); if (car=='D') return(4); ^~ saldist.c:1005:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (car=='E') return(5); if (car=='F') return(6); ^~ saldist.c:1005:29: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (car=='E') return(5); if (car=='F') return(6); ^~ saldist.c:1006:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (car=='G') return(7); if (car=='H') return(8); ^~ saldist.c:1006:29: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (car=='G') return(7); if (car=='H') return(8); ^~ saldist.c:1007:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (car=='I') return(9); if (car=='K') return(10); ^~ saldist.c:1007:29: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (car=='I') return(9); if (car=='K') return(10); ^~ saldist.c:1008:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (car=='L') return(11); if (car=='M') return(12); ^~ saldist.c:1008:29: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (car=='L') return(11); if (car=='M') return(12); ^~ saldist.c:1009:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (car=='N') return(13); if (car=='P') return(14); ^~ saldist.c:1009:29: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (car=='N') return(13); if (car=='P') return(14); ^~ saldist.c:1010:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (car=='Q') return(15); if (car=='R') return(16); ^~ saldist.c:1010:29: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (car=='Q') return(15); if (car=='R') return(16); ^~ saldist.c:1011:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (car=='S') return(17); if (car=='T') return(18); ^~ saldist.c:1011:29: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (car=='S') return(17); if (car=='T') return(18); ^~ saldist.c:1012:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (car=='V') return(19); if (car=='W') return(20); ^~ saldist.c:1012:29: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (car=='V') return(19); if (car=='W') return(20); ^~ saldist.c:1013:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (car=='X') return(21); if (car=='Y') return(22); ^~ saldist.c:1013:29: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (car=='X') return(21); if (car=='Y') return(22); ^~ saldist.c:1014:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (car=='Z') return(23); if (car=='U') return(24); ^~ saldist.c:1014:29: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (car=='Z') return(23); if (car=='U') return(24); ^~ 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: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:1080:24: warning: ‘FloatLomatrix’ defined but not used [-Wunused-function] static FloatLoPtr PNTR FloatLomatrix (Int2 nrows, Int2 ncol) ^~~~~~~~~~~~~ saldist.c:999:13: warning: ‘AAcode’ defined but not used [-Wunused-function] static Int2 AAcode(Char car) ^~~~~~ saldist.c:928:16: warning: ‘new_matrice’ defined but not used [-Wunused-function] static Boolean new_matrice (Int2 simmatrix, CharPtr path) ^~~~~~~~~~~ saldist.c:910:14: warning: ‘matrixlst’ defined but not used [-Wunused-variable] static Char *matrixlst [] = {"", "idmat", ^~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF saled.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/saledit.h:48, from saled.c:44: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF salfiles.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/saledit.h:48, from ../include/salfiles.h:48, from salfiles.c:44: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘FindSeqEntryForSeqIdCallback’: salfiles.c:2672:12: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (SeqIdForSameBioseq(cip->sip, sip)) ^~ salfiles.c:2674:15: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ cip->bsp = bsp; ^~~ 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:751:19: warning: ‘seqstr’ may be used uninitialized in this function [-Wmaybe-uninitialized] seqstr [lgseq] = '\0'; ^ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF salpanel.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/saledit.h:48, from salpanel.c:44: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:5055:13: warning: ‘BatchApplyFeatureDetailsMessage’ defined but not used [-Wunused-function] static void BatchApplyFeatureDetailsMessage (DialoG d, Int2 mssg) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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:113:14: warning: ‘leftOvalFillSym’ defined but not used [-Wunused-variable] static Uint1 leftOvalFillSym [] = { ^~~~~~~~~~~~~~~ salpanel.c:110:14: warning: ‘rightOvalFillSym’ defined but not used [-Wunused-variable] static Uint1 rightOvalFillSym [] = { ^~~~~~~~~~~~~~~~ salpanel.c:107:14: warning: ‘leftOvalSym’ defined but not used [-Wunused-variable] static Uint1 leftOvalSym [] = { ^~~~~~~~~~~ salpanel.c:104:14: warning: ‘rightOvalSym’ defined but not used [-Wunused-variable] static Uint1 rightOvalSym [] = { ^~~~~~~~~~~~ salpanel.c:101:14: warning: ‘downTriFillSym’ defined but not used [-Wunused-variable] static Uint1 downTriFillSym [] = { ^~~~~~~~~~~~~~ salpanel.c:98:14: warning: ‘upTriFillSym’ defined but not used [-Wunused-variable] static Uint1 upTriFillSym [] = { ^~~~~~~~~~~~ salpanel.c:89:14: warning: ‘ovalFillSym’ defined but not used [-Wunused-variable] static Uint1 ovalFillSym [] = { ^~~~~~~~~~~ salpanel.c:86:14: warning: ‘diamondFillSym’ defined but not used [-Wunused-variable] static Uint1 diamondFillSym [] = { ^~~~~~~~~~~~~~ salpanel.c:80:14: warning: ‘downTriSym’ defined but not used [-Wunused-variable] static Uint1 downTriSym [] = { ^~~~~~~~~~ salpanel.c:77:14: warning: ‘upTriSym’ defined but not used [-Wunused-variable] static Uint1 upTriSym [] = { ^~~~~~~~ salpanel.c:68:14: warning: ‘ovalSym’ defined but not used [-Wunused-variable] static Uint1 ovalSym [] = { ^~~~~~~ salpanel.c:65:14: warning: ‘diamondSym’ defined but not used [-Wunused-variable] static Uint1 diamondSym [] = { ^~~~~~~~~~ salpanel.c: In function ‘draw_feat.isra.16.part.17’: 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF salparam.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/salsa.h:48, from ../include/salparam.h:48, from salparam.c:44: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF salsa.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/salsa.h:48, from salsa.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ../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:6021:13: warning: ‘SWPrintFarpointerAln’ defined but not used [-Wunused-function] static void SWPrintFarpointerAln(SeqAlignPtr sap, FILE *fp) ^~~~~~~~~~~~~~~~~~~~ salsa.c:4884:16: warning: ‘DeltaLitOnly’ defined but not used [-Wunused-function] static Boolean DeltaLitOnly (BioseqPtr bsp) ^~~~~~~~~~~~ salsa.c:2360:13: warning: ‘MakeCdRgnrProc’ defined but not used [-Wunused-function] static void MakeCdRgnrProc (IteM i) { ^~~~~~~~~~~~~~ salsa.c:2356:13: warning: ‘MakeCdRgnProc’ defined but not used [-Wunused-function] static void MakeCdRgnProc (IteM i) { ^~~~~~~~~~~~~ salsa.c:1760:13: warning: ‘AcceptCloseWindowButton’ defined but not used [-Wunused-function] static void AcceptCloseWindowButton (ButtoN b) ^~~~~~~~~~~~~~~~~~~~~~~ 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/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.12’: 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF seqfltr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objres.h:73, from seqfltr.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF seqgraph.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objseq.h:48, from seqgraph.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘CutOffProc’: seqgraph.c:911:11: warning: ‘fval’ may be used uninitialized in this function [-Wmaybe-uninitialized] val = fval/2; ~~~~^~~~~~~~ seqgraph.c:841:14: note: ‘fval’ was declared here FloatHi fval; ^~~~ seqgraph.c:1050:20: warning: ‘eplist’ may be used uninitialized in this function [-Wmaybe-uninitialized] eplist->next = NULL; ^ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF seqgrphx.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objseq.h:48, from seqgrphx.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF seqmtrx.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objres.h:73, from seqmtrx.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF seqpcc.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objres.h:73, from seqpcc.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF seqanal.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objseq.h:48, from seqanal.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF aacomp.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objres.h:73, from aacomp.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF seqscrl.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objseq.h:48, from ../include/seqscrl.h:4, from seqscrl.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF valdlg.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/vibforms.h:46, from valdlg.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF vsm.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/vsmpriv.h:48, from vsm.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ vsm.c: In function ‘VSMDrawAbout’: vsm.c:1462:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (vsmp->title != NULL) ^~ vsm.c:1464:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (vsmp->aboutinfo != NULL) ^~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF vsmfile.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/vsmpriv.h:48, from vsmfile.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF vsmutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from vsmutil.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ vsmutil.c: In function ‘GetDocPosForError’: vsmutil.c:1657:18: warning: variable ‘val’ set but not used [-Wunused-but-set-variable] Int2 val; ^~~ At top level: 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:387:20: warning: ‘GetSeqDescGivenIDs’ defined but not used [-Wunused-function] static SeqDescrPtr GetSeqDescGivenIDs (Uint2 entityID, Uint4 itemID, Uint2 itemtype) ^~~~~~~~~~~~~~~~~~ vsmutil.c: In function ‘ContinueProc’: vsmutil.c:2157:23: warning: iteration 6 invokes undefined behavior [-Waggressive-loop-optimizations] vep->counts [i] = 0; ~~~~~~~~~~~~~~~~^~~ vsmutil.c:2156:5: note: within this loop for (i = SEV_NONE; i <= SEV_MAX; i++) { ^~~ vsmutil.c: In function ‘RevalidateProc’: vsmutil.c:2124:23: warning: iteration 6 invokes undefined behavior [-Waggressive-loop-optimizations] vep->counts [i] = 0; ~~~~~~~~~~~~~~~~^~~ vsmutil.c:2123:5: note: within this loop for (i = SEV_NONE; i <= SEV_MAX; i++) { ^~~ vsmutil.c: In function ‘SetVerbosityAndRepopulate’: vsmutil.c:2198:23: warning: iteration 6 invokes undefined behavior [-Waggressive-loop-optimizations] vep->counts [i] = 0; ~~~~~~~~~~~~~~~~^~~ vsmutil.c:2197:5: note: within this loop for (i = SEV_NONE; i <= SEV_MAX; i++) { ^~~ vsmutil.c: In function ‘ClearValidateWindow’: vsmutil.c:613:27: warning: iteration 6 invokes undefined behavior [-Waggressive-loop-optimizations] vep->counts [sev] = 0; ~~~~~~~~~~~~~~~~~~^~~ vsmutil.c:612:7: note: within this loop for (sev = SEV_NONE; sev <= SEV_MAX; sev++) { ^~~ vsmutil.c: In function ‘CreateValidateWindowExExEx’: vsmutil.c:2521:27: warning: iteration 6 invokes undefined behavior [-Waggressive-loop-optimizations] vep->counts [i] = 0; ~~~~~~~~~~~~~~~~^~~ vsmutil.c:2520:9: note: within this loop for (i = SEV_NONE; i <= SEV_MAX; i++) { ^~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF udvgraph.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/explore.h:49, from ../include/udviewer.h:209, from udvgraph.c:177: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:4111:9: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(vdp->vgp->MasterViewer == SAMVIEWDDV) ^~ udvgraph.c:4113:13: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ Row = ViewMgr_GetRow(svpp, vdp->userkey); ^~~ 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; ^~~~~~~ At top level: 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:3433:14: warning: ‘UDV_Draw_features_label’ defined but not used [-Wunused-function] static void UDV_Draw_features_label(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:971:14: warning: ‘UDV_draw_horz_cursor’ defined but not used [-Wunused-function] static void UDV_draw_horz_cursor(UnDViewerGraphDataPtr GrData, ^~~~~~~~~~~~~~~~~~~~ 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) ^~~~~~~~~~~~~~~~~~~~ In file included from ../include/asn2ff6.h:142:0, from udvgraph.c:180: ../include/asnprt.h:61:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/asnprt.h:60:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/asnprt.h:59:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^~~ ../include/asnprt.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^~~~~~~~~~~ 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:3203:58: 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:3203:38: 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:3189:58: 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:3189:38: 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF udvopen.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/explore.h:49, from ../include/udviewer.h:209, from udvopen.c:101: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF udvpanel.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/explore.h:49, from ../include/udviewer.h:209, from udvpanel.c:197: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF dotvibrant.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/dotviewer.h:15, from dotvibrant.c:84: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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: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:6346:13: warning: ‘DOT_NewAnalysis’ defined but not used [-Wunused-function] static void DOT_NewAnalysis (ButtoN b) ^~~~~~~~~~~~~~~ dotvibrant.c:5894:16: warning: ‘DOT_get_eval’ defined but not used [-Wunused-function] static FloatHi DOT_get_eval(Int4 exp) ^~~~~~~~~~~~ dotvibrant.c:5325:16: warning: ‘DOT_GetAlign’ defined but not used [-Wunused-function] static Boolean DOT_GetAlign (DOTAlignInfoPtr alp) ^~~~~~~~~~~~ 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:4767:13: warning: ‘DOT_FeatAnalysisProc’ defined but not used [-Wunused-function] static void DOT_FeatAnalysisProc(ButtoN b) ^~~~~~~~~~~~~~~~~~~~ dotvibrant.c:4749:13: warning: ‘DOT_GetInfoProc’ defined but not used [-Wunused-function] static void DOT_GetInfoProc (IteM i) ^~~~~~~~~~~~~~~ dotvibrant.c:4213:25: warning: ‘DOT_MsgFunc’ defined but not used [-Wunused-function] static Int2 LIBCALLBACK DOT_MsgFunc (OMMsgStructPtr ommsp) ^~~~~~~~~~~ dotvibrant.c:3688:13: warning: ‘DOT_HideAcceptProc’ defined but not used [-Wunused-function] static void DOT_HideAcceptProc(ButtoN b) ^~~~~~~~~~~~~~~~~~ dotvibrant.c:3318:13: warning: ‘DOT_AddFeatureToSegment’ defined but not used [-Wunused-function] static void DOT_AddFeatureToSegment(SeqMgrFeatContextPtr context, ^~~~~~~~~~~~~~~~~~~~~~~ dotvibrant.c:2954:13: warning: ‘DOT_SVChangeLabels’ defined but not used [-Wunused-function] static void DOT_SVChangeLabels (GrouP g) ^~~~~~~~~~~~~~~~~~ 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: 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:2572:27: warning: ‘hit_start’ may be used uninitialized in this function [-Wmaybe-uninitialized] DOT_HlSeq(sbSeg, rc, margin, i+1, bloc_size, hit_start, hit_stop, Fh,chw_2); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF dlgutil1.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from dlgutil1.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:8378:25: warning: ‘GetNthNameValuePair’ defined but not used [-Wunused-function] static NameValuePairPtr GetNthNameValuePair (Int4 n, ValNodePtr list) ^~~~~~~~~~~~~~~~~~~ dlgutil1.c:8061:16: warning: ‘ParseSpecimenVoucherOk’ defined but not used [-Wunused-function] static Boolean ParseSpecimenVoucherOk (CharPtr str) ^~~~~~~~~~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF dlgutil2.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from dlgutil2.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~ At top level: dlgutil2.c:11993:16: warning: ‘ParseMultiListQualOk’ defined but not used [-Wunused-function] static Boolean ParseMultiListQualOk (CharPtr val) ^~~~~~~~~~~~~~~~~~~~ dlgutil2.c:10059:13: warning: ‘ClickClickableListItem’ defined but not used [-Wunused-function] static void ClickClickableListItem (DoC d, PoinT pt) ^~~~~~~~~~~~~~~~~~~~~~ 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:8577:13: warning: ‘GetCategoryNumFromName’ defined but not used [-Wunused-function] static Int4 GetCategoryNumFromName (CharPtr category) ^~~~~~~~~~~~~~~~~~~~~~ dlgutil2.c:1672:16: warning: ‘GetNameForFeature’ defined but not used [-Wunused-function] static CharPtr GetNameForFeature (SeqFeatPtr sfp) ^~~~~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF e2trmlst.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from e2trmlst.c:42: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF e2docsum.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objmgr.h:51, from e2docsum.c:42: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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: 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); ^~~~~~~~~~~~~ At top level: e2docsum.c:2883:13: warning: ‘GetBiostrucMaxModels’ defined but not used [-Wunused-function] static Int4 GetBiostrucMaxModels (void) ^~~~~~~~~~~~~~~~~~~~ e2docsum.c:2850:13: warning: ‘GetBiostrucComplexity’ defined but not used [-Wunused-function] static Int4 GetBiostrucComplexity (void) ^~~~~~~~~~~~~~~~~~~~~ e2docsum.c:2154:20: warning: ‘cddDocProcs’ defined but not used [-Wunused-variable] static DocPrntProc cddDocProcs [] = { Query_FetchDocSum, Query_FetchFields, FetchUid, NULL }; ^~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF asn2graphic.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn2graphic.h:45, from ../include/asn2graphicp.h:45, from asn2graphic.c:41: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘BuildRenderInputFromRFIP’: asn2graphic.c:2489:17: warning: ‘useLast’ may be used uninitialized in this function [-Wmaybe-uninitialized] } else if (useLast && clippedLeft) { ^ asn2graphic.c:2419:27: note: ‘useLast’ was declared here Boolean useThis = TRUE, useLast; ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF medview.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from ../include/medview.h:48, from medview.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF bspview.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, 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 bspview.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF gbfview.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, 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 gbfview.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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: 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); ^~~~~~~~~~~~~ At top level: gbfview.c:1231:13: warning: ‘LookForFarProds’ defined but not used [-Wunused-function] static void LookForFarProds ( ^~~~~~~~~~~~~~~ gbfview.c:1212:13: warning: ‘LookForFarBsp’ defined but not used [-Wunused-function] static void LookForFarBsp ( ^~~~~~~~~~~~~ gbfview.c:944:13: warning: ‘LookForPubs’ defined but not used [-Wunused-function] static void LookForPubs (BioseqPtr bsp, Pointer userdata) ^~~~~~~~~~~ gbfview.c:289:16: warning: ‘ColorIcon’ defined but not used [-Wunused-function] static Boolean ColorIcon ( ^~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF gphview.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, 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 gphview.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF gphdraw.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from gphdraw.c:59: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF gxydraw.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from gxydraw.c:50: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF gtrdraw.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from gtrdraw.c:53: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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: ‘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; ^~~~ 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: ‘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; ^~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF seqpanel.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, 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/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:691:12: 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:691:12: 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:691:12: 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:691:12: 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: 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, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ bvp->viewWholeEntity, seqbuf, alnbuf, &alnbuf_len, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ bvp->showAlnSubstitutions); ~~~~~~~~~~~~~~~~~~~~~~~~~~ seqpanel.c:2466:25: note: ‘seqbuf’ was declared here Uint1Ptr buf, seqbuf, alnbuf; ^~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ingengraph.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objmgr.h:51, from ../include/seqmgr.h:48, from ../include/ingengraph.h:52, from ingengraph.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:355:3: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ ingengraph.c:357:5: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ prim = AddRectangle(seg, start, (row)*(-20), stop, (row)*(-20)+j, NO_ARROW, FALSE,0); ^~~~ 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_AddAlignsToDetailedPage’: ingengraph.c:1097:7: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if ((start - offset - (label_len - feat_len)/2)<0) ^~ ingengraph.c:1099:9: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (bOver_the_edge) ^~ 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:602:28: warning: ‘Ing_CollectFeatures1’ defined but not used [-Wunused-function] static Boolean LIBCALLBACK Ing_CollectFeatures1(SeqFeatPtr sfp, SeqMgrFeatContextPtr sfc) ^~~~~~~~~~~~~~~~~~~~ ingengraph.c:583:24: warning: ‘Ing_SortByChoice’ defined but not used [-Wunused-function] static int LIBCALLBACK Ing_SortByChoice (VoidPtr ptr1, VoidPtr ptr2) ^~~~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ingenext.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn2ff.h:113, from ../include/ingenwin.h:58, from ../include/ingenext.h:53, from ingenext.c:46: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:2777:11: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (!All) ^~ ingenext.c:2781:13: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ SeqLocReplace(msip, mmis, mmis, mstrand, gsip, gmis, gmis, gstrand); ^~~~~~~~~~~~~ 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: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:130:13: warning: ‘querytimercount’ defined but not used [-Wunused-variable] static Int4 querytimercount = 0; ^~~~~~~~~~~~~~~ ingenext.c:129:13: warning: ‘querytimerlimit’ defined but not used [-Wunused-variable] static Int4 querytimerlimit = 100; ^~~~~~~~~~~~~~~ ingenext.c:59:28: warning: ‘Ing_BlastCallback’ defined but not used [-Wunused-function] static Boolean LIBCALLBACK Ing_BlastCallback (BlastResponse *brp, ^~~~~~~~~~~~~~~~~ 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:229:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/blstspc.h:228:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/blstspc.h:227:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^~~ ../include/blstspc.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "blstspc.h23"; ^~~~~~~~~~~ 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:3206:45: 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ingenwin.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn2ff.h:113, from ../include/ingenwin.h:58, from ingenwin.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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: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:7552:13: warning: ‘Ing_ItemtoNetwork’ defined but not used [-Wunused-function] static void Ing_ItemtoNetwork(IteM i){ ^~~~~~~~~~~~~~~~~ ingenwin.c:6717:13: warning: ‘Ing_BspListProc’ defined but not used [-Wunused-function] static void Ing_BspListProc(IteM i) ^~~~~~~~~~~~~~~ ingenwin.c:5535:16: warning: ‘Ing_KeywordAlreadyInList’ defined but not used [-Wunused-function] static Boolean Ing_KeywordAlreadyInList (ValNodePtr head, CharPtr kwd) ^~~~~~~~~~~~~~~~~~~~~~~~ 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:1610:18: warning: ‘Ing_OldMakeLocListFromSAP’ defined but not used [-Wunused-function] static SeqLocPtr Ing_OldMakeLocListFromSAP(SeqAlignPtr sap) ^~~~~~~~~~~~~~~~~~~~~~~~~ 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) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../include/netblap3.h:134:0, from ../include/ingenwin.h:62, from ingenwin.c:45: ../include/blstspc.h:229:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/blstspc.h:228:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/blstspc.h:227:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^~~ ../include/blstspc.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "blstspc.h23"; ^~~~~~~~~~~ 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_PropagateReport’: ingenwin.c:5224:12: warning: ‘j’ may be used uninitialized in this function [-Wmaybe-uninitialized] last_pos = j; ~~~~~~~~~^~~ ingenwin.c:5137:17: note: ‘j’ was declared here Int4 i, j, k, row; ^ ingenwin.c: In function ‘Ing_FileOpenSpecial’: ingenwin.c:3290:12: 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF macrodlg.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objseq.h:48, from macrodlg.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF biosrc.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from ../include/biosrc.h:48, from biosrc.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ biosrc.c: In function ‘CreateBioSourceDialog’: biosrc.c:3506:18: warning: variable ‘y’ set but not used [-Wunused-but-set-variable] PrompT y; ^ At top level: biosrc.c:3182:26: warning: ‘EnumListFromQualNameAssoc’ defined but not used [-Wunused-function] static EnumFieldAssocPtr EnumListFromQualNameAssoc (Nlm_QualNameAssocPtr qp) ^~~~~~~~~~~~~~~~~~~~~~~~~ biosrc.c:2991:16: warning: ‘SubsourceDialogToSubSourcePtr’ defined but not used [-Wunused-function] static Pointer SubsourceDialogToSubSourcePtr (DialoG d) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ biosrc.c:2568:13: warning: ‘SubSourcePtrToSubsourceDialog’ defined but not used [-Wunused-function] static void SubSourcePtrToSubsourceDialog (DialoG d, Pointer data) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ biosrc.c:2508:16: warning: ‘OrgmodDialogToOrgModPtr’ defined but not used [-Wunused-function] static Pointer OrgmodDialogToOrgModPtr (DialoG d) ^~~~~~~~~~~~~~~~~~~~~~~ biosrc.c:2459:13: warning: ‘OrgModPtrToOrgmodDialog’ defined but not used [-Wunused-function] static void OrgModPtrToOrgmodDialog (DialoG d, Pointer data) ^~~~~~~~~~~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF cdrgn.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from ../include/cdrgn.h:89, from cdrgn.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~ At top level: cdrgn.c:6854:13: warning: ‘ConvertRnaRefNameToProductQual’ defined but not used [-Wunused-function] static void ConvertRnaRefNameToProductQual (SeqFeatPtr sfp) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cdrgn.c:6792:13: warning: ‘RemoveQualByName’ defined but not used [-Wunused-function] static void RemoveQualByName (SeqFeatPtr sfp, CharPtr qual_name) ^~~~~~~~~~~~~~~~ cdrgn.c:6773:18: warning: ‘FindOrAddQual’ defined but not used [-Wunused-function] static GBQualPtr FindOrAddQual (SeqFeatPtr sfp, CharPtr qual_name) ^~~~~~~~~~~~~ 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:6253:14: warning: ‘check_rna_type’ defined but not used [-Wunused-function] static Uint1 check_rna_type (Uint1 type) ^~~~~~~~~~~~~~ cdrgn.c:2174:13: warning: ‘AccessionToGi’ defined but not used [-Wunused-function] static Int4 AccessionToGi (CharPtr string) ^~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF import.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from ../include/import.h:48, from import.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF pubdesc.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from ../include/pubdesc.h:48, from pubdesc.c:44: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF seqsub.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from ../include/seqsub.h:58, from seqsub.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF mapgene.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from mapgene.c:2: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~ At top level: 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:1788:13: warning: ‘adjust_slp_list’ defined but not used [-Wunused-function] static void adjust_slp_list(ValNodePtr slp_list) ^~~~~~~~~~~~~~~ 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: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:200:13: warning: ‘get_center_pointer’ defined but not used [-Wunused-function] static Int4 get_center_pointer(SeqLocPtr slp) ^~~~~~~~~~~~~~~~~~ mapgene.c:27:13: warning: ‘print_this_id’ defined but not used [-Wunused-function] static void print_this_id (SeqIdPtr sip) ^~~~~~~~~~~~~ mapgene.c: In function ‘PrintContigForOneMap’: mapgene.c:3181:4: warning: ‘yac_num’ may be used uninitialized in this function [-Wmaybe-uninitialized] PrintHTMLContigAlign(band_name, contig_name, anp_list, fp, db, fish_list, yac_list, yac_num); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mapgene.c:3152:7: note: ‘yac_num’ was declared here Int4 yac_num; ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF prtgene.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/tofile.h:66, from ../include/prtgene.h:3, from prtgene.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ prtgene.c: In function ‘print_sfp_ext’: prtgene.c:108:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(ufp->choice == 2) /*integer */ ^~ prtgene.c:110:7: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ print_store_buf(temp, buf, buf_size, &len, fp); ^~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ddvclick.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ddvclick.c:248: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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: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:611:13: warning: ‘DDV_GetSeqAlignCoordGivenCol’ defined but not used [-Wunused-function] static Int4 DDV_GetSeqAlignCoordGivenCol(DdvMainPtr dmp, Int4 Disp_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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ddvgraph.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ddvgraph.c:210: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ddvopen.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ddvopen.c:372: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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_StartMainWin_Slave’: ddvopen.c:2411:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ ddvopen.c:2417:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ if (!w) return(NULL); ^~ 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:2111:16: warning: ‘DDV_IsInt’ defined but not used [-Wunused-function] static Boolean DDV_IsInt(CharPtr szAccess) ^~~~~~~~~ ddvopen.c:1285:13: warning: ‘DDV_NoConvert’ defined but not used [-Wunused-function] static void DDV_NoConvert(ButtoN g) { ^~~~~~~~~~~~~ ddvopen.c:1272:13: warning: ‘DDV_Convert’ defined but not used [-Wunused-function] static void DDV_Convert(ButtoN g) { ^~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ddvpanel.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ddvpanel.c:389: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:3377:13: warning: ‘write_annot’ defined but not used [-Wunused-function] static void write_annot(SeqAlignPtr align) ^~~~~~~~~~~ ddvpanel.c:3296:13: warning: ‘DDV_MoveRightBoundaryRight’ defined but not used [-Wunused-function] static void DDV_MoveRightBoundaryRight(IteM i) ^~~~~~~~~~~~~~~~~~~~~~~~~~ ddvpanel.c:3290:13: warning: ‘DDV_MoveRightBoundaryLeft’ defined but not used [-Wunused-function] static void DDV_MoveRightBoundaryLeft(IteM i) ^~~~~~~~~~~~~~~~~~~~~~~~~ ddvpanel.c:3284:13: warning: ‘DDV_MoveLeftBoundaryRight’ defined but not used [-Wunused-function] static void DDV_MoveLeftBoundaryRight(IteM i) ^~~~~~~~~~~~~~~~~~~~~~~~~ ddvpanel.c:3278:13: warning: ‘DDV_MoveLeftBoundaryLeft’ defined but not used [-Wunused-function] static void DDV_MoveLeftBoundaryLeft(IteM i) ^~~~~~~~~~~~~~~~~~~~~~~~ ddvpanel.c:3272:13: warning: ‘DDV_MoveRowRight’ defined but not used [-Wunused-function] static void DDV_MoveRowRight(IteM i) ^~~~~~~~~~~~~~~~ ddvpanel.c:3266:13: warning: ‘DDV_MoveRowLeft’ defined but not used [-Wunused-function] static void DDV_MoveRowLeft(IteM i) ^~~~~~~~~~~~~~~ ddvpanel.c:3024:13: warning: ‘DDV_DeleteRow’ defined but not used [-Wunused-function] static void DDV_DeleteRow(IteM i) ^~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF corematx.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from corematx.c:135: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF dvncode.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from dvncode.c:69: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objmmdb1.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objmmdb1.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objmmdb2.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objmmdb2.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objmmdb3.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objmmdb3.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objcn3d.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objcn3d.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF mmdbapi.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/mmdbapi1.h:232, from ../include/mmdbapi.h:92, from mmdbapi.c:116: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF mmdbapi1.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from mmdbapi1.c:294: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF mmdbapi2.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from mmdbapi2.c:159: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF mmdbapi3.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from mmdbapi3.c:207: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mmdbapi3.c: In function ‘WritePDBHeader’: mmdbapi3.c:840:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(org) ^~ mmdbapi3.c:845:9: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ src = orgstring; ^~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF mmdbapi4.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/mmdbapi1.h:232, from ../include/mmdbapi.h:92, from mmdbapi4.c:106: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF mmdbentr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from mmdbentr.c:65: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF prunebsc.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/prunebsc.h:10, from prunebsc.c:34: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:562:9: 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objcdd.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objcdd.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF cddutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from cddutil.c:336: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘CddCalculateTriangle’: cddutil.c:3534:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (sip1) SeqIdFree(sip1); if (bsp1) bsp1 = NULL; ^~ cddutil.c:3534:31: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (sip1) SeqIdFree(sip1); if (bsp1) bsp1 = NULL; ^~ cddutil.c: In function ‘CddCalculateQuerySim’: cddutil.c:3653:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (sip1) SeqIdFree(sip1); if (bsp1) bsp1 = NULL; ^~ cddutil.c:3653:31: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (sip1) SeqIdFree(sip1); if (bsp1) bsp1 = NULL; ^~ 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 ../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)); ^~~~~~~~~~~~~~~~~~~~~~~~~~ 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:4661:16: warning: ‘CddtakeMatrixCheckpoint’ defined but not used [-Wunused-function] static Boolean CddtakeMatrixCheckpoint(compactSearchItems *compactSearch, ^~~~~~~~~~~~~~~~~~~~~~~ In file included from cddutil.c:349:0: ../include/cdd.h:343:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/cdd.h:342:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/cdd.h:341:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^~~ ../include/cdd.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "cdd.h24"; ^~~~~~~~~~~ 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; ~~~~~~~~~~~~~~^~~~~ cddutil.c: In function ‘CddDenDiagCposComp2KBP’: cddutil.c:4974:11: warning: ‘pssm’ may be used uninitialized in this function [-Wmaybe-uninitialized] return(pssm); ^ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF cddposutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from cddposutil.c:119: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF objmime.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objmime.c:73: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF strucapi.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from strucapi.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF thrdalgs.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF thrdatd.c thrdatd.c: In function ‘atd’: thrdatd.c:859:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(i=0;ial[i]); printf("sai->al\n"); ^~~ thrdatd.c:859:46: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(i=0;ial[i]); printf("sai->al\n"); ^~~~~~ thrdatd.c:860:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(i=0;inmt;i++) printf("%d ",sai->sq[i]); printf("sai->sq\n"); ^~~ thrdatd.c:860:51: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(i=0;inmt;i++) printf("%d ",sai->sq[i]); printf("sai->sq\n"); ^~~~~~ thrdatd.c:862:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(i=0;ino[i]); printf("sli->no\n"); ^~~ thrdatd.c:862:46: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(i=0;ino[i]); printf("sli->no\n"); ^~~~~~ thrdatd.c:863:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(i=0;ico[i]); printf("sli->co\n"); ^~~ thrdatd.c:863:46: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(i=0;ico[i]); printf("sli->co\n"); ^~~~~~ thrdatd.c:864:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(i=0;inlp;i++) printf("%d ",sli->lp[i]); printf("sli->lp\n"); ^~~ thrdatd.c:864:51: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(i=0;inlp;i++) printf("%d ",sli->lp[i]); printf("sli->lp\n"); ^~~~~~ thrdatd.c:865:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(i=0;inmt;i++) printf("%d ",sli->cr[i]); printf("sli->cr\n"); ^~~ thrdatd.c:865:51: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(i=0;inmt;i++) printf("%d ",sli->cr[i]); printf("sli->cr\n"); ^~~~~~ thrdatd.c:1014:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(k=0;kal[k]); printf("sai->al\n"); ^~~ thrdatd.c:1014:46: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(k=0;kal[k]); printf("sai->al\n"); ^~~~~~ thrdatd.c:1015:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(k=0;ksq[k]); printf("sai->sq\n"); ^~~ thrdatd.c:1015:46: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(k=0;ksq[k]); printf("sai->sq\n"); ^~~~~~ thrdatd.c:1017:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(i=0;ino[i]); printf("sli->no\n"); ^~~ thrdatd.c:1017:46: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(i=0;ino[i]); printf("sli->no\n"); ^~~~~~ thrdatd.c:1018:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(i=0;ico[i]); printf("sli->co\n"); ^~~ thrdatd.c:1018:46: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(i=0;ico[i]); printf("sli->co\n"); ^~~~~~ thrdatd.c:1019:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(i=0;ilp[i]); printf("sli->lp\n"); ^~~ thrdatd.c:1019:46: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(i=0;ilp[i]); printf("sli->lp\n"); ^~~~~~ thrdatd.c:1020:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(i=0;icr[i]); printf("sli->cr\n"); ^~~ thrdatd.c:1020:46: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(i=0;icr[i]); printf("sli->cr\n"); ^~~~~~ thrdatd.c:1244:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(i=0;igss[i]); free(spe->gss); ^~~ thrdatd.c:1244:39: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(i=0;igss[i]); free(spe->gss); ^~~~ thrdatd.c:1251:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(i=0; inrr[i]); free(spn->nrr); ^~~ thrdatd.c:1251:41: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(i=0; inrr[i]); free(spn->nrr); ^~~~ thrdatd.c:1255:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(i=0; inrp[i]); free(spn->nrp); ^~~ thrdatd.c:1255:41: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(i=0; inrp[i]); free(spn->nrp); ^~~~ thrdatd.c:1259:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(i=0; inrf[i]); free(spn->nrf); ^~~ thrdatd.c:1259:41: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(i=0; inrf[i]); free(spn->nrf); ^~~~ thrdatd.c:1260:1: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(i=0; ifrf[i]); free(spn->frf); ^~~ thrdatd.c:1260:41: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for(i=0; ifrf[i]); free(spn->frf); ^~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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:102:13: warning: ‘nt’ may be used uninitialized in this function [-Wmaybe-uninitialized] ct=ttb->mx; for(i=0; i<=nt; i++) { ^~~ 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++) { ^~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF thrdrsmp.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF thrdsal0.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF thrdsalr.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF thrdsgoi.c thrdsgoi.c: In function ‘sgoi’: thrdsgoi.c:98:3: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(i=0; i>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF thrdslo0.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF thrdslor.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF thrdspci.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF thrdttbi.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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] } ^ thrdzsc.c:357:39: warning: ‘tg_max’ may be used uninitialized in this function [-Wmaybe-uninitialized] ttb->zsc[i_max]=ScalingFactor*(tg_max-avg)/disp; ~~~~~~~^~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF csim.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/simutil.h:77, from csim.c:74: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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**/ ^~~~~~~~~~~~~~~~~~~~~~~~~ At top level: csim.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: csim.c,v 6.2 2003/05/30 17:25:36 coulouri Exp $"; ^~~~~ csim.c: In function ‘SIM’: csim.c:1071:56: warning: ‘dj’ may be used uninitialized in this function [-Wmaybe-uninitialized] if ( ! cflag && ( ci > rl && cj > cl || di > rl && dj > cl ~~~~~~~~^~~~~~~~~~ csim.c:928:23: note: ‘dj’ was declared here register Int4 di, dj; /* end-point associated with d */ ^~ csim.c:1071:45: warning: ‘di’ may be used uninitialized in this function [-Wmaybe-uninitialized] if ( ! cflag && ( ci > rl && cj > cl || di > rl && dj > cl ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ csim.c:928:19: note: ‘di’ was declared here register Int4 di, dj; /* end-point associated with d */ ^~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF db_slist.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/list.h:56, from db_slist.c:97: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ db_slist.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: db_slist.c,v 6.2 2003/05/30 17:25:36 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF dust.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from dust.c:102: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ dust.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: dust.c,v 6.5 2003/05/30 17:25:36 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_dust.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from blast_dust.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ blast_dust.c:39:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF falign.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/simutil.h:77, from falign.c:92: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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]) { ^~ At top level: falign.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: falign.c,v 6.3 2003/05/30 17:25:36 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF g_any.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from g_any.c:89: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ g_any.c: In function ‘k_align’: g_any.c:212:10: warning: array subscript has type ‘char’ [-Wchar-subscripts] va = vv[A[i+1]]; ^ g_any.c:229:26: warning: array subscript has type ‘char’ [-Wchar-subscripts] if (j < J2) c = s + va[B[j+1]]; ^ g_any.c:319:10: warning: array subscript has type ‘char’ [-Wchar-subscripts] b2 = PP[t1][b1]; ^ g_any.c:322:10: warning: array subscript has type ‘char’ [-Wchar-subscripts] t2 = PT[t1][b1]; ^ g_any.c: In function ‘z_ALIGN’: g_any.c:367:7: warning: variable ‘check_score’ set but not used [-Wunused-but-set-variable] Int4 check_score; ^~~~~~~~~~~ g_any.c: In function ‘CHECK_SCORE’: g_any.c:492:13: warning: array subscript has type ‘char’ [-Wchar-subscripts] score = vv[A[++i]][B[++j]] + score; ^ g_any.c:492:21: warning: array subscript has type ‘char’ [-Wchar-subscripts] score = vv[A[++i]][B[++j]] + score; ^ At top level: g_any.c:428:35: warning: ‘CLINE’ defined but not used [-Wunused-variable] static Char ALINE[51], BLINE[51], CLINE[51]; ^~~~~ g_any.c:428:24: warning: ‘BLINE’ defined but not used [-Wunused-variable] static Char ALINE[51], BLINE[51], CLINE[51]; ^~~~~ g_any.c:428:13: warning: ‘ALINE’ defined but not used [-Wunused-variable] static Char ALINE[51], BLINE[51], CLINE[51]; ^~~~~ g_any.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: g_any.c,v 6.5 2003/05/30 17:25:36 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF sim2.c sim2.c: In function ‘SIM2’: sim2.c:19:16: warning: unused variable ‘compB’ [-Wunused-variable] CharPtr A, B, compB = NULL; ^~~~~ sim2.c:17:26: warning: unused variable ‘sapC’ [-Wunused-variable] SeqAlignPtr sap = NULL, sapC=NULL, out_sap, out_sapC; ^~~~ At top level: sim2.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: sim2.c,v 6.1 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF sim3.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/simutil.h:77, from sim3.c:28: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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++]; ^ At top level: 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:1056:13: warning: ‘get_current_pos’ defined but not used [-Wunused-function] static Int4 get_current_pos(Int4Ptr pos, Int4 length) ^~~~~~~~~~~~~~~ sim3.c:1048:13: warning: ‘get_start_pos’ defined but not used [-Wunused-function] static Int4 get_start_pos(SeqLocPtr slp) ^~~~~~~~~~~~~ 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:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: sim3.c,v 6.2 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF sim4.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from sim4.c:18: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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) ~~~~~~~^~~~~~~~~ At top level: 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:2563:13: warning: ‘S2A’ defined but not used [-Wunused-function] static void S2A(EditScriptPtr head, Int4Ptr S) ^~~ 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:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: sim4.c,v 6.5 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF simutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/simutil.h:77, from simutil.c:103: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ simutil.c: In function ‘make_align’: simutil.c:495:9: warning: variable ‘strand’ set but not used [-Wunused-but-set-variable] Uint1 strand; ^~~~~~ At top level: simutil.c:848:16: warning: ‘is_alu_seq’ defined but not used [-Wunused-function] static Boolean is_alu_seq(CharPtr name) ^~~~~~~~~~ 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: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:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: simutil.c,v 6.8 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ simutil.c: In function ‘sort_align_list’: simutil.c:602:20: warning: ‘score2’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (score2 > score1) { /* swap */ ^ simutil.c:602:20: warning: ‘score1’ may be used uninitialized in this function [-Wmaybe-uninitialized] simutil.c: In function ‘get_top_K_alignment’: simutil.c:659:16: warning: ‘score’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (score < cut_off) break; ^ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF slist.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/list.h:56, from slist.c:101: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ slist.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: slist.c,v 6.2 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF sec.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/simutil.h:77, from sec.c:67: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ sec.c: In function ‘Region’: sec.c:268:19: warning: array subscript has type ‘char’ [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:268:28: warning: array subscript has type ‘char’ [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:292:19: warning: array subscript has type ‘char’ [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:292:28: warning: array subscript has type ‘char’ [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:321:19: warning: array subscript has type ‘char’ [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:321:28: warning: array subscript has type ‘char’ [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:345:19: warning: array subscript has type ‘char’ [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:345:28: warning: array subscript has type ‘char’ [-Wchar-subscripts] ext_score += V[seq1[i]][seq2[j]]; ^ sec.c:428:35: warning: array subscript has type ‘char’ [-Wchar-subscripts] diag_score = diag_score + V[seq1[i]][seq2[j]]; ^ sec.c:428:44: warning: array subscript has type ‘char’ [-Wchar-subscripts] diag_score = diag_score + V[seq1[i]][seq2[j]]; ^ At top level: sec.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: sec.c,v 6.1 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ sec.c: In function ‘Region’: 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; ^~ sec.c:462:16: warning: ‘bi’ may be used uninitialized in this function [-Wmaybe-uninitialized] MemFree(LB+bi); ^ sec.c:463:16: warning: ‘RB’ may be used uninitialized in this function [-Wmaybe-uninitialized] MemFree(RB+bi); ~~^~~ sec.c:462:16: warning: ‘LB’ may be used uninitialized in this function [-Wmaybe-uninitialized] MemFree(LB+bi); ~~^~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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; ^~~~~~ 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, ^~~~~~~~~~~~~~~~~~~~ tfuns.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: tfuns.c,v 6.14 2007/10/10 16:10:17 bollin Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF toasn3.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/gather.h:166, from toasn3.c:10: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~ At top level: toasn3.c:1572:16: warning: ‘GetQualValue’ defined but not used [-Wunused-function] static CharPtr GetQualValue(GBQualPtr gbqual, CharPtr qual) ^~~~~~~~~~~~ In file included from ../include/asn2ff6.h:142:0, from toasn3.c:19: ../include/asnprt.h:61:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/asnprt.h:60:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/asnprt.h:59:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^~~ ../include/asnprt.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^~~~~~~~~~~ toasn3.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: toasn3.c,v 6.133 2012/06/04 20:04:10 kans Exp $"; ^~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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; ^~~~ At top level: toporg.c:3010:13: warning: ‘BarCodeTechToKeyword’ defined but not used [-Wunused-function] static void BarCodeTechToKeyword (BioseqPtr bsp, Pointer userdata) ^~~~~~~~~~~~~~~~~~~~ toporg.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: toporg.c,v 6.197 2012/05/10 21:20:48 kans Exp $"; ^~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF pobutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, 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: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~~~~~~~ At top level: pobutil.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: pobutil.c,v 6.10 2007/05/07 13:30:54 kans Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF stsutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from stsutil.c:88: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~ At top level: stsutil.c:892:13: warning: ‘STSHashInitFree’ defined but not used [-Wunused-function] static void STSHashInitFree(STSHashInitPtr sts) ^~~~~~~~~~~~~~~ stsutil.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: stsutil.c,v 6.8 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF suggadj.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from suggadj.c:47: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^ At top level: suggadj.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: suggadj.c,v 6.3 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF suggest.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from suggest.c:199: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ suggest.c: In function ‘get_frames’: suggest.c:458:12: warning: array subscript has type ‘char’ [-Wchar-subscripts] val = vx[t[0]]*16 + vx[t[1]]*4 + vx[(t==t_max)?'N':t[2]]; ^ suggest.c:458:26: warning: array subscript has type ‘char’ [-Wchar-subscripts] val = vx[t[0]]*16 + vx[t[1]]*4 + vx[(t==t_max)?'N':t[2]]; ^ At top level: suggest.c:1331:13: warning: ‘ReportSuggestIntervalsError’ defined but not used [-Wunused-function] static void ReportSuggestIntervalsError (SeqRecPtr srp, CharPtr gen_txt) ^~~~~~~~~~~~~~~~~~~~~~~~~~~ suggest.c:1222:1: warning: ‘fprintf_m_stk_entry’ defined but not used [-Wunused-function] fprintf_m_stk_entry(FILE *fp, Int4 index, char *msg) ^~~~~~~~~~~~~~~~~~~ suggest.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: suggest.c,v 6.14 2009/04/10 17:22:14 kans Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF suggslp.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from suggslp.c:53: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ suggslp.c: In function ‘MakeReverseSequence’: suggslp.c:190:11: warning: array subscript has type ‘char’ [-Wchar-subscripts] *t++ = r[*--s]; ^ At top level: suggslp.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: suggslp.c,v 6.6 2009/04/16 18:35:41 kans Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from blast.c:2572: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘BlastReapPartialHitlistByEvalue’: blast.c:6486:10: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ blast.c:6490:6: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ if( !search->mult_queries ) ^~ 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; ^~~~~~~~~~~~ At top level: blast.c:2:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blast.c,v 6.451 2008/01/25 21:15:22 bealer Exp $"; ^~~~~ blast.c: In function ‘BLASTMergeHitLists.isra.3’: 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blastutl.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from blastutl.c:1836: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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"); ^ At top level: blastutl.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blastutl.c,v 6.472 2010/12/10 18:47:12 madden Exp $"; ^~~~~ 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_score2’ may be used uninitialized in this function [-Wmaybe-uninitialized] start_score2 += matrix[(Int4) *(str+index2)][*(words+index2)]; ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ blastutl.c:11717:15: warning: ‘start_score’ may be used uninitialized in this function [-Wmaybe-uninitialized] score += matrix[(Int4) *(str+wordsize-1)][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_score2’ may be used uninitialized in this function [-Wmaybe-uninitialized] start_score2 += posMatrix[offset+index2][*(words+index2)]; ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ blastutl.c:12129:23: warning: ‘start_score’ may be used uninitialized in this function [-Wmaybe-uninitialized] score += posMatrix[offset+wordsize-1][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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blastool.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from blastool.c:946: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ blastool.c: In function ‘BlastScaleMatrix’: blastool.c:3032:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ blastool.c:3035:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ if (new_lambda > lambda) ^~ blastool.c: In function ‘OOFBlastHSPGetNumIdentical’: blastool.c:6081:9: warning: variable ‘context’ set but not used [-Wunused-but-set-variable] Int2 context; ^~~~~~~ At top level: blastool.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blastool.c,v 6.292 2007/03/15 20:39:17 madden Exp $"; ^~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blastconcat.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from blastconcat.c:89: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ blastconcat.c: In function ‘BlastMakeFakeBspConcat’: blastconcat.c:648:12: warning: variable ‘slp’ set but not used [-Wunused-but-set-variable] SeqLocPtr slp = NULL; ^~~ At top level: blastconcat.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blastconcat.c,v 1.14 2007/05/07 13:30:54 kans Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF splutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from splutil.c:52: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ splutil.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: splutil.c,v 6.7 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF gapxdrop.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/gapxdrop.h:150, from gapxdrop.c:368: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gapxdrop.c: In function ‘ALIGN_EX’: gapxdrop.c:864:10: warning: suggest explicit braces to avoid ambiguous ‘else’ [-Wparentheses] if (s == 1) ^ gapxdrop.c:867:10: warning: suggest explicit braces to avoid ambiguous ‘else’ [-Wparentheses] if (s == 2) ^ At top level: gapxdrop.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: gapxdrop.c,v 6.76 2003/11/07 21:52:52 dondosha Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF bandalg0.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/bandalgn.h:73, from bandalg0.c:36: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ bandalg0.c: In function ‘g_band0_align’: bandalg0.c:273:9: warning: suggest explicit braces to avoid ambiguous ‘else’ [-Wparentheses] if(leftd >= 1) ^ At top level: bandalg0.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: bandalg0.c,v 6.3 2003/05/30 17:25:35 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF bandalg1.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/bandalgn.h:73, from bandalg1.c:36: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ bandalg1.c: In function ‘gband_quadratic’: bandalg1.c:54:14: warning: variable ‘j’ set but not used [-Wunused-but-set-variable] Int4 c, i, j; ^ bandalg1.c: In function ‘g_band1_align’: bandalg1.c:205:7: warning: suggest explicit braces to avoid ambiguous ‘else’ [-Wparentheses] if(leftd >= 1) ^ At top level: bandalg1.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: bandalg1.c,v 6.3 2003/05/30 17:25:35 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF bandalg2.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/bandalgn.h:73, from bandalg2.c:36: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ bandalg2.c: In function ‘gb_linear_align’: bandalg2.c:208:24: warning: variable ‘misma’ set but not used [-Wunused-but-set-variable] register Int4 match, misma; ^~~~~ bandalg2.c:208:17: warning: variable ‘match’ set but not used [-Wunused-but-set-variable] register Int4 match, misma; ^~~~~ bandalg2.c:207:18: warning: variable ‘AA’ set but not used [-Wunused-but-set-variable] register Uint1 AA; ^~ At top level: bandalg2.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: bandalg2.c,v 6.5 2003/05/30 17:25:35 coulouri Exp $"; ^~~~~ bandalg2.c: In function ‘gb_linear_align’: bandalg2.c:577:12: warning: ‘Y’ may be used uninitialized in this function [-Wmaybe-uninitialized] _INS(N - Y); ^ bandalg2.c:575:10: warning: ‘X’ may be used uninitialized in this function [-Wmaybe-uninitialized] _DEL(M - X) ^ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF bandalg3.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/bandalgn.h:73, from bandalg3.c:37: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ bandalg3.c: In function ‘gband_linear_qgap’: bandalg3.c:54:14: warning: variable ‘j’ set but not used [-Wunused-but-set-variable] Int4 c, i, j; ^ At top level: bandalg3.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: bandalg3.c,v 6.4 2003/05/30 17:25:36 coulouri Exp $"; ^~~~~ bandalg3.c: In function ‘gband_linear_qgap’: bandalg3.c:314:16: warning: ‘Y’ may be used uninitialized in this function [-Wmaybe-uninitialized] else if(Y != rightd) _INS(rightd-Y) ^ bandalg3.c:185:28: note: ‘Y’ was declared here Int4 ib, best=MININT, X, Y; ^ bandalg3.c:313:21: warning: ‘X’ may be used uninitialized in this function [-Wmaybe-uninitialized] if(X != M) _DEL(M - X) ^ bandalg3.c:185:25: note: ‘X’ was declared here Int4 ib, best=MININT, X, Y; ^ bandalg3.c:217:8: warning: ‘c’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (d > c || ib <= 0) { ^ bandalg3.c:180:17: note: ‘c’ was declared here register Int4 c, d, e, x; ^ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF bandalg4.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/bandalgn.h:73, from bandalg4.c:37: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ bandalg4.c: In function ‘g_band4_align_small’: bandalg4.c:826:8: warning: suggest explicit braces to avoid ambiguous ‘else’ [-Wparentheses] if (e == 1) ^ bandalg4.c:829:8: warning: suggest explicit braces to avoid ambiguous ‘else’ [-Wparentheses] if (e == 2) ^ bandalg4.c:630:8: warning: variable ‘band’ set but not used [-Wunused-but-set-variable] Int4 band, j; ^~~~ At top level: bandalg4.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: bandalg4.c,v 6.4 2003/05/30 17:25:36 coulouri Exp $"; ^~~~~ bandalg4.c: In function ‘g_band4_align’: bandalg4.c:534:17: warning: ‘Y’ may be used uninitialized in this function [-Wmaybe-uninitialized] if(X != M || Y != N) regA = regB = 1; ~~~~~~~^~~~~~~~~ bandalg4.c:534:9: 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, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ MAX(-r, low), rmid - 1, tb, 2, legA, legB, 1, 1, data); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF bandalg5.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/bandalgn.h:73, from bandalg5.c:36: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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) ^ At top level: bandalg5.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: bandalg5.c,v 6.3 2003/05/30 17:25:36 coulouri Exp $"; ^~~~~ bandalg5.c: In function ‘gband_q3gap’: bandalg5.c:320:6: warning: ‘Y’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (Y != rightd) _INS(rightd - Y); ^ bandalg5.c:146:28: note: ‘Y’ was declared here Int4 ib, best=MININT, X, Y; ^ bandalg5.c:319:22: warning: ‘X’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (X != M) _DEL(M - X); ^ bandalg5.c:146:25: note: ‘X’ was declared here Int4 ib, best=MININT, X, Y; ^ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF bandalgn.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/seqport.h:47, from bandalgn.c:118: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ bandalgn.c: In function ‘ExtendSeqAlign’: bandalgn.c:1113:22: warning: variable ‘ddp’ set but not used [-Wunused-but-set-variable] DenseDiagPtr ddp; ^~~ bandalgn.c: In function ‘CC_ExtendSeqAlign’: bandalgn.c:1188:22: warning: variable ‘ddp’ set but not used [-Wunused-but-set-variable] DenseDiagPtr ddp; ^~~ At top level: bandalgn.c:699:14: warning: ‘HSblastna_to_ncbi4na’ defined but not used [-Wunused-variable] static Uint1 HSblastna_to_ncbi4na[] = { 1, /* A, 0 */ ^~~~~~~~~~~~~~~~~~~~ bandalgn.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: bandalgn.c,v 6.17 2003/05/30 17:25:36 coulouri Exp $"; ^~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blastkar.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from blastkar.c:648: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ blastkar.c:2373:25: warning: ‘Altschul_prob’ defined but not used [-Wunused-variable] static BLAST_LetterProb Altschul_prob[] = { ^~~~~~~~~~~~~ blastkar.c:2347:25: warning: ‘Dayhoff_prob’ defined but not used [-Wunused-variable] static BLAST_LetterProb Dayhoff_prob[] = { ^~~~~~~~~~~~ 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: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:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blastkar.c,v 6.115 2006/12/14 17:08:19 madden Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF actutils.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/actutils.h:103, from actutils.c:232: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:3132:13: warning: ‘DumpAlignments’ defined but not used [-Wunused-function] static void DumpAlignments (SeqAlignPtr salp) ^~~~~~~~~~~~~~ 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: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: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: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: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:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: actutils.c,v 6.56 2008/10/22 17:19:22 bollin Exp $"; ^~~~~ 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; ^~~~~~~ actutils.c: In function ‘ACT_FindPeakScores’: actutils.c:1342:31: warning: ‘ats_newprev’ may be used uninitialized in this function [-Wmaybe-uninitialized] ats_newprev->next = ats_new; ~~~~~~~~~~~~~~~~~~^~~~~~~~~ actutils.c:1321:28: warning: ‘ats_prev’ may be used uninitialized in this function [-Wmaybe-uninitialized] ats_prev->next = ats; ~~~~~~~~~~~~~~~^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF posit.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from posit.c:402: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ At top level: posit.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: posit.c,v 6.88 2011/10/25 14:33:16 boratyng Exp $"; ^~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF lookup.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from lookup.c:308: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~~~~~~ At top level: lookup.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: lookup.c,v 6.59 2005/07/28 14:57:10 coulouri Exp $"; ^~~~~ lookup.c: In function ‘MegaBlastBuildLookupTable’: lookup.c:975:10: warning: ‘word_weight’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (word_weight >= 12) { ^ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF readdb.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/readdb.h:757, from readdb.c:2052: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:3162:33: 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 ‘IndexFileExists’: readdb.c:3315:9: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (rdfp->cih) ^~ readdb.c:3321:13: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (rdbap->first_oid > 0) { ^~ readdb.c:3395:9: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (rdfp->cih && rdfp->aliasfilebit == 0) ^~ readdb.c:3401:13: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (rdbap->first_oid > 0) { ^~ 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:8608:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if ((tsip->version > 0) && (tsip->release == NULL)) ^~ readdb.c:8610:9: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ break; ^~~~~ readdb.c:8613:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (tsip->version > 0) ^~ readdb.c:8615:9: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ break; ^~~~~ 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 ‘FindDBbyGI’: readdb.c:11392:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (gi > cih->maxgi) ^~ readdb.c:11395:5: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ cigi = cih->ci + gi; ^~~~ readdb.c: In function ‘Fastacmd_Search_ex’: readdb.c:12075:22: warning: variable ‘guess_gi’ set but not used [-Wunused-but-set-variable] Int4 guess_gi = -1; ^~~~~~~~ readdb.c: In function ‘DumpOneSequence’: readdb.c:12412:14: warning: unused variable ‘numeric_id’ [-Wunused-variable] Boolean numeric_id = GetAccessionVersionFromSeqId(accn, &gi, &id, TRUE); ^~~~~~~~~~ In file included from ../include/sqnutils.h:51:0, from readdb.c:2062: readdb.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)); ^~~~~~~~~~~~~~~~~~~~~ readdb.c:12824:1: warning: ‘readdb_preload_index’ defined but not used [-Wunused-function] readdb_preload_index (ReadDBFILEPtr rdfp, Int4 first_db_seq, ^~~~~~~~~~~~~~~~~~~~ In file included from readdb.c:2055:0: ../include/ncbisami.h:191:14: warning: ‘OneBit’ defined but not used [-Wunused-variable] static Uint1 OneBit[] = {0x80 , 0x40, 0x20, 0x10, 0x8, 0x4, 0x2, 0x1}; ^~~~~~ ../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, ^~~~~~~~~~~ readdb.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: readdb.c,v 6.548 2012/03/14 20:09:35 camacho Exp $"; ^~~~~ readdb.c: In function ‘readdb_get_taxonomy_names’: readdb.c:5674:28: warning: ‘ufp_last’ may be used uninitialized in this function [-Wmaybe-uninitialized] ufp_last->next = ufp; ~~~~~~~~~~~~~~~^~~~~ In file included from ../include/ncbi.h:59:0, from ../include/readdb.h:757, from readdb.c:2052: readdb.c: In function ‘readdb_get_descriptor’: ../include/ncbimem.h:192:21: warning: ‘new_defline_length’ may be used uninitialized in this function [-Wmaybe-uninitialized] #define Nlm_MemCpy memcpy ^~~~~~ readdb.c:6617:26: note: ‘new_defline_length’ was declared here Int4 defline_length, new_defline_length; ^~~~~~~~~~~~~~~~~~ readdb.c: In function ‘GetAccList’: readdb.c:11816:29: warning: ‘AccListLast’ may be used uninitialized in this function [-Wmaybe-uninitialized] AccListLast->next = AccListTmp; ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbisam.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ncbisam.c:198: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ ncbisam.c: In function ‘ISAMMakeStringIndex’: ncbisam.c:842:22: warning: unused variable ‘file_pos’ [-Wunused-variable] Int4 file_pos = ftell(data->db_fd); ^~~~~~~~ ncbisam.c: In function ‘ISAMInitSearch’: ncbisam.c:1399:10: warning: variable ‘reserved2’ set but not used [-Wunused-but-set-variable] Int4 reserved2; ^~~~~~~~~ At top level: ncbisam.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: ncbisam.c,v 6.34 2007/11/06 19:20:06 coulouri Exp $"; ^~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbisort.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ncbisort.h:62, from ../include/ncbisrti.h:60, from ncbisort.c:83: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: ncbisort.c,v 6.8 2006/05/10 20:47:17 camacho Exp $"; ^~~~~ ncbisort.c: In function ‘SORTMergeFPS’: ncbisort.c:1110:10: warning: ‘savealloc’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (savealloc < lines[ord[0]].lines[cur[ord[0]]].length + 1) { ^ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF salign.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/salign.h:10, from salign.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ salign.c: In function ‘BandAlignTwoSeqLocsFunc’: salign.c:173:13: warning: variable ‘is_prot’ set but not used [-Wunused-but-set-variable] Boolean is_prot; ^~~~~~~ salign.c: In function ‘SortBlastHits’: salign.c:391:15: warning: variable ‘totalvalmax’ set but not used [-Wunused-but-set-variable] totalvalmax = INT4_MAX, ^~~~~~~~~~~ salign.c: In function ‘link_solution’: salign.c:1188:15: warning: unused variable ‘first’ [-Wunused-variable] Boolean first = TRUE; ^~~~~ At top level: salign.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: salign.c,v 6.11 2009/01/21 17:09:18 bollin Exp $"; ^~~~~ salign.c: In function ‘SortBlastHits’: salign.c:455:6: warning: ‘salpdup’ may be used uninitialized in this function [-Wmaybe-uninitialized] SeqAlignSetFree (salpdup); ^~~~~~~~~~~~~~~~~~~~~~~~~ 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.isra.4’: 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: ‘master_slp’ may be used uninitialized in this function [-Wmaybe-uninitialized] salpblast = BlastTwoSeqLocs (master_slp, slp, is_prot, msp); ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF salptool.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from salptool.c:3: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~ salptool.c: In function ‘extend_dsp_ends’: salptool.c:1329:21: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ salptool.c:1331:4: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ if(extend_len > 0) ^~ salptool.c:1346:21: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ salptool.c:1348:4: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ if(extend_len > 0) ^~ salptool.c:1363:21: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ salptool.c:1365:4: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ if(extend_len > 0) ^~ salptool.c:1380:21: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ salptool.c:1382:4: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ if(extend_len > 0) ^~ 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:1518:24: warning: ‘OrderBestHits’ defined but not used [-Wunused-function] static int LIBCALLBACK OrderBestHits(Pointer ptr1, Pointer ptr2) ^~~~~~~~~~~~~ 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:1453:13: warning: ‘getlengthforid’ defined but not used [-Wunused-function] static Int4 getlengthforid (SeqIdPtr sip) ^~~~~~~~~~~~~~ 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:838:13: warning: ‘SeqLocTrimPolyATail’ defined but not used [-Wunused-function] static void SeqLocTrimPolyATail(SeqLocPtr loc_2, BioseqPtr bsp_2) { ^~~~~~~~~~~~~~~~~~~ salptool.c:46:13: warning: ‘SeqAnnotWrite’ defined but not used [-Wunused-function] static void SeqAnnotWrite(SeqAlignPtr align) ^~~~~~~~~~~~~ salptool.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: salptool.c,v 6.57 2008/07/07 18:52:31 bollin Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF urkutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/accentr.h:125, from urkutil.c:59: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ urkutil.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: urkutil.c,v 6.5 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF urkpcc.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/urkpcc.h:54, from urkpcc.c:56: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ urkpcc.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: urkpcc.c,v 6.13 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF urkptpf.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objres.h:73, from urkptpf.c:65: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ urkptpf.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: urkptpf.c,v 6.33 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF urkepi.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/urkepi.h:54, from urkepi.c:59: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^ At top level: urkepi.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: urkepi.c,v 6.19 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ urkepi.c: In function ‘FilterEpi’: urkepi.c:1053:21: warning: ‘right’ may be used uninitialized in this function [-Wmaybe-uninitialized] cfap->right = right; ~~~~~~~~~~~~^~~~~~~ urkepi.c:936:56: note: ‘right’ was declared here Int4 i, n, j, k, start, stop, loop, fact, left, right; ^~~~~ urkepi.c:1052:20: warning: ‘left’ may be used uninitialized in this function [-Wmaybe-uninitialized] cfap->left = left; ~~~~~~~~~~~^~~~~~ urkepi.c:936:50: note: ‘left’ was declared here Int4 i, n, j, k, start, stop, loop, fact, left, right; ^~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF urkfltr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/urkfltr.h:51, from urkfltr.c:56: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ urkfltr.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: urkfltr.c,v 6.8 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF urkdust.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/urkdust.h:51, from urkdust.c:56: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ urkdust.c: In function ‘DustMe_h’: urkdust.c:196:42: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses] (dcvp->curlevel <= newlevel) && dcvp->curend == loop+1) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ urkdust.c: In function ‘DustForGraph’: urkdust.c:776:17: warning: variable ‘drphead’ set but not used [-Wunused-but-set-variable] DustRegionPtr drphead; ^~~~~~~ At top level: urkdust.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: urkdust.c,v 6.10 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF urksigu.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/urksigu.h:57, from urksigu.c:59: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ urksigu.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: urksigu.c,v 6.5 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF seg.c seg.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: seg.c,v 6.19 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ seg.c: In function ‘getprob’: seg.c:935:15: warning: ‘ans2’ may be used uninitialized in this function [-Wmaybe-uninitialized] ans = ans1 + ans2 - totseq; ~~~~~^~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF urkbias.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from urkbias.c:56: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ urkbias.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: urkbias.c,v 6.7 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF urkcnsrt.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/urkcnsrt.h:60, from urkcnsrt.c:80: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ urkcnsrt.c:1203:13: warning: ‘ScanFrame’ defined but not used [-Wunused-function] static void ScanFrame (BioseqPtr bsp, SeqLocPtr slp, Int4 frame, ^~~~~~~~~ urkcnsrt.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: urkcnsrt.c,v 6.21 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ urkcnsrt.c: In function ‘Scan3Frames’: urkcnsrt.c:1312:34: warning: ‘length’ may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 i, n, start, stop, length, chunk; ^~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF urktree.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/urktree.h:51, from urktree.c:53: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ urktree.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: urktree.c,v 6.6 2003/05/30 17:25:38 coulouri Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF pseed3.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from pseed3.c:176: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^ At top level: pseed3.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: pseed3.c,v 6.54 2008/10/31 18:51:07 madden Exp $"; ^~~~~ pseed3.c: In function ‘seedParallelFill’: pseed3.c:712:68: warning: iteration 100 invokes undefined behavior [-Waggressive-loop-optimizations] returnData->seedSearch->name_space[i] = seedSearch->name_space[i]; ~~~~~~~~~~~~~~~~~~~~~~^~~ pseed3.c:711:4: note: within this loop for( i = 0; i <= BUF_SIZE; i++) ^~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF pattern1.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from pattern1.c:80: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘pat_output’: pattern1.c:1637:2: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ pattern1.c:1639:11: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ ValNodeCopyStr(info_vnp, 0, buffer); ^~~~~~~~~~~~~~ At top level: pattern1.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: pattern1.c,v 6.22 2006/08/04 21:11:17 papadopo Exp $"; ^~~~~ pattern1.c: In function ‘get_patL’: pattern1.c:1348:42: warning: ‘j’ may be used uninitialized in this function [-Wmaybe-uninitialized] *end = wordIndex*BITS_PACKED_PER_WORD+j; ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ pattern1.c: In function ‘align’: pattern1.c:1158:8: warning: ‘CDrow’ may be used uninitialized in this function [-Wmaybe-uninitialized] score = (CDrow-1)->CC; ~~~~~~^~~~~~~~~~~~~~~ pattern1.c: In function ‘get_patLL’: pattern1.c:1393:5: warning: ‘pos’ may be used uninitialized in this function [-Wmaybe-uninitialized] for (j = 0; j < pos; j+= wordIndex) { ^~~ pattern1.c: In function ‘init_pattern’: pattern1.c:192:11: warning: ‘tj’ may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 tj; /*temporary copy of j*/ ^~ pattern1.c: In function ‘align_of_pattern’: pattern1.c:1562:19: warning: ‘data’ may be used uninitialized in this function [-Wmaybe-uninitialized] local_score += ALIGN_B(querySeq-1, dbSeq-1, queryMatchOffset, dbMatchOffset, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ BAND_LOW, BAND_HIGH, matrix, gap_open, gap_extend, alignScript, data); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF impatool.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from impatool.c:73: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ impatool.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: impatool.c,v 6.16 2006/06/30 18:44:40 camacho Exp $"; ^~~~~ impatool.c: In function ‘IMPALAPrintHelp’: impatool.c:301:20: warning: ‘ret_buffer’ may be used uninitialized in this function [-Wmaybe-uninitialized] ret_buffer = MemFree(ret_buffer); ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF posit2.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from posit2.c:78: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ posit2.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: posit2.c,v 6.12 2006/09/18 20:54:27 kans Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF mbalign.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/mbalign.h:4, from mbalign.c:176: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mbalign.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: mbalign.c,v 6.43 2006/02/02 17:57:34 papadopo Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF vecscrn.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vecscrn.h:74, from vecscrn.c:103: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ vecscrn.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: vecscrn.c,v 6.137 2005/12/27 14:46:44 madden Exp $"; ^~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF mblast.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from mblast.c:710: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~ At top level: mblast.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: mblast.c,v 6.215 2006/09/21 13:42:37 madden Exp $"; ^~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF rpsutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/rpsutil.h:128, from rpsutil.c:281: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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])); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ At top level: rpsutil.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: rpsutil.c,v 6.76 2007/05/07 13:30:54 kans Exp $"; ^~~~~ rpsutil.c: In function ‘RPSAlignTraceBack’: rpsutil.c:1444:32: warning: ‘posMatrix’ may be used uninitialized in this function [-Wmaybe-uninitialized] search->sbp->posMatrix = posMatrix; ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ rpsutil.c:1433:22: warning: ‘rev_subject_length’ may be used uninitialized in this function [-Wmaybe-uninitialized] seqalign = BlastGetGapAlgnTbck (search, 0, TRUE, FALSE, ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ subject, subject_length, ~~~~~~~~~~~~~~~~~~~~~~~~ rev_subject, rev_subject_length); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ rpsutil.c: In function ‘RPSCalcEValue’: rpsutil.c:1269:30: warning: ‘posMatrix’ may be used uninitialized in this function [-Wmaybe-uninitialized] search->sbp->posMatrix = posMatrix; ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF kappa.c kappa.c: In function ‘Kappa_SequenceGetProteinRange’: kappa.c:1399:7: warning: unused variable ‘i’ [-Wunused-variable] int i; ^ kappa.c: At top level: kappa.c:2203:5: warning: initialization from incompatible pointer type [-Wincompatible-pointer-types] Kappa_SequenceGetRange, ^~~~~~~~~~~~~~~~~~~~~~ kappa.c:2203:5: note: (near initialization for ‘redo_align_callbacks.get_range’) kappa.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: kappa.c,v 6.93 2012/04/30 12:45:01 camacho Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF xmlblast.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/xmlblast.h:89, from xmlblast.c:171: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ xmlblast.c: In function ‘PSIXmlInit’: xmlblast.c:1239:13: warning: variable ‘retval’ set but not used [-Wunused-but-set-variable] Boolean retval = FALSE; ^~~~~~ At top level: xmlblast.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: xmlblast.c,v 6.41 2007/05/07 13:30:54 kans Exp $"; ^~~~~ 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, ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ is_ooframe, mask_loc)) == NULL) ~~~~~~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF bxmlobj.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from bxmlobj.c:3: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~~~ At top level: bxmlobj.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: bxmlobj.c,v 6.11 2006/09/18 15:20:39 bealer Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF dotseq.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/seqport.h:47, from ../include/tofasta.h:47, from ../include/dotseq.h:63, from dotseq.c:86: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: dotseq.c,v 6.14 2006/07/13 17:16:20 bollin Exp $"; ^~~~~ dotseq.c: In function ‘DOT_BuildHitList’: dotseq.c:1286:9: warning: ‘index’ may be used uninitialized in this function [-Wmaybe-uninitialized] while (i>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF spidey.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/spidey.h:102, from spidey.c:259: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ spidey.c: In function ‘SPI_PrintResult’: spidey.c:1736:21: warning: variable ‘offset’ set but not used [-Wunused-but-set-variable] Int4 offset; ^~~~~~ spidey.c: In function ‘SPI_AlnSinglemRNAToPieces’: spidey.c:2850:19: warning: suggest parentheses around comparison in operand of ‘==’ [-Wparentheses] if (spot->from == 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)); ^~~~~~~~~~~~~~~ spidey.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: spidey.c,v 6.73 2006/06/01 14:55:31 kskatz Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF motif.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/motif.h:45, from motif.c:47: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ motif.c: In function ‘MOT_FindPolyA’: motif.c:86:18: warning: variable ‘buf’ set but not used [-Wunused-but-set-variable] Uint1 buf[MOT_WINSIZE]; ^~~ motif.c: In function ‘MOT_FindKozak’: motif.c:216:18: warning: variable ‘buf’ set but not used [-Wunused-but-set-variable] Uint1 buf[MOT_WINSIZE]; ^~~ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from ../include/actutils.h:105, from ../include/motif.h:48, from motif.c:47: motif.c: At top level: ../include/objalignloc.h:80:27: warning: ‘Loc_locFree’ declared ‘static’ but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locFree PROTO ((Loc_locPtr )); ^~~~~~~~~~~ ../include/objalignloc.h:81:27: warning: ‘Loc_locAsnRead’ declared ‘static’ but never defined [-Wunused-function] static Loc_locPtr LIBCALL Loc_locAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^~~~~~~~~~~~~~ ../include/objalignloc.h:82:24: warning: ‘Loc_locAsnWrite’ declared ‘static’ but never defined [-Wunused-function] static Boolean LIBCALL Loc_locAsnWrite PROTO (( Loc_locPtr , AsnIoPtr, AsnTypePtr)); ^~~~~~~~~~~~~~~ motif.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: motif.c,v 6.7 2007/05/07 13:30:54 kans Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blfmtutl.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from blfmtutl.c:172: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ blfmtutl.c: In function ‘CBStatisticsGetReference’: blfmtutl.c:590:4: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] } else ^~~~ blfmtutl.c:592:4: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ add_string_to_bufferEx("Schaffer, Alejandro A., L. Aravind, Thomas L. Madden,", &ret_buffer, &ret_buffer_length, TRUE); ^~~~~~~~~~~~~~~~~~~~~~ At top level: blfmtutl.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blfmtutl.c,v 1.43 2011/10/28 14:24:13 coulouri Exp $"; ^~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF matrix_frequency_data.c matrix_frequency_data.c:31:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF compo_mode_condition.c compo_mode_condition.c:34:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF composition_adjustment.c composition_adjustment.c:32:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF nlm_linear_algebra.c nlm_linear_algebra.c:31:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF optimize_target_freq.c optimize_target_freq.c:86:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF compo_heap.c compo_heap.c:33:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF smith_waterman.c smith_waterman.c:32:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF redo_alignment.c redo_alignment.c:33:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF unified_pvalues.c unified_pvalues.c:33:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF gdfontg.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbistd.h:103, from ../include/gifgen.h:115, from gdfontg.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF gdfontmb.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbistd.h:103, from ../include/gifgen.h:115, from gdfontmb.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF gdfontt.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbistd.h:103, from ../include/gifgen.h:115, from gdfontt.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF pictogif.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from pictogif.c:50: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF gdfontl.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbistd.h:103, from ../include/gifgen.h:115, from gdfontl.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF gdfonts.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbistd.h:103, from ../include/gifgen.h:115, from gdfonts.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -DWIN_GIF -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbidrwg.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ncbidrwg.c:43: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘s_DoQuadrant’: ncbidrwg.c:5619:10: warning: ‘rr.bottom’ may be used uninitialized in this function [-Wmaybe-uninitialized] ry = rr.bottom - rr.top; ~~^~~~~~~ ncbidrwg.c:5618:10: warning: ‘rr.right’ may be used uninitialized in this function [-Wmaybe-uninitialized] rx = rr.right - rr.left; ~~^~~~~~ ncbidrwg.c:5619:22: warning: ‘rr.top’ may be used uninitialized in this function [-Wmaybe-uninitialized] ry = rr.bottom - rr.top; ~~^~~~ ncbidrwg.c:5618:22: warning: ‘rr.left’ may be used uninitialized in this function [-Wmaybe-uninitialized] rx = rr.right - rr.left; ~~^~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF algorend.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/viewer3d.h:125, from algorend.c:584: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:2265:13: warning: ‘LabelGroupOnOffProc’ defined but not used [-Wunused-function] static void LabelGroupOnOffProc(GrouP g) ^~~~~~~~~~~~~~~~~~~ algorend.c:717:16: warning: ‘Cn3d_CopyToNode’ defined but not used [-Wunused-variable] static Boolean Cn3d_CopyToNode = FALSE; ^~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF cn3dmsel.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from cn3dmsel.c:60: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF cn3dopen.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from cn3dopen.c:394: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:431:15: warning: ‘Cn3D_bOpenBrowse’ defined but not used [-Wunused-variable] static ButtoN Cn3D_bOpenBrowse; ^~~~~~~~~~~~~~~~ cn3dopen.c:430:15: warning: ‘Cn3D_wOpen’ defined but not used [-Wunused-variable] static WindoW Cn3D_wOpen; ^~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF cn3dsave.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from cn3dsave.c:157: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from cn3dsave.c:171: cn3dsave.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)); ^~~~~~~~~~~~~~~ cn3dsave.c:184:15: warning: ‘Cn3D_bFeatOn’ defined but not used [-Wunused-variable] static ButtoN Cn3D_bFeatOn; ^~~~~~~~~~~~ In file included from cn3dsave.c:165:0: ../include/asnmime.h:119:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/asnmime.h:118:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/asnmime.h:117:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^~~ ../include/asnmime.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "asnmime.h12"; ^~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF cn3dxprt.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from cn3dxprt.c:81: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF cn3dwin.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from cn3dwin.c:647: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:1626:13: warning: ‘HLmolecule_MA’ defined but not used [-Wunused-function] static void HLmolecule_MA(MAPtr ma, ^~~~~~~~~~~~~ cn3dwin.c:1428:13: warning: ‘HLatom_MA’ defined but not used [-Wunused-function] static void HLatom_MA(MAPtr ma, ^~~~~~~~~ cn3dwin.c:929:13: warning: ‘Cn3D_MoveCB’ defined but not used [-Wunused-function] static void Cn3D_MoveCB(IteM i) ^~~~~~~~~~~ cn3dwin.c:922:13: warning: ‘Cn3D_ZoomCB’ defined but not used [-Wunused-function] static void Cn3D_ZoomCB(IteM i) ^~~~~~~~~~~ cn3dwin.c:688:13: warning: ‘Cn3D_iModelCtrl’ defined but not used [-Wunused-variable] static IteM Cn3D_iModelCtrl = NULL; ^~~~~~~~~~~~~~~ cn3dwin.c:682:13: warning: ‘Cn3D_iLabelCtrl’ defined but not used [-Wunused-variable] static IteM Cn3D_iLabelCtrl = NULL; ^~~~~~~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF cn3dentr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/cn3dmain.h:182, from cn3dentr.c:81: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF cn3dmsg.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from cn3dmsg.c:254: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF cn3dmatn.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from cn3dmatn.c:173: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF cn3dmodl.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from cn3dmodl.c:302: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF cn3dshim.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/cn3dmain.h:182, from cn3dshim.c:131: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF cn3dmesh.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from cn3dmesh.c:46: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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), ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &(Mesh.NumTri)); ~~~~~~~~~~~~~~~ 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", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &(Mesh.Vertices[i].Vertex[0]), ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &(Mesh.Vertices[i].Vertex[1]), ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &(Mesh.Vertices[i].Vertex[2]), ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &(Mesh.Vertices[i].Normal[0]), ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &(Mesh.Vertices[i].Normal[1]), ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &(Mesh.Vertices[i].Normal[2]), &fDummy, &fDummy, &fDummy, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &lDummy, &lDummy, &lDummy); ~~~~~~~~~~~~~~~~~~~~~~~~~~ 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], ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &Mesh.Edges[i].Vertex[1], &lDummy, &lDummy, &lDummy); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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], ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &Mesh.Tri[i].Edge[1], &Mesh.Tri[i].Edge[2], ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &Mesh.Tri[i].Vertex[0], &Mesh.Tri[i].Vertex[1], ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &Mesh.Tri[i].Vertex[2], &lDummy, &Mesh.Tri[i].Atom, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &lDummy); ~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF cn3dstyl.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from cn3dstyl.c:72: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:456:30: warning: ‘GetThisSpecialAlgorRenderSet’ defined but not used [-Wunused-function] static SpecialFeatureInfoPtr GetThisSpecialAlgorRenderSet(Int2 id) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ cn3dstyl.c:149:15: warning: ‘bResetFeatureTitle’ defined but not used [-Wunused-variable] static ButtoN bResetFeatureTitle; ^~~~~~~~~~~~~~~~~~ cn3dstyl.c:144:14: warning: ‘Cn3D_pupModelStyleItem’ defined but not used [-Wunused-variable] static PopuP Cn3D_pupModelStyleItem; ^~~~~~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF seqcons.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from seqcons.c:112: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:263:19: warning: ‘CSC_Blosum62Fields’ defined but not used [-Wunused-const-variable=] static const char CSC_Blosum62Fields[CSC_BLOSUMSIZE] = ^~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL algorend.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/shim3d.h:153, from algorend.c:582: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:789:21: warning: ‘currentIndex’ defined but not used [-Wunused-variable] static Nlm_Int2 currentIndex = -1, currentSize = -1; ^~~~~~~~~~~~ algorend.c:789:40: warning: ‘currentSize’ defined but not used [-Wunused-variable] static Nlm_Int2 currentIndex = -1, currentSize = -1; ^~~~~~~~~~~ algorend.c:790:24: warning: ‘currentBold’ defined but not used [-Wunused-variable] static Nlm_Boolean currentBold = FALSE, currentItalic = FALSE, ^~~~~~~~~~~ algorend.c:790:45: warning: ‘currentItalic’ defined but not used [-Wunused-variable] static Nlm_Boolean currentBold = FALSE, currentItalic = FALSE, ^~~~~~~~~~~~~ algorend.c:791:24: warning: ‘currentUnderlined’ defined but not used [-Wunused-variable] currentUnderlined = FALSE; ^~~~~~~~~~~~~~~~~ algorend.c:2265:13: warning: ‘LabelGroupOnOffProc’ defined but not used [-Wunused-function] static void LabelGroupOnOffProc(GrouP g) ^~~~~~~~~~~~~~~~~~~ algorend.c:717:16: warning: ‘Cn3d_CopyToNode’ defined but not used [-Wunused-variable] static Boolean Cn3d_CopyToNode = FALSE; ^~~~~~~~~~~~~~~ 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:3449:41: warning: ‘fZTo’ may be used uninitialized in this function [-Wmaybe-uninitialized] fXt = (fYCen - fYFrom) * (fZCen - fZTo) - (fZCen - fZFrom) * (fYCen - fYTo); ~~~~~~~^~~~~~~ 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:3449:58: warning: ‘fZFrom’ may be used uninitialized in this function [-Wmaybe-uninitialized] fXt = (fYCen - fYFrom) * (fZCen - fZTo) - (fZCen - fZFrom) * (fYCen - fYTo); ~~~~~~~^~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dmsel.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from cn3dmsel.c:60: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv cn3dmsel.o cn3dmsel.glo mv cn3dmsel.tmp cn3dmsel.o mv cn3dopen.o cn3dopen.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dopen.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from cn3dopen.c:394: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:431:15: warning: ‘Cn3D_bOpenBrowse’ defined but not used [-Wunused-variable] static ButtoN Cn3D_bOpenBrowse; ^~~~~~~~~~~~~~~~ cn3dopen.c:430:15: warning: ‘Cn3D_wOpen’ defined but not used [-Wunused-variable] static WindoW Cn3D_wOpen; ^~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dsave.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from cn3dsave.c:157: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ../include/samutil.h:234:0, from ../include/alignmgr.h:266, from cn3dsave.c:171: cn3dsave.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)); ^~~~~~~~~~~~~~~ cn3dsave.c:184:15: warning: ‘Cn3D_bFeatOn’ defined but not used [-Wunused-variable] static ButtoN Cn3D_bFeatOn; ^~~~~~~~~~~~ In file included from cn3dsave.c:165:0: ../include/asnmime.h:119:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/asnmime.h:118:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/asnmime.h:117:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^~~ ../include/asnmime.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "asnmime.h12"; ^~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dxprt.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from cn3dxprt.c:81: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dwin.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from cn3dwin.c:647: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:1626:13: warning: ‘HLmolecule_MA’ defined but not used [-Wunused-function] static void HLmolecule_MA(MAPtr ma, ^~~~~~~~~~~~~ cn3dwin.c:1428:13: warning: ‘HLatom_MA’ defined but not used [-Wunused-function] static void HLatom_MA(MAPtr ma, ^~~~~~~~~ cn3dwin.c:1349:25: warning: ‘DoHighlightSeg’ defined but not used [-Wunused-function] static void LIBCALLBACK DoHighlightSeg(PFB pfbThis, ^~~~~~~~~~~~~~ cn3dwin.c:979:13: warning: ‘Cn3D_Default_HLColor’ defined but not used [-Wunused-function] static void Cn3D_Default_HLColor(IteM i) ^~~~~~~~~~~~~~~~~~~~ cn3dwin.c:953:13: warning: ‘Cn3D_BgColor’ defined but not used [-Wunused-function] static void Cn3D_BgColor(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:929:13: warning: ‘Cn3D_MoveCB’ defined but not used [-Wunused-function] static void Cn3D_MoveCB(IteM i) ^~~~~~~~~~~ cn3dwin.c:922:13: warning: ‘Cn3D_ZoomCB’ defined but not used [-Wunused-function] static void Cn3D_ZoomCB(IteM i) ^~~~~~~~~~~ cn3dwin.c:719:14: warning: ‘Cn3D_gViewCtrl’ defined but not used [-Wunused-variable] static GrouP Cn3D_gViewCtrl; ^~~~~~~~~~~~~~ cn3dwin.c:713:14: warning: ‘Cn3D_gViewer’ defined but not used [-Wunused-variable] static GrouP Cn3D_gViewer; ^~~~~~~~~~~~ cn3dwin.c:688:13: warning: ‘Cn3D_iModelCtrl’ defined but not used [-Wunused-variable] static IteM Cn3D_iModelCtrl = NULL; ^~~~~~~~~~~~~~~ cn3dwin.c:682:13: warning: ‘Cn3D_iLabelCtrl’ defined but not used [-Wunused-variable] static IteM Cn3D_iLabelCtrl = NULL; ^~~~~~~~~~~~~~~ cn3dwin.c:676:14: warning: ‘Cn3D_Vy’ defined but not used [-Wunused-variable] static Uint2 Cn3D_Vy, Cn3D_Rx; ^~~~~~~ mv cn3dwin.o cn3dwin.glo mv cn3dwin.tmp cn3dwin.o mv cn3dentr.o cn3dentr.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dentr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/cn3dmain.h:182, from cn3dentr.c:81: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ mv cn3dentr.o cn3dentr.glo mv cn3dentr.tmp cn3dentr.o mv cn3dmsg.o cn3dmsg.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dmsg.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from cn3dmsg.c:254: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dmatn.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from cn3dmatn.c:173: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dmodl.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from cn3dmodl.c:302: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dshim.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/cn3dmain.h:182, from cn3dshim.c:131: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 2 invokes undefined behavior [-Waggressive-loop-optimizations] BoundBox->x[i] = pflvDataThis[i / (int) 2]; ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ cn3dshim.c:390:17: note: within this loop for (i = 0; i < 6; i++) { ^~~ cn3dshim.c:399:36: warning: iteration 1 invokes undefined behavior [-Waggressive-loop-optimizations] BoundBox->x[i + 1]) BoundBox->x[i + 1] = ~~~~~~~~~~~^~~~~~~ cn3dshim.c:395:17: note: within this 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dmesh.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from cn3dmesh.c:46: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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), ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &(Mesh.NumTri)); ~~~~~~~~~~~~~~~ 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", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &(Mesh.Vertices[i].Vertex[0]), ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &(Mesh.Vertices[i].Vertex[1]), ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &(Mesh.Vertices[i].Vertex[2]), ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &(Mesh.Vertices[i].Normal[0]), ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &(Mesh.Vertices[i].Normal[1]), ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &(Mesh.Vertices[i].Normal[2]), &fDummy, &fDummy, &fDummy, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &lDummy, &lDummy, &lDummy); ~~~~~~~~~~~~~~~~~~~~~~~~~~ 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], ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &Mesh.Edges[i].Vertex[1], &lDummy, &lDummy, &lDummy); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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], ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &Mesh.Tri[i].Edge[1], &Mesh.Tri[i].Edge[2], ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &Mesh.Tri[i].Vertex[0], &Mesh.Tri[i].Vertex[1], ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &Mesh.Tri[i].Vertex[2], &lDummy, &Mesh.Tri[i].Atom, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &lDummy); ~~~~~~~~ mv cn3dmesh.o cn3dmesh.glo mv cn3dmesh.tmp cn3dmesh.o mv cn3dstyl.o cn3dstyl.tmp gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL cn3dstyl.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from cn3dstyl.c:72: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:456:30: warning: ‘GetThisSpecialAlgorRenderSet’ defined but not used [-Wunused-function] static SpecialFeatureInfoPtr GetThisSpecialAlgorRenderSet(Int2 id) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ cn3dstyl.c:149:15: warning: ‘bResetFeatureTitle’ defined but not used [-Wunused-variable] static ButtoN bResetFeatureTitle; ^~~~~~~~~~~~~~~~~~ cn3dstyl.c:144:14: warning: ‘Cn3D_pupModelStyleItem’ defined but not used [-Wunused-variable] static PopuP Cn3D_pupModelStyleItem; ^~~~~~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF -D_OPENGL seqcons.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from seqcons.c:112: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:263:19: warning: ‘CSC_Blosum62Fields’ defined but not used [-Wunused-const-variable=] static const char CSC_Blosum62Fields[CSC_BLOSUMSIZE] = ^~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF aa_ungapped.c aa_ungapped.c:32:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_diagnostics.c blast_diagnostics.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_engine.c blast_engine.c:57:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_extend.c blast_extend.c:32:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_filter.c blast_filter.c:32:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_gapalign.c blast_gapalign.c:34:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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; ^~~~~~~ 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) ^~~~~~~~~~~~~~~~~~~ blast_hits.c:34:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_itree.c blast_itree.c:35:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_lookup.c blast_lookup.c:34:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_message.c blast_message.c:33:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_options.c blast_options.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_seg.c blast_seg.c:38:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_seqsrc.c blast_seqsrc.c:38:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_sw.c blast_sw.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_setup.c blast_setup.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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; ^~~~ 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_) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ blast_stat.c:52:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_traceback.c blast_traceback.c:52:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ 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, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ hsp->context, hsp->query.frame, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ hsp->subject.frame, 0, &new_esp, &new_hsp); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ blast_traceback.c:365:22: note: ‘qe’ was declared here Int4 qs, qe, ss, se, es, ee, os; ^~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_util.c blast_util.c: In function ‘BlastProgram2Number’: blast_util.c:309:10: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] else if (strcasecmp("phiblastp", program) == 0) ^~ blast_util.c:312:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ return 0; ^~~~~~ At top level: blast_util.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF gapinfo.c gapinfo.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF greedy_align.c greedy_align.c:38:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF link_hsps.c link_hsps.c: In function ‘s_FwdCompareHSPs’: link_hsps.c:138:10: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] else if (h1->context > h2->context) ^~ link_hsps.c:141:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (h1->query.offset < h2->query.offset) ^~ At top level: link_hsps.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF lookup_wrap.c lookup_wrap.c:39:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF na_ungapped.c na_ungapped.c:32:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbi_math.c ncbi_math.c:32:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF ncbi_std.c ncbi_std.c:33:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF pattern.c pattern.c:58:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF phi_extend.c phi_extend.c:35:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF phi_lookup.c phi_lookup.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF lookup_util.c lookup_util.c:32:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_encoding.c blast_encoding.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_psi.c blast_psi.c:2:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_psi_priv.c blast_psi_priv.c:2:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_kappa.c blast_kappa.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF matrix_freq_ratios.c matrix_freq_ratios.c:2:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_hspstream.c blast_hspstream.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_parameters.c blast_parameters.c:32:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_posit.c blast_posit.c:2:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF phi_gapalign.c phi_gapalign.c:57:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_program.c blast_program.c:2:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_query_info.c blast_query_info.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_tune.c blast_tune.c:37:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_aalookup.c blast_aalookup.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_nalookup.c blast_nalookup.c:38:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_aascan.c blast_aascan.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_nascan.c blast_nascan.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_dynarray.c blast_dynarray.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF split_query.c split_query.c:34:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF gencode_singleton.c gencode_singleton.c:35:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF index_ungapped.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF hspfilter_collector.c hspfilter_collector.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_api.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/algo/blast/api/blast_tabular.h:42, from ../include/algo/blast/api/blast_api.h:47, from blast_api.c:38: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_input.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objloc.h:85, from blast_input.c:34: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ blast_input.c:2:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blast_input.c,v 1.32 2008/06/09 17:28:41 madden Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_format.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/algo/blast/api/blast_format.h:45, from blast_format.c:38: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ blast_format.c: In function ‘s_MBXmlInit’: blast_format.c:255:13: warning: variable ‘retval’ set but not used [-Wunused-but-set-variable] Boolean retval = FALSE; ^~~~~~ blast_format.c: In function ‘s_LoadMatrix’: blast_format.c:673:20: warning: array subscript has type ‘char’ [-Wchar-subscripts] ss[pchars[i]][pchars[j]] = pack_matrix->scores[(i*dim)+j]; ^ blast_format.c:673:31: warning: array subscript has type ‘char’ [-Wchar-subscripts] ss[pchars[i]][pchars[j]] = pack_matrix->scores[(i*dim)+j]; ^ At top level: blast_format.c:35:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blast_format.c,v 1.119 2011/05/26 20:59:45 camacho Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_mtlock.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbistd.h:103, from ../include/ncbithr.h:87, from blast_mtlock.c:39: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ blast_mtlock.c:35:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_options_api.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_prelim.c blast_prelim.c: In function ‘Blast_PrelimSearchThreadRun’: blast_prelim.c:100:9: warning: variable ‘status’ set but not used [-Wunused-but-set-variable] Int2 status = 0; ^~~~~~ At top level: blast_prelim.c:34:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blast_prelim.c,v 1.8 2006/05/24 21:17:50 camacho Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_returns.c blast_returns.c:32:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blast_returns.c,v 1.39 2010/06/10 13:44:46 madden Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_seq.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/seqport.h:47, from blast_seq.c:34: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ blast_seq.c: In function ‘s_SeqLocFillSequenceBuffer’: blast_seq.c:529:10: warning: variable ‘seq_code’ set but not used [-Wunused-but-set-variable] Uint1 seq_code, strand; ^~~~~~~~ At top level: blast_seq.c:2:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blast_seq.c,v 1.89 2008/06/09 17:29:14 madden Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_seqalign.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/readdb.h:757, from ../include/algo/blast/api/blast_seqalign.h:42, from blast_seqalign.c:35: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ blast_seqalign.c: In function ‘s_HSPListToSeqAlignUngapped’: blast_seqalign.c:343:26: warning: variable ‘hspset_cnt_old’ set but not used [-Wunused-but-set-variable] Int4 hsp_cnt, index2, hspset_cnt_old; ^~~~~~~~~~~~~~ At top level: blast_seqalign.c:32:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blast_seqalign.c,v 1.64 2010/02/12 20:54:54 maning Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_tabular.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/algo/blast/api/blast_tabular.h:42, from blast_tabular.c:35: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ blast_tabular.c:32:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blast_tabular.c,v 1.41 2009/06/01 14:33:38 maning Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF repeats_filter.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objloc.h:85, from ../include/algo/blast/api/repeats_filter.h:41, from repeats_filter.c:41: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ repeats_filter.c:2:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: repeats_filter.c,v 1.19 2007/12/19 21:56:48 camacho Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF seqsrc_multiseq.c seqsrc_multiseq.c:33:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: seqsrc_multiseq.c,v 1.28 2011/05/26 20:59:45 camacho Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF seqsrc_readdb.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/readdb.h:757, from ../include/algo/blast/api/seqsrc_readdb.h:38, from seqsrc_readdb.c:35: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ seqsrc_readdb.c: In function ‘s_ReaddbGetNextChunk’: seqsrc_readdb.c:375:11: warning: variable ‘real_readdb_entries’ set but not used [-Wunused-but-set-variable] Uint4 real_readdb_entries; ^~~~~~~~~~~~~~~~~~~ At top level: seqsrc_readdb.c:32:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: seqsrc_readdb.c,v 1.60 2011/05/26 20:59:45 camacho Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF dust_filter.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objloc.h:85, from ../include/algo/blast/api/dust_filter.h:41, from dust_filter.c:41: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~~~~~~~~~~ At top level: dust_filter.c:2:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: dust_filter.c,v 1.12 2007/12/19 22:05:56 camacho Exp $"; ^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF blast_message_api.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from blast_message_api.c:33: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -D_PNG -I../include -DWIN_MOTIF hspfilter_queue.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbistd.h:103, from ../include/ncbithr.h:87, from hspfilter_queue.c:41: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ hspfilter_queue.c: In function ‘s_BlastHSPQueueInit’: hspfilter_queue.c:65:24: warning: unused variable ‘q_data’ [-Wunused-variable] BlastHSPQueueData * q_data = data; ^~~~~~ At top level: hspfilter_queue.c:36:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = ^~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from asnbuild.h:70, from asntool.c:64: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from asnbuild.h:70, from asncode.c:52: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~~~~~ At top level: asncode.c:291:17: warning: ‘defbyte’ defined but not used [-Wunused-variable] static CharPtr defbyte = "ASNCODE_BYTEVAL_SLOT"; ^~~~~~~ asncode.c:290:17: warning: ‘defbool’ defined but not used [-Wunused-variable] static CharPtr defbool = "ASNCODE_BOOLVAL_SLOT"; ^~~~~~~ asncode.c:289:17: warning: ‘defreal’ defined but not used [-Wunused-variable] static CharPtr defreal = "ASNCODE_REALVAL_SLOT"; ^~~~~~~ asncode.c:288:17: warning: ‘defbigint’ defined but not used [-Wunused-variable] static CharPtr defbigint = "ASNCODE_BIGINTVAL_SLOT"; ^~~~~~~~~ asncode.c:286:17: warning: ‘defptr’ defined but not used [-Wunused-variable] static CharPtr defptr = "ASNCODE_PTRVAL_SLOT"; ^~~~~~ ../lib/libncbi.a(ncbifile.o): In function `Nlm_TmpNam': ./build/ncbifile.c:1209: warning: the use of `tempnam' is dangerous, better use `mkstemp' cp -p asntool ../bin make[2]: Leaving directory '/<>/build' /usr/bin/make -C build -f makedemo.unx LCL=lnx CC="gcc " LDFLAGS1="-g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='\"Aug 12 2016\"' -DBUILD_TIME='\"20:29:37\"' -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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='\"Aug 12 2016\"' -DBUILD_TIME='\"20:29:37\"'" VIBLIBS= VIBFLAG= LIB50=-lpcre make[2]: Entering directory '/<>/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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib testcore.c -lncbi -lm In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from testcore.c:42: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ testcore.c:337:13: warning: ‘TestStrings’ defined but not used [-Wunused-function] static void TestStrings (void) ^~~~~~~~~~~ gcc -o makeset -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib makeset.c -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/all.h:9, from makeset.c:9: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib getmesh.c -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/allpub.h:9, from getmesh.c:8: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -o indexpub -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib indexpub.c -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/allpub.h:9, from indexpub.c:7: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -o getpub -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib getpub.c -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/allpub.h:9, from getpub.c:7: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -o testobj -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib testobj.c -lncbiobj -lncbi -lm In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objmedli.h:80, from testobj.c:8: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -o seqtest -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib seqtest.c -lncbiobj -lncbi -lm In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/seqport.h:47, from seqtest.c:8: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -o dosimple -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib dosimple.c -lncbiobj -lncbi -lm In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/simple.h:63, from dosimple.c:7: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -o asn2ff -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib asn2ff.c -lncbiobj -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/accentr.h:125, from asn2ff.c:7: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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: At top level: ../include/asnprt.h:61:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/asnprt.h:60:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/asnprt.h:59:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^~~ ../include/asnprt.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^~~~~~~~~~~ asn2ff.c: In function ‘Nlm_Main’: asn2ff.c:404:7: warning: ‘atp2’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (atp == atp2) { /* top level Seq-entry */ ^ asn2ff.c:351:7: warning: ‘atp1’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (atp == atp1) { ^ gcc -o checksub -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib checksub.c -lncbiobj -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/objsub.h:76, from checksub.c:8: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -o asndhuff -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib asndhuff.c -lncbicdr -lncbiobj -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/casn.h:96, from asndhuff.c:47: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib entrcmd.c -lncbiacc -lncbicdr -lncbiobj -lncbi -lm In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from entrcmd.c:113: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib errhdr.c -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from errhdr.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ In file included from /usr/include/string.h:635:0, 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/s390x-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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib cdscan.c -lncbiacc -lncbicdr -lncbiobj -lncbi -lm In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from cdscan.c:83: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ cdscan.c:576:13: warning: ‘SeqEntryToFeat’ defined but not used [-Wunused-function] static void SeqEntryToFeat (SeqEntryPtr sep, FILE *fp) ^~~~~~~~~~~~~~ cdscan.c:392:13: warning: ‘GenBankPubs’ defined but not used [-Wunused-function] static void GenBankPubs (SeqEntryPtr sep, FILE * fp) ^~~~~~~~~~~ cdscan.c:133:13: warning: ‘root’ defined but not used [-Wunused-variable] static Char root [PATH_MAX]; ^~~~ gcc -o findspl -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib findspl.c -lncbiacc -lncbiobj -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/accentr.h:125, from findspl.c:62: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -o ncbisort -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib sortcmd.c -lncbitool -lblastcompadj \ -lncbi -lm In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ncbisort.h:62, from sortcmd.c:64: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -o fa2htgs -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib fa2htgs.c -lncbiobj -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/objsub.h:76, from ../include/subutil.h:50, from fa2htgs.c:30: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ fa2htgs.c: In function ‘Nlm_Main’: fa2htgs.c:474:6: warning: ‘dsp’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (dsp != NULL && dsp->choice == 2) { ^ fa2htgs.c:448:16: note: ‘dsp’ was declared here DeltaSeqPtr dsp; ^~~ gcc -o fastacmd -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib fastacmd.c -lncbitool -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from fastacmd.c:164: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ fastacmd.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: fastacmd.c,v 6.36 2005/06/22 13:55:22 coulouri Exp $"; ^~~~~ gcc -o formatdb -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib formatdb.c -lncbitool -lncbiobj -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from formatdb.c:417: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ In file included from ../include/sqnutils.h:51:0, from formatdb.c:421: ../include/objentgene.h:176:33: warning: ‘Method_methodFree’ declared ‘static’ but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^~~~~~~~~~~~~~~~~ ../include/objentgene.h:177:33: warning: ‘Method_methodAsnRead’ declared ‘static’ but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^~~~~~~~~~~~~~~~~~~~ ../include/objentgene.h:178:24: warning: ‘Method_methodAsnWrite’ declared ‘static’ but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^~~~~~~~~~~~~~~~~~~~~ formatdb.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: formatdb.c,v 6.104 2007/08/21 20:07:49 kans Exp $"; ^~~~~ gcc -o formatrpsdb -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib formatrpsdb.c -lncbitool \ -lblast -lncbiobj -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from formatrpsdb.c:142: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ In file included from ../include/sqnutils.h:51:0, from formatrpsdb.c:145: ../include/objentgene.h:176:33: warning: ‘Method_methodFree’ declared ‘static’ but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^~~~~~~~~~~~~~~~~ ../include/objentgene.h:177:33: warning: ‘Method_methodAsnRead’ declared ‘static’ but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^~~~~~~~~~~~~~~~~~~~ ../include/objentgene.h:178:24: warning: ‘Method_methodAsnWrite’ declared ‘static’ but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^~~~~~~~~~~~~~~~~~~~~ formatrpsdb.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: formatrpsdb.c,v 1.29 2010/10/20 13:09:42 madden Exp $"; ^~~~~ formatrpsdb.c: In function ‘RPSUpdateStatistics’: formatrpsdb.c:440:43: warning: ‘j’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (freq_list != NULL || i < seq_size || j < alphabet_size) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ formatrpsdb.c: In function ‘RPSUpdatePSSM’: formatrpsdb.c:575:22: warning: ‘j’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (i < seq_size || j < alphabet_size) { ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ gcc -o blastall -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib blastall.c -lblastapi \ -lblast -lncbitool -lncbiobj -lncbi blastall.c: In function ‘Main_old’: blastall.c:1812:26: warning: variable ‘nuc_concat’ set but not used [-Wunused-but-set-variable] Boolean concat_done, nuc_concat; ^~~~~~~~~~ In file included from ../include/sqnutils.h:51:0, from blastall.c:727: blastall.c: At top level: ../include/objentgene.h:176:33: warning: ‘Method_methodFree’ declared ‘static’ but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^~~~~~~~~~~~~~~~~ ../include/objentgene.h:177:33: warning: ‘Method_methodAsnRead’ declared ‘static’ but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^~~~~~~~~~~~~~~~~~~~ ../include/objentgene.h:178:24: warning: ‘Method_methodAsnWrite’ declared ‘static’ but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^~~~~~~~~~~~~~~~~~~~~ blastall.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blastall.c,v 6.206 2011/12/19 18:40:17 gouriano Exp $"; ^~~~~ blastall.c: In function ‘Main_old’: blastall.c:1810:14: warning: ‘fake_bsp_arr’ may be used uninitialized in this function [-Wmaybe-uninitialized] BspArray fake_bsp_arr; /*--KM the array of fake_bsps for indiv. queries */ ^~~~~~~~~~~~ blastall.c:1808:22: warning: ‘seq_annot_arr’ may be used uninitialized in this function [-Wmaybe-uninitialized] SeqAnnotPtrArray seq_annot_arr; ^~~~~~~~~~~~~ blastall.c:2702:81: warning: ‘sap_array’ may be used uninitialized in this function [-Wmaybe-uninitialized] curr_seqalign = (num_queries > 0) ? *(sap_array + sap_iter) : seqalign; ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ blastall.c:1795:10: warning: ‘num_bsps’ may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 num_bsps, index; ^~~~~~~~ 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, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ blast_database, fake_bsp, other_returns, 0, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ message, mask_loc); ~~~~~~~~~~~~~~~~~~ gcc -o blastpgp -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib blastpgp.c -lncbitool \ -lncbiobj -lncbi blastpgp.c: In function ‘PGPFormatFooter’: blastpgp.c:1290:32: warning: variable ‘dbinfo_head’ set but not used [-Wunused-but-set-variable] TxDfDbInfoPtr dbinfo=NULL, dbinfo_head; ^~~~~~~~~~~ blastpgp.c: In function ‘Nlm_Main’: blastpgp.c:1685:14: warning: variable ‘alignCheckpoint’ set but not used [-Wunused-but-set-variable] Boolean alignCheckpoint = FALSE; ^~~~~~~~~~~~~~~ In file included from ../include/sqnutils.h:51:0, from blastpgp.c:561: blastpgp.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 ../include/ddvcreate.h:143, from blastpgp.c:563: ../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)); ^~~~~~~~~~~~~~~ blastpgp.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blastpgp.c,v 6.140 2008/03/31 13:35:18 madden Exp $"; ^~~~~ gcc -o testval -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib testval.c -lncbiobj -lncbi -lm In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/objsub.h:76, from testval.c:9: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ testval.c: In function ‘Nlm_Main’: testval.c:186:7: warning: ‘atp2’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (atp == atp2) /* top level Seq-entry */ ^ testval.c:183:9: warning: ‘atp’ may be used uninitialized in this function [-Wmaybe-uninitialized] while ((atp = AsnReadId(aip, amp, atp)) != NULL) ^ gcc -o seedtop -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib seedtop.c -lncbitool \ -lncbiobj -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from seedtop.c:88: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ seedtop.c: In function ‘Nlm_Main’: seedtop.c:363:36: warning: suggest parentheses around assignment used as truth value [-Wparentheses] &error_returns, &info_vnp,hitArraySz)) { ^ At top level: seedtop.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: seedtop.c,v 6.19 2008/01/09 19:17:49 merezhuk Exp $"; ^~~~~ gcc -o makemat -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib makemat.c -lncbitool \ -lncbiobj -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from makemat.c:40: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ In file included from ../include/sqnutils.h:51:0, from makemat.c:52: ../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)); ^~~~~~~~~~~~~~~~~~~~~ makemat.c: In function ‘convertToMatrices’: makemat.c:277:13: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(profilesFile,"%s", profileFileName); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ makemat.c:279:13: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(profilesFile,"%s", relativeProfileFileName); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ makemat.c:290:13: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(sequencesFile,"%s", sequenceFileName); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ makemat.c:292:13: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(sequencesFile,"%s", relativeSequenceFileName); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ At top level: makemat.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: makemat.c,v 6.17 2005/07/28 14:52:22 coulouri Exp $"; ^~~~~ makemat.c: In function ‘makeMatrixName’: makemat.c:97:15: warning: ‘lastc’ may be used uninitialized in this function [-Wmaybe-uninitialized] returnName[lastc] = '.'; ^ makemat.c: In function ‘Nlm_Main’: makemat.c:437:5: warning: ‘sbp’ may be used uninitialized in this function [-Wmaybe-uninitialized] BLAST_ScoreBlkDestruct(sbp); ^~~~~~~~~~~~~~~~~~~~~~~~~~~ makemat.c:244:23: note: ‘sbp’ was declared here BLAST_ScoreBlkPtr sbp; ^~~ In file included from ../include/ncbi.h:59:0, from makemat.c:40: ../include/ncbimem.h:232:23: warning: ‘relativeMatrixFileName’ may be used uninitialized in this function [-Wmaybe-uninitialized] #define MemFree Nlm_MemFree ^~~~~~~~~~~ makemat.c:230:29: note: ‘relativeMatrixFileName’ was declared here Char * matrixFileName, *relativeMatrixFileName; /*file name for corresponding matrix file*/ ^~~~~~~~~~~~~~~~~~~~~~ makemat.c:232:10: warning: ‘prefixLength’ may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 prefixLength; /*length of directoryPrefix*/ ^~~~~~~~~~~~ gcc -o copymat -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib copymat.c -lblast -lncbitool \ -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from copymat.c:181: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ copymat.c: In function ‘RPSCreateLookupFile’: copymat.c:622:10: warning: variable ‘start’ set but not used [-Wunused-but-set-variable] Int4 start, i, header_size, all_length, magicNumber; ^~~~~ copymat.c: In function ‘findTotalLength’: copymat.c:429:5: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile,"%s",underlyingMatrixName); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ copymat.c:430:5: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile,"%d\n", &gap_open); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ copymat.c:431:5: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile,"%d\n", &gap_extend); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ copymat.c:432:5: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%le", &Kungapped); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ copymat.c:433:5: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%le", &Hungapped); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ copymat.c:434:5: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%d", &maxLength); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ copymat.c:435:5: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%d", &dbLength); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ copymat.c:436:5: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%lf", scalingFactor); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ copymat.c:439:9: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%d", &thisLength); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ copymat.c:440:9: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%le", &Kungapped); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ copymat.c: In function ‘readAllMatrices’: copymat.c:383:13: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixnamefp,"%s", oneMatrixFileName); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ copymat.c:385:13: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixnamefp,"%s", relativeMatrixFileName); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ copymat.c: In function ‘readNextMatrix’: copymat.c:299:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(thisMatrixFile, "%d", &lengthInFile); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ copymat.c:301:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(thisMatrixFile,"%s",sequence); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ copymat.c:304:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(thisMatrixFile,"%le", &junkLambda); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ copymat.c:305:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(thisMatrixFile,"%le", &junkK); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ copymat.c:306:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(thisMatrixFile,"%le", &junklogK); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ copymat.c:307:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(thisMatrixFile,"%le", &junkH); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ copymat.c:309:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(thisMatrixFile,"%le", &junkLambda); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ copymat.c:310:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(thisMatrixFile,"%le", &junkK); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ copymat.c:311:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(thisMatrixFile,"%le", &junklogK); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ copymat.c:312:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(thisMatrixFile,"%le", &junkH); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ copymat.c:314:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(thisMatrixFile,"%le", &junkLambda); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ copymat.c:315:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(thisMatrixFile,"%le", &junkK); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ copymat.c:316:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(thisMatrixFile,"%le", &junklogK); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ copymat.c:317:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(thisMatrixFile,"%le\n", &junkH); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ copymat.c:319:5: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result] fgets(rowOfScores, MAXLINELEN, thisMatrixFile); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ At top level: copymat.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: copymat.c,v 6.49 2008/11/04 16:44:38 maning Exp $"; ^~~~~ copymat.c: In function ‘Nlm_Main’: copymat.c:371:10: warning: ‘prefixLength’ may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 prefixLength; /*length of directoryPrefix*/ ^~~~~~~~~~~~ gcc -o impala -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib profiles.c -lncbitool \ -lncbiobj -lncbi -lm In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from profiles.c:85: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ profiles.c: In function ‘Nlm_Main’: profiles.c:1692:8: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (myargs[ARG_ALIGN_VIEW].intvalue == 1 || ^~ profiles.c:1695:3: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (myargs[ARG_ALIGN_VIEW].intvalue == 3 || ^~ profiles.c:1430:16: warning: variable ‘spp’ set but not used [-Wunused-but-set-variable] SeqPortPtr spp=NULL; /*used for filtering*/ ^~~ In file included from ../include/sqnutils.h:51:0, from profiles.c:105: profiles.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)); ^~~~~~~~~~~~~~~~~~~~~ profiles.c: In function ‘findMatchingProfiles’: profiles.c:1104:8: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(sequencesFile,"%s", oneSequenceFileName); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ profiles.c:1106:8: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(sequencesFile,"%s", relativeSequenceFileName); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ profiles.c:1117:8: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(matricesFile,"%s", oneMatrixFileName); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ profiles.c:1119:8: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(matricesFile,"%s", relativeMatrixFileName); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ profiles.c: In function ‘computeL’: profiles.c:379:4: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile,"%s",underlyingMatrixName); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ profiles.c:380:4: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile,"%d\n", &gap_open); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ profiles.c:381:4: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile,"%d\n", &gap_extend); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ profiles.c:382:4: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%le", &Kungapped); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ profiles.c:383:4: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%le", &Hungapped); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ profiles.c:397:4: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%d", &maxLength); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ profiles.c:398:4: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%d", &sequenceDbLength); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ profiles.c:399:4: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%lf", &scalingFactor); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ profiles.c:412:6: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%d", &(dbSeqLengths[profileIndex])); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ profiles.c:414:6: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(matrixAuxiliaryFile, "%le", &(gappedKArray[profileIndex])); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ profiles.c: In function ‘readkbp’: profiles.c:267:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(thisMatrixFile, "%d", &lengthInFile); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ profiles.c:273:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(thisMatrixFile,"%s",sequence); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ profiles.c:276:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(thisMatrixFile,"%le", &junkLambda); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ profiles.c:277:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(thisMatrixFile,"%le", &junkK); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ profiles.c:278:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(thisMatrixFile,"%le", &junklogK); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ profiles.c:279:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(thisMatrixFile,"%le", &junkH); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ profiles.c:281:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf(thisMatrixFile,"%le", &(kbp->Lambda)); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ At top level: profiles.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: profiles.c,v 6.38 2005/07/28 14:52:22 coulouri Exp $"; ^~~~~ profiles.c: In function ‘findMatchingProfiles’: profiles.c:252:15: warning: ‘query’ may be used uninitialized in this function [-Wmaybe-uninitialized] query[c] = ResToInt((Char) query[c]); ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ profiles.c:192:11: note: ‘query’ was declared here Uint1 * query; /*sequence read in*/ ^~~~~ profiles.c:1251:27: warning: ‘subject_id’ may be used uninitialized in this function [-Wmaybe-uninitialized] newSW->subject_id = subject_id; ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 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:983:9: warning: ‘prefixLength’ may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 prefixLength; /*length of directoryPrefix*/ ^~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib megablast.c -lblastapi \ -lblast -lncbitool -lncbiobj -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from megablast.c:656: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ megablast.c: In function ‘Main_old’: megablast.c:1439:4: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else if (myargs[ARG_OUTTYPE].intvalue == MBLAST_DELAYED_TRACEBACK) ^~~~ megablast.c:1444:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ options->megablast_full_deflines = (Boolean) myargs[ARG_FULLID].intvalue; ^~~~~~~ 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)); ^~~~~~~~~~~~~~~~~~~~~ megablast.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: megablast.c,v 6.203 2009/06/01 14:33:38 maning Exp $"; ^~~~~ gcc -o vecscreen -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib vecscreen.c -lncbitool \ -lncbiobj -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from vecscreen.c:57: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib gil2bin.c -lncbitool -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from gil2bin.c:47: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gil2bin.c: In function ‘Nlm_Main’: gil2bin.c:90:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ gil2bin.c:93:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ return 0; ^~~~~~ gcc -o blastclust -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib blastclust.c -lncbitool \ -lncbiobj -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from blastclust.c:189: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blastclust.c,v 6.50 2011/12/19 18:40:17 gouriano Exp $"; ^~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib rpsblast.c -lblastapi \ -lblast -lncbitool -lncbiobj -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/readdb.h:757, from rpsblast.c:328: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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)); ^~~~~~~~~~~~~~~~~~~~~ rpsblast.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: rpsblast.c,v 6.93 2008/07/23 14:06:57 madden Exp $"; ^~~~~ gcc -o asn2xml -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib asn2xml.c -lncbiobj -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/seqport.h:47, from asn2xml.c:21: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -o debruijn -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib debruijn.c -lblast -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from debruijn.c:38: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:394:15: 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:697:12: 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] } ^ At top level: debruijn.c:29:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: debruijn.c,v 1.4 2004/02/09 21:24:59 ucko Exp $"; ^~~~~ gcc -o asn2idx -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib asn2idx.c -lncbiobj -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from asn2idx.c:47: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -o sortbyquote -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib sortbyquote.c -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from sortbyquote.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -o subfuse -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib subfuse.c -lncbiobj -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from subfuse.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -o test_regexp -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib pcretest.c -lpcre gcc -o demo_regexp -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib pcregrep.c -lpcre make[2]: Leaving directory '/<>/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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='\"Aug 12 2016\"' -DBUILD_TIME='\"20:29:37\"' -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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='\"Aug 12 2016\"' -DBUILD_TIME='\"20:29:37\"'" VIBLIBS= VIBFLAG= THREAD_OBJ="ncbithr.o" \ THREAD_OTHERLIBS="-lpthread" blast blastall blastall_old blastpgp seedtop megablast rpsblast blastclust make[2]: Entering directory '/<>/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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from blast_driver.c:40: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ blast_driver.c:38:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blast_driver.c,v 1.129 2007/10/23 16:03:23 madden Exp $"; ^~~~~ gcc -o blastall -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib blastall.c ncbithr.o -lblastapi \ -lblast -lncbitool -lncbiobj -lncbi -lpthread blastall.c: In function ‘Main_old’: blastall.c:1812:26: warning: variable ‘nuc_concat’ set but not used [-Wunused-but-set-variable] Boolean concat_done, nuc_concat; ^~~~~~~~~~ In file included from ../include/sqnutils.h:51:0, from blastall.c:727: blastall.c: At top level: ../include/objentgene.h:176:33: warning: ‘Method_methodFree’ declared ‘static’ but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^~~~~~~~~~~~~~~~~ ../include/objentgene.h:177:33: warning: ‘Method_methodAsnRead’ declared ‘static’ but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^~~~~~~~~~~~~~~~~~~~ ../include/objentgene.h:178:24: warning: ‘Method_methodAsnWrite’ declared ‘static’ but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^~~~~~~~~~~~~~~~~~~~~ blastall.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blastall.c,v 6.206 2011/12/19 18:40:17 gouriano Exp $"; ^~~~~ blastall.c: In function ‘Main_old’: blastall.c:1810:14: warning: ‘fake_bsp_arr’ may be used uninitialized in this function [-Wmaybe-uninitialized] BspArray fake_bsp_arr; /*--KM the array of fake_bsps for indiv. queries */ ^~~~~~~~~~~~ blastall.c:1808:22: warning: ‘seq_annot_arr’ may be used uninitialized in this function [-Wmaybe-uninitialized] SeqAnnotPtrArray seq_annot_arr; ^~~~~~~~~~~~~ blastall.c:2702:81: warning: ‘sap_array’ may be used uninitialized in this function [-Wmaybe-uninitialized] curr_seqalign = (num_queries > 0) ? *(sap_array + sap_iter) : seqalign; ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ blastall.c:1795:10: warning: ‘num_bsps’ may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 num_bsps, index; ^~~~~~~~ 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, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ blast_database, fake_bsp, other_returns, 0, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ message, mask_loc); ~~~~~~~~~~~~~~~~~~ gcc -o blastall_old -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DBLASTALL_TOOLS_ONLY blastall.c \ ncbithr.o -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:2931:1: warning: ‘readdb_use_new_blast’ defined but not used [-Wunused-function] readdb_use_new_blast(char* dbname) ^~~~~~~~~~~~~~~~~~~~ blastall.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blastall.c,v 6.206 2011/12/19 18:40:17 gouriano Exp $"; ^~~~~ blastall.c: In function ‘Main_old’: blastall.c:1810:14: warning: ‘fake_bsp_arr’ may be used uninitialized in this function [-Wmaybe-uninitialized] BspArray fake_bsp_arr; /*--KM the array of fake_bsps for indiv. queries */ ^~~~~~~~~~~~ blastall.c:1808:22: warning: ‘seq_annot_arr’ may be used uninitialized in this function [-Wmaybe-uninitialized] SeqAnnotPtrArray seq_annot_arr; ^~~~~~~~~~~~~ blastall.c:2702:81: warning: ‘sap_array’ may be used uninitialized in this function [-Wmaybe-uninitialized] curr_seqalign = (num_queries > 0) ? *(sap_array + sap_iter) : seqalign; ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ blastall.c:1795:10: warning: ‘num_bsps’ may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 num_bsps, index; ^~~~~~~~ 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, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ blast_database, fake_bsp, other_returns, 0, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ message, mask_loc); ~~~~~~~~~~~~~~~~~~ gcc -o blastpgp -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib blastpgp.c ncbithr.o -lncbitool \ -lncbiobj -lncbi -lpthread blastpgp.c: In function ‘PGPFormatFooter’: blastpgp.c:1290:32: warning: variable ‘dbinfo_head’ set but not used [-Wunused-but-set-variable] TxDfDbInfoPtr dbinfo=NULL, dbinfo_head; ^~~~~~~~~~~ blastpgp.c: In function ‘Nlm_Main’: blastpgp.c:1685:14: warning: variable ‘alignCheckpoint’ set but not used [-Wunused-but-set-variable] Boolean alignCheckpoint = FALSE; ^~~~~~~~~~~~~~~ In file included from ../include/sqnutils.h:51:0, from blastpgp.c:561: blastpgp.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 ../include/ddvcreate.h:143, from blastpgp.c:563: ../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)); ^~~~~~~~~~~~~~~ blastpgp.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blastpgp.c,v 6.140 2008/03/31 13:35:18 madden Exp $"; ^~~~~ gcc -o seedtop -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib seedtop.c ncbithr.o -lncbitool \ -lncbiobj -lncbi -lpthread In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from seedtop.c:88: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ seedtop.c: In function ‘Nlm_Main’: seedtop.c:363:36: warning: suggest parentheses around assignment used as truth value [-Wparentheses] &error_returns, &info_vnp,hitArraySz)) { ^ At top level: seedtop.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: seedtop.c,v 6.19 2008/01/09 19:17:49 merezhuk Exp $"; ^~~~~ gcc -o megablast -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib megablast.c ncbithr.o -lblastapi \ -lblast -lncbitool -lncbiobj -lncbi -lpthread In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from megablast.c:656: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ megablast.c: In function ‘Main_old’: megablast.c:1439:4: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else if (myargs[ARG_OUTTYPE].intvalue == MBLAST_DELAYED_TRACEBACK) ^~~~ megablast.c:1444:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘else’ options->megablast_full_deflines = (Boolean) myargs[ARG_FULLID].intvalue; ^~~~~~~ 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)); ^~~~~~~~~~~~~~~~~~~~~ megablast.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: megablast.c,v 6.203 2009/06/01 14:33:38 maning Exp $"; ^~~~~ gcc -o rpsblast -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib rpsblast.c ncbithr.o -lblastapi \ -lblast -lncbitool -lncbiobj -lncbi -lpthread In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/readdb.h:757, from rpsblast.c:328: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ rpsblast.c: In function ‘Nlm_Main’: rpsblast.c:567:22: warning: variable ‘program_number’ set but not used [-Wunused-but-set-variable] EBlastProgramType program_number; ^~~~~~~~~~~~~~ In file included from ../include/sqnutils.h:51:0, from ../include/algo/blast/api/twoseq_api.h:41, from ../include/algo/blast/api/blast_format.h:51, from rpsblast.c:330: rpsblast.c: At top level: ../include/objentgene.h:176:33: warning: ‘Method_methodFree’ declared ‘static’ but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodFree PROTO ((Method_methodPtr )); ^~~~~~~~~~~~~~~~~ ../include/objentgene.h:177:33: warning: ‘Method_methodAsnRead’ declared ‘static’ but never defined [-Wunused-function] static Method_methodPtr LIBCALL Method_methodAsnRead PROTO (( AsnIoPtr, AsnTypePtr)); ^~~~~~~~~~~~~~~~~~~~ ../include/objentgene.h:178:24: warning: ‘Method_methodAsnWrite’ declared ‘static’ but never defined [-Wunused-function] static Boolean LIBCALL Method_methodAsnWrite PROTO (( Method_methodPtr , AsnIoPtr, AsnTypePtr)); ^~~~~~~~~~~~~~~~~~~~~ rpsblast.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: rpsblast.c,v 6.93 2008/07/23 14:06:57 madden Exp $"; ^~~~~ gcc -o blastclust -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib blastclust.c ncbithr.o -lncbitool \ -lncbiobj -lncbi -lpthread In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from blastclust.c:189: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blastclust.c,v 6.50 2011/12/19 18:40:17 gouriano Exp $"; ^~~~~ 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; ~~~^~~~~~~~~~ make[2]: Leaving directory '/<>/build' /usr/bin/make -C build -f makenet.unx LCL=lnx CC="gcc " LDFLAGS1="-g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='\"Aug 12 2016\"' -DBUILD_TIME='\"20:29:37\"' -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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='\"Aug 12 2016\"' -DBUILD_TIME='\"20:29:37\"'" 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 '/<>/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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" ni_lib_.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ni_types.h:84, from ../include/ncbinet.h:84, from ni_lib_.c:76: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" ni_debug.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ni_debug.c:55: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" ni_service.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ni_service.c:122: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ ni_service.c: In function ‘s_GenericGetService’: ni_service.c:199:19: warning: unused variable ‘c’ [-Wunused-variable] CONNECTOR c; ^ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" ni_error.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ni_types.h:84, from ../include/ncbinet.h:84, from ../include/ni_error.h:76, from ni_error.c:72: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" netentr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/accentr.h:125, from netentr.c:161: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" netlib.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from netlib.c:82: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ netlib.c: In function ‘BoolExprAsnWrite’: netlib.c:307:16: warning: unused variable ‘n’ [-Wunused-variable] static int n = 0; ^ At top level: netlib.c:307:16: warning: ‘n’ defined but not used [-Wunused-variable] netlib.c:96:16: warning: ‘loaded’ defined but not used [-Wunused-variable] static Boolean loaded = FALSE; ^~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" objneten.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/asnneten.h:9, from objneten.c:86: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ objneten.c: In function ‘NetEntAsnLoad’: objneten.c:106:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (loaded) ^~ objneten.c:108:9: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ loaded = TRUE; ^~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" -D_NETENT_ Naccentr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/accentr.h:125, from Naccentr.c:297: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~~ Naccentr.c: In function ‘EntrezGIForSeqIdFunc’: Naccentr.c:3283:9: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! gi) return OM_MSG_RET_OK; ^~ Naccentr.c:3285:5: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ sip2 = ValNodeNew(NULL); ^~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" -D_NET_AND_CD_ Caccentr.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/accentr.h:125, from Caccentr.c:297: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~~ Caccentr.c: In function ‘EntrezGIForSeqIdFunc’: Caccentr.c:3283:9: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! gi) return OM_MSG_RET_OK; ^~ Caccentr.c:3285:5: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ sip2 = ValNodeNew(NULL); ^~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" netcnfg.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from netcnfg.c:41: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" trmlst.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from trmlst.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" docsum.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from docsum.c:252: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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: In function ‘LaunchStructureViewer’: docsum.c:4192:3: warning: ignoring return value of ‘system’, declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^~~~~~~~~~~~~ At top level: docsum.c:439:15: warning: ‘checkmark’ defined but not used [-Wunused-variable] static Uint1 checkmark [] = { ^~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" objtax1.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objtax1.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" taxutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/utilpub.h:4, from taxutil.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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; ^~~ 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:1619:22: warning: ‘lst’ may be used uninitialized in this function [-Wmaybe-uninitialized] lst->next= src; ~~~~~~~~~^~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" -c -o txcdproc.o -DTAXSERVICE txcdproc.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ni_types.h:84, from ../include/ncbinet.h:84, from txcdproc.c:116: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" parttree.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/txclient.h:70, from parttree.c:79: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" taxcs.c gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" taxblast.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from taxblast.c:158: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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: In function ‘RDTaxLookupReset’: taxblast.c:1985:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ At top level: taxblast.c:1902:13: warning: ‘getTotalTaxIdCount’ defined but not used [-Wunused-function] static Int4 getTotalTaxIdCount(TreeCursorPtr cursor) ^~~~~~~~~~~~~~~~~~ taxblast.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: taxblast.c,v 6.30 2008/07/18 19:26:35 madden Exp $"; ^~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" id1gen.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from id1gen.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" id1arch.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from id1arch.c:31: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:563:47: warning: spurious trailing ‘%’ in format [-Wformat=] fprintf(fp,"%-20d%-20s%",old_gi,repl_date); ^ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" accid1.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objmgr.h:51, from ../include/seqmgr.h:48, from accid1.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" objblst3.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objblst3.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" netblap3.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ni_types.h:84, from ../include/ncbinet.h:84, from netblap3.c:359: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:135:0, from netblap3.c:364: netblap3.c: At top level: ../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:452:1: warning: ‘BlastResetOldHook’ defined but not used [-Wunused-function] BlastResetOldHook(void) ^~~~~~~~~~~~~~~~~ netblap3.c:445:1: warning: ‘BlastGetErrorStatus’ defined but not used [-Wunused-function] BlastGetErrorStatus(void) ^~~~~~~~~~~~~~~~~~~ netblap3.c:438:1: warning: ‘BlastSetErrorStatus’ defined but not used [-Wunused-function] BlastSetErrorStatus(Boolean status) ^~~~~~~~~~~~~~~~~~~ netblap3.c:430:1: warning: ‘BlastSetErrorHook’ defined but not used [-Wunused-function] BlastSetErrorHook(void) ^~~~~~~~~~~~~~~~~ In file included from ../include/netblap3.h:134:0, from netblap3.c:364: ../include/blstspc.h:229:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/blstspc.h:228:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/blstspc.h:227:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^~~ ../include/blstspc.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "blstspc.h23"; ^~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" -DNLM_OBJ_INCL=\"mapmla.h\" objmla.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from objmla.c:1: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" medarch.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/ni_types.h:84, from ../include/ncbinet.h:84, from medarch.c:122: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ medarch.c:758:8: warning: ‘s_MedArchPubSetEntryGetUid’ defined but not used [-Wunused-function] /*FCN*/s_MedArchPubSetEntryGetUid ( ^~~~~~~~~~~~~~~~~~~~~~~~~~ medarch.c:710:8: warning: ‘s_MedArchPubSetEntryGetPmId’ defined but not used [-Wunused-function] /*FCN*/s_MedArchPubSetEntryGetPmId ( ^~~~~~~~~~~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" medutil.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/medutil.h:79, from medutil.c:58: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from sequin.h:85, from sequin1.c:56: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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: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: 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 &"); ^~~~~~~~~~~~~~~~~~~~ At top level: sequin1.c:26805:16: warning: ‘WizardCommentForm’ defined but not used [-Wunused-function] static Boolean WizardCommentForm (WizardTrackerPtr wiz) ^~~~~~~~~~~~~~~~~ sequin1.c:25867:16: warning: ‘WizardStructuredCommentForm’ defined but not used [-Wunused-function] static Boolean WizardStructuredCommentForm ^~~~~~~~~~~~~~~~~~~~~~~~~~~ sequin1.c:25269:13: warning: ‘SaveVirusFeatureTableChoice’ defined but not used [-Wunused-function] static void SaveVirusFeatureTableChoice (Pointer data, WizardTrackerPtr wiz) ^~~~~~~~~~~~~~~~~~~~~~~~~~~ sequin1.c:24732:16: warning: ‘IsAllATGC’ defined but not used [-Wunused-function] static Boolean IsAllATGC (CharPtr val) ^~~~~~~~~ sequin1.c:24625:13: warning: ‘ApplyLocStop’ defined but not used [-Wunused-function] static void ApplyLocStop (SeqFeatPtr sfp, CharPtr val) ^~~~~~~~~~~~ sequin1.c:24609:13: warning: ‘ApplyLocStart’ defined but not used [-Wunused-function] static void ApplyLocStart (SeqFeatPtr sfp, CharPtr val) ^~~~~~~~~~~~~ sequin1.c:24596:16: warning: ‘GetLocStop’ defined but not used [-Wunused-function] static CharPtr GetLocStop (SeqFeatPtr sfp) ^~~~~~~~~~ sequin1.c:24583:16: warning: ‘GetLocStart’ defined but not used [-Wunused-function] static CharPtr GetLocStart (SeqFeatPtr sfp) ^~~~~~~~~~~ sequin1.c:23481:16: warning: ‘EqualIgnoreWhiteSpacePunctAndCaps’ defined but not used [-Wunused-function] static Boolean EqualIgnoreWhiteSpacePunctAndCaps (CharPtr a, CharPtr b) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sequin1.c:18855:16: warning: ‘RNAAnnotationWindow’ defined but not used [-Wunused-function] static Boolean RNAAnnotationWindow(WizardTrackerPtr wiz) ^~~~~~~~~~~~~~~~~~~ sequin1.c:18662:16: warning: ‘MultOrganelleFeat’ defined but not used [-Wunused-function] static Boolean MultOrganelleFeat (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:18087:16: warning: ‘JumpToMainSubmission’ defined but not used [-Wunused-function] static Boolean JumpToMainSubmission (WizardTrackerPtr wiz) ^~~~~~~~~~~~~~~~~~~~ sequin1.c:17327:13: warning: ‘ClearModifierValues’ defined but not used [-Wunused-function] static void ClearModifierValues (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:17260:13: warning: ‘SeqEntryToModTabTable’ defined but not used [-Wunused-function] static void SeqEntryToModTabTable (SeqEntryPtr sep, DialoG d, CharPtr mod_name) ^~~~~~~~~~~~~~~~~~~~~ sequin1.c:17190:16: warning: ‘DoAllSequencesHaveAnExtraQual’ defined but not used [-Wunused-function] static Boolean DoAllSequencesHaveAnExtraQual (SeqEntryPtr sep, ValNodePtr extra_src_quals) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sequin1.c:10827:13: warning: ‘ObjMgrReport’ defined but not used [-Wunused-function] static void ObjMgrReport (IteM i) ^~~~~~~~~~~~ sequin1.c:9074:13: warning: ‘DocumentSummaryFormMessage’ defined but not used [-Wunused-function] static void DocumentSummaryFormMessage (ForM f, Int2 mssg) ^~~~~~~~~~~~~~~~~~~~~~~~~~ sequin1.c:9054:13: warning: ‘TermSelectionFormMessage’ defined but not used [-Wunused-function] static void TermSelectionFormMessage (ForM f, Int2 mssg) ^~~~~~~~~~~~~~~~~~~~~~~~ sequin1.c:7910:13: warning: ‘PreferencesProc’ defined but not used [-Wunused-function] static void PreferencesProc (IteM i) ^~~~~~~~~~~~~~~ sequin1.c:7897:13: warning: ‘DefaultMessageProc’ defined but not used [-Wunused-function] static void DefaultMessageProc (ForM f, Int2 mssg) ^~~~~~~~~~~~~~~~~~ sequin1.c:7671:13: warning: ‘FindAlu’ defined but not used [-Wunused-function] static void FindAlu (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:2291:13: warning: ‘StyleManagerProc’ defined but not used [-Wunused-function] static void StyleManagerProc (IteM i) ^~~~~~~~~~~~~~~~ sequin1.c:633:13: warning: ‘ReplaceString’ defined but not used [-Wunused-function] static void ReplaceString (CharPtr PNTR target, CharPtr newstr) ^~~~~~~~~~~~~ sequin1.c:384:13: warning: ‘SetSequinAppParamTF’ defined but not used [-Wunused-function] static void SetSequinAppParamTF (CharPtr section, CharPtr type, Boolean value) ^~~~~~~~~~~~~~~~~~~ In file included from ../include/netblap3.h:134:0, from ../include/ingenwin.h:62, from sequin1.c:92: ../include/blstspc.h:229:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/blstspc.h:228:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/blstspc.h:227:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^~~ ../include/blstspc.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "blstspc.h23"; ^~~~~~~~~~~ sequin1.c: In function ‘SubtoolDoneFuncEx’: sequin1.c:2021:5: 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; ^~~~~~~~~~~ In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from sequin.h:85, from sequin2.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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] if (oip != NULL ~~~~~~~~~~~ && 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:26384:13: warning: ‘GetRawBsps’ defined but not used [-Wunused-function] static void GetRawBsps (BioseqPtr bsp, Pointer userdata) ^~~~~~~~~~ sequin2.c:24973:1: warning: ‘SequenceAssistantValidateSegments’ defined but not used [-Wunused-function] SequenceAssistantValidateSegments ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sequin2.c:10754:17: warning: ‘GetSeqIdFromSeqEntryPtr’ defined but not used [-Wunused-function] static SeqIdPtr GetSeqIdFromSeqEntryPtr (SeqEntryPtr sep) ^~~~~~~~~~~~~~~~~~~~~~~ sequin2.c:8182:20: warning: ‘FindSeqEntryWithTranscriptID’ defined but not used [-Wunused-function] static SeqEntryPtr FindSeqEntryWithTranscriptID (SeqEntryPtr sep, CharPtr transcript_id) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ sequin2.c:3920:1: warning: ‘ReadOneSegSet’ defined but not used [-Wunused-function] ReadOneSegSet ^~~~~~~~~~~~~ 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; ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from sequin.h:85, from sequin3.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:24720:13: warning: ‘TestSegregateByList’ defined but not used [-Wunused-function] static void TestSegregateByList (IteM i) ^~~~~~~~~~~~~~~~~~~ sequin3.c:24389:13: warning: ‘WriteAccessionsCallback’ defined but not used [-Wunused-function] static void WriteAccessionsCallback (BioseqPtr bsp, Pointer data) ^~~~~~~~~~~~~~~~~~~~~~~ sequin3.c:23962:13: warning: ‘ModernizeGenes’ defined but not used [-Wunused-function] static void ModernizeGenes (IteM i) ^~~~~~~~~~~~~~ sequin3.c:23935:13: warning: ‘ModernizeRNAs’ defined but not used [-Wunused-function] static void ModernizeRNAs (IteM i) ^~~~~~~~~~~~~ sequin3.c:23908:13: warning: ‘ModernizePCRs’ defined but not used [-Wunused-function] static void ModernizePCRs (IteM i) ^~~~~~~~~~~~~ sequin3.c:23549:13: warning: ‘TestTax3B’ defined but not used [-Wunused-function] static void TestTax3B (IteM i) ^~~~~~~~~ sequin3.c:23543:13: warning: ‘TestTax3A’ defined but not used [-Wunused-function] static void TestTax3A (IteM i) ^~~~~~~~~ sequin3.c:23410:13: warning: ‘NewAligmentViewer’ defined but not used [-Wunused-function] static void NewAligmentViewer (IteM i) ^~~~~~~~~~~~~~~~~ sequin3.c:23365:13: warning: ‘AddAllDbxrefsMenuItem’ defined but not used [-Wunused-function] static void AddAllDbxrefsMenuItem (IteM i) ^~~~~~~~~~~~~~~~~~~~~ sequin3.c:18047:1: warning: ‘TruncProtsAtStopsExEx’ defined but not used [-Wunused-function] TruncProtsAtStopsExEx ^~~~~~~~~~~~~~~~~~~~~ sequin3.c:17573:13: warning: ‘DoGeneReset’ defined but not used [-Wunused-function] static void DoGeneReset (IteM i) ^~~~~~~~~~~ sequin3.c:14618:13: warning: ‘PrepareTaxListProc’ defined but not used [-Wunused-function] static void PrepareTaxListProc (IteM i) ^~~~~~~~~~~~~~~~~~ sequin3.c:12650:13: warning: ‘RibosomalRNAToGenomicDNAMenuItem’ defined but not used [-Wunused-function] static void RibosomalRNAToGenomicDNAMenuItem (IteM i) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sequin3.c:12594:13: warning: ‘NewMolInfoFieldsApply’ defined but not used [-Wunused-function] static void NewMolInfoFieldsApply (IteM i) ^~~~~~~~~~~~~~~~~~~~~ sequin3.c:8121:13: warning: ‘MultiTransformProc’ defined but not used [-Wunused-function] static void MultiTransformProc (IteM i, Uint1 targettype) ^~~~~~~~~~~~~~~~~~ sequin3.c:6014:13: warning: ‘EnableFeatureToGeneControlsText’ defined but not used [-Wunused-function] static void EnableFeatureToGeneControlsText (TexT t) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sequin3.c:6006:13: warning: ‘EnableFeatureToGeneControlsPopup’ defined but not used [-Wunused-function] static void EnableFeatureToGeneControlsPopup (PopuP p) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sequin3.c:4412:13: warning: ‘RawSeqToDeltaSeqUnknown100LengthGaps’ defined but not used [-Wunused-function] static void RawSeqToDeltaSeqUnknown100LengthGaps (IteM i) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sequin3.c:4395:13: warning: ‘RawSeqToDeltaSeqUnknownLengthGaps’ defined but not used [-Wunused-function] static void RawSeqToDeltaSeqUnknownLengthGaps (IteM i) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sequin3.c:4381:13: warning: ‘RawSeqToDeltaSeq’ defined but not used [-Wunused-function] static void RawSeqToDeltaSeq (IteM i) ^~~~~~~~~~~~~~~~ sequin3.c:4349:13: warning: ‘CorrectAlignmentsAfterNToGapConversion’ defined but not used [-Wunused-function] static void CorrectAlignmentsAfterNToGapConversion (SeqEntryPtr sep, Uint2 entityID) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sequin3.c:2548:13: warning: ‘NewRemoveDuplicateFeatsGenes’ defined but not used [-Wunused-function] static void NewRemoveDuplicateFeatsGenes (IteM i) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ sequin3.c:2382:13: warning: ‘JustTaxonFixup’ defined but not used [-Wunused-function] static void JustTaxonFixup (IteM i) ^~~~~~~~~~~~~~ In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from sequin.h:85, from sequin4.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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/samutil.h:234:0, from ../include/alignmgr.h:266, from sequin4.c:72: sequin4.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)); ^~~~~~~~~~~~~~~ sequin4.c:16818:13: warning: ‘CleanupTruncateByProtAlignForm’ defined but not used [-Wunused-function] static void CleanupTruncateByProtAlignForm (GraphiC g, VoidPtr data) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sequin4.c:16360:25: warning: ‘FeatToDeltaSeq’ defined but not used [-Wunused-function] static Int2 LIBCALLBACK FeatToDeltaSeq (Pointer data) ^~~~~~~~~~~~~~ sequin4.c:12398:13: warning: ‘PubConstraintClearText’ defined but not used [-Wunused-function] static void PubConstraintClearText (PubConstraintPtr pcp) ^~~~~~~~~~~~~~~~~~~~~~ sequin4.c:7172:13: warning: ‘AddOrfListToDoc’ defined but not used [-Wunused-function] static void AddOrfListToDoc(DoC doc, ValNodePtr list) ^~~~~~~~~~~~~~~ sequin4.c:3513:18: warning: ‘FindBioseqForSeqHist’ defined but not used [-Wunused-function] static BioseqPtr FindBioseqForSeqHist (SeqAlignPtr salp) ^~~~~~~~~~~~~~~~~~~~ In file included from ../include/asn2ff6.h:142:0, from ../include/asn2ffp.h:374, from sequin4.c:55: ../include/asnprt.h:61:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/asnprt.h:60:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/asnprt.h:59:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = NULL; ^~~ ../include/asnprt.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "asnprt.h60"; ^~~~~~~~~~~ sequin4.c: In function ‘SplitSegmentedFeats.isra.66’: sequin4.c:1700:27: warning: ‘new_frame’ may be used uninitialized in this function [-Wmaybe-uninitialized] Int4 len_modulo, new_frame; ^~~~~~~~~ In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from sequin.h:85, from sequin5.c:47: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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/tax3api.h:51:0, from sequin5.c:78: sequin5.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)); ^~~~~~~~~~~~~~~~~~~ sequin5.c:32200:13: warning: ‘BulkSrcSetOrgModDescTF’ defined but not used [-Wunused-function] static void BulkSrcSetOrgModDescTF (Pointer target, Pointer data, Uint2 mod_type) ^~~~~~~~~~~~~~~~~~~~~~ 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:31877:23: warning: ‘GetBulkEditorFieldListForFeature’ defined but not used [-Wunused-function] static BulkEdFieldPtr GetBulkEditorFieldListForFeature (SeqFeatPtr sfp) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sequin5.c:31412:16: warning: ‘BulkGetPseudo’ defined but not used [-Wunused-function] static Pointer BulkGetPseudo (Pointer data) ^~~~~~~~~~~~~ sequin5.c:31401:13: warning: ‘BulkSetPseudo’ defined but not used [-Wunused-function] static void BulkSetPseudo (Pointer target, Pointer val) ^~~~~~~~~~~~~ sequin5.c:31390:16: warning: ‘BulkReleaseTrueFalse’ defined but not used [-Wunused-function] static Pointer BulkReleaseTrueFalse (Pointer p) ^~~~~~~~~~~~~~~~~~~~ sequin5.c:31224:15: warning: ‘BulkNucLocationDialog’ defined but not used [-Wunused-function] static DialoG BulkNucLocationDialog (GrouP g, CharPtr name, SeqEntryPtr sep) ^~~~~~~~~~~~~~~~~~~~~ sequin5.c:29002:28: warning: ‘TwoFieldBulkEditNew’ defined but not used [-Wunused-function] static TwoFieldBulkEditPtr TwoFieldBulkEditNew (void) ^~~~~~~~~~~~~~~~~~~ sequin5.c:28749:28: warning: ‘OneFieldBulkEditNew’ defined but not used [-Wunused-function] static OneFieldBulkEditPtr OneFieldBulkEditNew (void) ^~~~~~~~~~~~~~~~~~~ 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: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:21552:23: warning: ‘AECRRNAQualFree’ defined but not used [-Wunused-function] static AECRRNAQualPtr AECRRNAQualFree (AECRRNAQualPtr ap) ^~~~~~~~~~~~~~~ sequin5.c:13071:25: warning: ‘ParseFieldSrcFree’ defined but not used [-Wunused-function] static ParseFieldSrcPtr ParseFieldSrcFree (ParseFieldSrcPtr pfsp) ^~~~~~~~~~~~~~~~~ In file included from ../include/netblap3.h:134:0, from sequin5.c:53: ../include/blstspc.h:229:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/blstspc.h:228:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/blstspc.h:227:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^~~ ../include/blstspc.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "blstspc.h23"; ^~~~~~~~~~~ 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; ^ In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from sequin.h:85, from sequin6.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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)); ^~~~~~~~~~~~~~~ sequin6.c:15251:13: warning: ‘DoPseudoFeatureProc’ defined but not used [-Wunused-function] static void DoPseudoFeatureProc (SeqFeatPtr sfp, Pointer userdata, FilterSetPtr fsp) ^~~~~~~~~~~~~~~~~~~ sequin6.c:7713:13: warning: ‘SetContactNameFromString’ defined but not used [-Wunused-function] static void SetContactNameFromString (SubmitFormPtr sbfp, CharPtr txt) ^~~~~~~~~~~~~~~~~~~~~~~~ sequin6.c:650:16: warning: ‘TrimOffEndQuotes’ defined but not used [-Wunused-function] static Boolean TrimOffEndQuotes (CharPtr trimString, ^~~~~~~~~~~~~~~~ sequin6.c:225:13: warning: ‘PopulateParseQualPopup’ defined but not used [-Wunused-function] static void PopulateParseQualPopup (PopuP p) ^~~~~~~~~~~~~~~~~~~~~~ In file included from ../include/vibrant.h:133:0, from ../include/dlogutil.h:48, from sequin.h:85, from sequin6.c:45: 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: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: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[] = { ^~~~ 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 sequin.h:85, from sequin6.c:45: sequin6.c: In function ‘MakeFluCommentIdList’: ../include/ncbistr.h:335:19: warning: ‘last_id’ may be used uninitialized in this function [-Wmaybe-uninitialized] #define StringCat Nlm_StringCat ^~~~~~~~~~~~~ sequin6.c:13890:41: note: ‘last_id’ was declared here CharPtr id_start, id_next, last_id; ^~~~~~~ sequin6.c:13942:28: warning: ‘id_len’ may be used uninitialized in this function [-Wmaybe-uninitialized] list_len += id_len + 2; ~~~~~~~^~~ 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; ^~ In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from sequin.h:85, from sequin7.c:56: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~ In file included from ../include/samutil.h:234:0, from ../include/alignmgr2.h:114, from sequin7.c:77: sequin7.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 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: In function ‘GetSubListForRNAStrandCorrection’: sequin7.c:7940:3: warning: ignoring return value of ‘system’, declared with attribute warn_unused_result [-Wunused-result] system (cmmd); ^~~~~~~~~~~~~ At top level: sequin7.c:16484:25: warning: ‘NTrimIntervalFree’ defined but not used [-Wunused-function] static NTrimIntervalPtr NTrimIntervalFree (NTrimIntervalPtr n) ^~~~~~~~~~~~~~~~~ sequin7.c:14969:13: warning: ‘FindBadLatLonSourceFeat’ defined but not used [-Wunused-function] static void FindBadLatLonSourceFeat (SeqFeatPtr sfp, Pointer userdata) ^~~~~~~~~~~~~~~~~~~~~~~ sequin7.c:12855:13: warning: ‘RemoveBarcodeKeywordsFromLowTrace’ defined but not used [-Wunused-function] static void RemoveBarcodeKeywordsFromLowTrace (ButtoN b) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sequin7.c:7179:16: warning: ‘DoesBioseqMatchStringConstraint’ defined but not used [-Wunused-function] static Boolean DoesBioseqMatchStringConstraint (BioseqPtr bsp, StringConstraintXPtr scp) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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:47:14: warning: ‘time_of_compilation’ defined but not used [-Wunused-variable] static char *time_of_compilation = BUILD_TIME; ^~~~~~~~~~~~~~~~~~~ sequin7.c: In function ‘CombineToCreatePseudoGene’: sequin7.c:14920:27: warning: ‘int_strand’ may be used uninitialized in this function [-Wmaybe-uninitialized] first_sfp->location = SeqLocIntNew (int_left, int_right, int_strand, sip); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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] } else if (feat_list == NULL ~~~~~~~~~~~~~~~~~ || best_left > fcontext.left ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ || best_left == fcontext.left && best_right < fcontext.right) { ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from sequin.h:85, from sequin8.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 ‘FindIntervalConflict’: sequin8.c:10738:39: warning: self-comparison always evaluates to true [-Wtautological-compare] } else if (left2 <= left1 && right2 >= right2) { ^~ sequin8.c: In function ‘BuildConflictLists’: sequin8.c:11080:69: warning: self-comparison always evaluates to false [-Wtautological-compare] if (tpa_conflict != eIntervalConflict_none || prim_conflict != prim_conflict) { ^~ sequin8.c:11086:69: warning: self-comparison always evaluates to false [-Wtautological-compare] if (tpa_conflict != eIntervalConflict_none || prim_conflict != prim_conflict) { ^~ 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 ‘SortVnpByLinkStatus’: sequin8.c:18983:33: warning: self-comparison always evaluates to false [-Wtautological-compare] } else if (fcontext2.itemID < fcontext2.itemID) { ^ 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:20204:19: warning: ‘DivideClickableItemListByEntityID’ defined but not used [-Wunused-function] static ValNodePtr DivideClickableItemListByEntityID (ValNodePtr clickable_list) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sequin8.c:19897:13: warning: ‘TrimCDSFortRNAOverlap’ defined but not used [-Wunused-function] static void TrimCDSFortRNAOverlap (ValNodePtr item_list) ^~~~~~~~~~~~~~~~~~~~~ sequin8.c:15651:13: warning: ‘VisitFeaturesInViewedBioseqs’ defined but not used [-Wunused-function] static void VisitFeaturesInViewedBioseqs (Pointer userdata, VisitFeaturesFunc callback) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ sequin8.c:13113:13: warning: ‘ShowAssemblyAlignment’ defined but not used [-Wunused-function] static void ShowAssemblyAlignment (SeqAlignPtr salp) ^~~~~~~~~~~~~~~~~~~~~ sequin8.c:8830:13: warning: ‘ExamineAln’ defined but not used [-Wunused-function] static void ExamineAln (SeqAlignPtr sap) ^~~~~~~~~~ sequin8.c:8768:20: warning: ‘GetOldBlastTPAHistAlignPiece’ defined but not used [-Wunused-function] static SeqAlignPtr GetOldBlastTPAHistAlignPiece (BioseqPtr bsp1, BioseqPtr bsp2) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ sequin8.c:8745:20: warning: ‘GetNewBlastTPAHistAlignPiece’ defined but not used [-Wunused-function] static SeqAlignPtr GetNewBlastTPAHistAlignPiece (BioseqPtr bsp1, BioseqPtr bsp2) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ sequin8.c:7711:16: warning: ‘DoesFirstRepeatContainAllOtherRepeats’ defined but not used [-Wunused-function] static Boolean DoesFirstRepeatContainAllOtherRepeats (ValNodePtr start, ValNodePtr stop) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sequin8.c:7259:16: warning: ‘DoesRowContainPoint’ defined but not used [-Wunused-function] static Boolean DoesRowContainPoint (SeqAlignRowPtr row, Int4 point) ^~~~~~~~~~~~~~~~~~~ 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: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:1890:18: warning: ‘SqnGetBioseqGivenSeqLoc’ defined but not used [-Wunused-function] static BioseqPtr SqnGetBioseqGivenSeqLoc (SeqLocPtr slp, Uint2 entityID) ^~~~~~~~~~~~~~~~~~~~~~~ sequin8.c:664:13: warning: ‘FixReadingFrame’ defined but not used [-Wunused-function] static void FixReadingFrame ( ^~~~~~~~~~~~~~~ sequin8.c:452:13: warning: ‘ExtendOnePartialFeatureToEndOrGap’ defined but not used [-Wunused-function] static void ExtendOnePartialFeatureToEndOrGap (SeqFeatPtr sfp, Pointer userdata) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/objsub.h:76, from ../include/subutil.h:50, from sequin9.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:17033:29: warning: ‘FeatureUpdateNew’ defined but not used [-Wunused-function] static FeatureUpdateInfoPtr FeatureUpdateNew (BioseqPtr orig_bsp, BioseqPtr update_bsp) ^~~~~~~~~~~~~~~~ sequin9.c:1405:16: warning: ‘StrSaveNoNullEncodeSpaces’ defined but not used [-Wunused-function] static CharPtr StrSaveNoNullEncodeSpaces (CharPtr from) ^~~~~~~~~~~~~~~~~~~~~~~~~ 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) { ^ sequin9.c: In function ‘PrepareUpdateAlignmentForProtein’: sequin9.c:5823:41: warning: ‘gene_sfp’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (fp == NULL || gene == NULL || gene->location == NULL) return; ~~~~^~~~~~~~~~ sequin9.c:5920:17: note: ‘gene_sfp’ was declared here SeqFeatPtr gene_sfp; ^~~~~~~~ In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from sequin.h:85, from sequin10.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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:8902:16: warning: ‘GetRevSectionInterval’ defined but not used [-Wunused-function] static Pointer GetRevSectionInterval (Uint1 data_choice, Pointer data, Pointer metadata) ^~~~~~~~~~~~~~~~~~~~~ sequin10.c:8884:16: warning: ‘GetRevSectionSequence’ defined but not used [-Wunused-function] static Pointer GetRevSectionSequence (Uint1 data_choice, Pointer data, Pointer metadata) ^~~~~~~~~~~~~~~~~~~~~ sequin10.c:3013:19: warning: ‘FreeTableData’ defined but not used [-Wunused-function] static ValNodePtr FreeTableData (ValNodePtr lines) ^~~~~~~~~~~~~ sequin10.c:1452:19: warning: ‘OrgModTableColumnListFree’ defined but not used [-Wunused-function] static ValNodePtr OrgModTableColumnListFree (ValNodePtr vnp) ^~~~~~~~~~~~~~~~~~~~~~~~~ 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; ^ In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from sequin.h:85, from sequinx.c:46: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ : Psequin gcc -o sbtedit -I. -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from ../include/dlogutil.h:48, from sequin.h:85, from sbtedit.c:58: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ sbtedit.c: In function ‘LookupTaxonomyFunc’: sbtedit.c:607:15: warning: variable ‘rsult’ set but not used [-Wunused-but-set-variable] Int4 rsult; ^~~~~ At top level: sbtedit.c:49:14: warning: ‘time_of_compilation’ defined but not used [-Wunused-variable] static char *time_of_compilation = BUILD_TIME; ^~~~~~~~~~~~~~~~~~~ sbtedit.c:48:14: warning: ‘date_of_compilation’ defined but not used [-Wunused-variable] static char *date_of_compilation = BUILD_DATE; ^~~~~~~~~~~~~~~~~~~ : sbtedit gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" udvmain.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/explore.h:49, from ../include/udviewer.h:209, from udvmain.c:80: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" ddvmain.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ddvmain.c:138: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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)); ^~~~~~~~~~~~~~~~~~~~~ blastall.c:2931:1: warning: ‘readdb_use_new_blast’ defined but not used [-Wunused-function] readdb_use_new_blast(char* dbname) ^~~~~~~~~~~~~~~~~~~~ In file included from ../include/netblap3.h:134:0, from blastall.c:734: ../include/blstspc.h:229:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/blstspc.h:228:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/blstspc.h:227:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^~~ ../include/blstspc.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "blstspc.h23"; ^~~~~~~~~~~ blastall.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: blastall.c,v 6.206 2011/12/19 18:40:17 gouriano Exp $"; ^~~~~ blastall.c: In function ‘Main_old’: blastall.c:1810:14: warning: ‘fake_bsp_arr’ may be used uninitialized in this function [-Wmaybe-uninitialized] BspArray fake_bsp_arr; /*--KM the array of fake_bsps for indiv. queries */ ^~~~~~~~~~~~ blastall.c:1808:22: warning: ‘seq_annot_arr’ may be used uninitialized in this function [-Wmaybe-uninitialized] SeqAnnotPtrArray seq_annot_arr; ^~~~~~~~~~~~~ blastall.c:2702:81: 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, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ blast_database, fake_bsp, other_returns, 0, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ message, mask_loc); ~~~~~~~~~~~~~~~~~~ gcc -g -o taxblast -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from taxblast_main.c:35: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ taxblast_main.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: taxblast_main.c,v"; ^~~~~ gcc -g -o idfetch -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF idfetch.c -lncbiid1 -lncbiobj -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from idfetch.c:30: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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); ^~~ gcc -o bl2seq -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from bl2seq.c:296: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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)); ^~~~~~~~~~~~~~~~~~~~~ bl2seq.c:1:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=] static char const rcsid[] = "$Id: bl2seq.c,v 6.89 2009/05/27 19:29:17 camacho Exp $"; ^~~~~ gcc -g -o asn2gb -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF asn2gb.c -lncbitool -lncbiobj -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from asn2gb.c:41: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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); ^~~~~~~~~~~~~ At top level: asn2gb.c:1290:13: warning: ‘CheckOrder’ defined but not used [-Wunused-function] static void CheckOrder ( ^~~~~~~~~~ asn2gb.c:967:13: warning: ‘FreeUnpubAffil’ defined but not used [-Wunused-function] static void FreeUnpubAffil ( ^~~~~~~~~~~~~~ asn2gb.c: In function ‘Nlm_Main’: asn2gb.c:1824:9: 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF tbl2asn.c -lncbitool -lncbiobj -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from tbl2asn.c:51: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF gene2xml.c -lncbiobj -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from gene2xml.c:41: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF entrez2.c -lncbidesk \ -lncbiobj -lvibrant -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from entrez2.c:49: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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"; ^~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF gbseqget.c -lncbiobj -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from gbseqget.c:41: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -g -o asn2all -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF asn2all.c ncbithr.o -lncbiobj -lncbi \ -lpthread In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from asn2all.c:41: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF asn2asn.c -lncbiobj -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/asn.h:54, from ../include/objsset.h:48, from ../include/sequtil.h:43, from ../include/seqport.h:47, from asn2asn.c:17: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -g -o asn2fsa -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from asn2fsa.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from asndisc.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from asnmacro.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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)); ^~~~~~~~~~~~~~~ asnmacro.c:147:20: warning: ‘GlobalAlign2Seq’ defined but not used [-Wunused-function] static SeqAlignPtr GlobalAlign2Seq (BioseqPtr bsp1, BioseqPtr bsp2, BoolPtr revcomp) ^~~~~~~~~~~~~~~ In file included from asnmacro.c:57:0: ../include/asnmacro.h:1327:21: warning: ‘amp’ defined but not used [-Wunused-variable] static AsnModulePtr amp = ampx; ^~~ ../include/asnmacro.h:1326:19: warning: ‘at’ defined but not used [-Wunused-variable] static AsnTypePtr at = atx; ^~ ../include/asnmacro.h:1325:23: warning: ‘avn’ defined but not used [-Wunused-variable] static AsnValxNodePtr avn = avnx; ^~~ ../include/asnmacro.h:12:15: warning: ‘asnfilename’ defined but not used [-Wunused-variable] static char * asnfilename = "asnmacro.h11"; ^~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF asnval.c ncbithr.o -lncbiobj -lncbi \ -lpthread In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from asnval.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF cleanasn.c -lncbitool -lncbiobj -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from cleanasn.c:45: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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: 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); ^~~~~~~~~~~~~ At top level: cleanasn.c:9952:13: warning: ‘AccessionToGi’ defined but not used [-Wunused-function] static Int4 AccessionToGi (CharPtr string) ^~~~~~~~~~~~~ cleanasn.c:9911:16: warning: ‘PvtStrToLong’ defined but not used [-Wunused-function] static Boolean PvtStrToLong (CharPtr str, Int4Ptr longval) ^~~~~~~~~~~~ cleanasn.c:7647:13: warning: ‘DoUnpublishedReport’ defined but not used [-Wunused-function] static void DoUnpublishedReport ( ^~~~~~~~~~~~~~~~~~~ cleanasn.c:6613:19: warning: ‘DuplicateStringList’ defined but not used [-Wunused-function] static ValNodePtr DuplicateStringList ( ^~~~~~~~~~~~~~~~~~~ cleanasn.c:4116:13: warning: ‘FindOneCds’ defined but not used [-Wunused-function] static void FindOneCds ( ^~~~~~~~~~ cleanasn.c:4096:13: warning: ‘PrintSegSeqTitleAfter’ defined but not used [-Wunused-function] static void PrintSegSeqTitleAfter ( ^~~~~~~~~~~~~~~~~~~~~ cleanasn.c:4076:13: warning: ‘PrintSegSeqTitleBefore’ defined but not used [-Wunused-function] static void PrintSegSeqTitleBefore ( ^~~~~~~~~~~~~~~~~~~~~~ cleanasn.c:4063:13: warning: ‘PrintPartsTitle’ defined but not used [-Wunused-function] static void PrintPartsTitle ( ^~~~~~~~~~~~~~~ cleanasn.c:3905:13: warning: ‘CountParts’ defined but not used [-Wunused-function] static void CountParts ( ^~~~~~~~~~ cleanasn.c:3854:13: warning: ‘NormalizeSegSetTitle’ defined but not used [-Wunused-function] static void NormalizeSegSetTitle ( ^~~~~~~~~~~~~~~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF insdseqget.c -lncbiobj -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from insdseqget.c:41: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -g -o nps2gps -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF nps2gps.c -lncbitool -lncbiobj -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from nps2gps.c:41: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~ At top level: nps2gps.c:584:17: warning: ‘MakeIdFromLocusTag’ defined but not used [-Wunused-function] static SeqIdPtr MakeIdFromLocusTag ( ^~~~~~~~~~~~~~~~~~ gcc -o spidey -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from spideymain.c:79: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF trna2sap.c -lncbiobj -lncbi In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from trna2sap.c:41: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" cn3dmain.c In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from cn3dmain.c:210: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ 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; ^~~~~~~~~~~~~~ At top level: cn3dmain.c:246:25: warning: ‘seqedprocs’ defined but not used [-Wunused-variable] static SeqEditViewProcs seqedprocs; ^~~~~~~~~~ gcc -c -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -I../include -DWIN_MOTIF -DNETENTREZVERSION="\"2.02c2ASN1SPEC6 \"" -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -I../include -L../shlib -DWIN_MOTIF netentcf.c -o netentcf In file included from /usr/include/s390x-linux-gnu/sys/types.h:25:0, from ../include/ncbilcl.h:150, from ../include/ncbi.h:57, from ../include/vibtypes.h:94, from ../include/vibrant.h:124, from netentcf.c:41: /usr/include/features.h:148:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp] # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" ^~~~~~~ gcc -o Cn3D -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_DATE='"Aug 12 2016"' -DBUILD_TIME='"20:29:37"' -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 '/<>/build' make[1]: Leaving directory '/<>' dh_auto_test -a fakeroot debian/rules binary-arch dh binary-arch dh_testroot -a dh_prep -a debian/rules override_dh_auto_install-arch make[1]: Entering directory '/<>' install -d debian/tmp/usr/lib/s390x-linux-gnu install -m 644 lib/* shlib/*.so.6.1.20120620 debian/tmp/usr/lib/s390x-linux-gnu for x in ncbiacc ncbiCacc netentr; do \ rm -f debian/tmp/usr/lib/s390x-linux-gnu/lib$x.so.6.1.20120620 && \ ln -s libncbiNacc.so.6 \ debian/tmp/usr/lib/s390x-linux-gnu/lib$x.so.6 && \ ln -s libncbiNacc.so debian/tmp/usr/lib/s390x-linux-gnu/lib$x.so; \ done for x in ncbicn3d vibrant; do \ rm -f debian/tmp/usr/lib/s390x-linux-gnu/lib$x.so.6.1.20120620 && \ ln -s lib${x}OGL.so.6 \ debian/tmp/usr/lib/s390x-linux-gnu/lib$x.so.6 && \ ln -s lib${x}OGL.so debian/tmp/usr/lib/s390x-linux-gnu/lib$x.so; \ done rm -f debian/tmp/usr/lib/s390x-linux-gnu/libregexp.* cd debian/tmp/usr/lib/s390x-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 '/<>' dh_install -a debian/rules override_dh_installdocs-arch make[1]: Entering directory '/<>' 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 '/<>' debian/rules override_dh_installchangelogs make[1]: Entering directory '/<>' dh_installchangelogs -k README make[1]: Leaving directory '/<>' dh_installexamples -a debian/rules override_dh_installman make[1]: Entering directory '/<>' 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 dh_installman make[1]: Leaving directory '/<>' debian/rules override_dh_installmenu-arch make[1]: Entering directory '/<>' 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 '/<>' dh_installmime -a dh_lintian -a dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a debian/rules override_dh_strip-arch make[1]: Entering directory '/<>' 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 s390x: 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: ‘/<>/debian/libncbi6-dbgsym’: No such file or directory 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 s390x: 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: ‘/<>/debian/libvibrant6b-dbgsym’: No such file or directory 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 s390x: 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: ‘/<>/debian/libncbi6-dev-dbgsym’: No such file or directory 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: ‘/<>/debian/ncbi-tools-bin-dbgsym’: No such file or directory 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: ‘/<>/debian/ncbi-tools-x11-dbgsym’: No such file or directory 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: ‘/<>/debian/blast2-dbgsym’: No such file or directory 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: ‘/<>/debian/libvibrant6-dev-dbgsym’: No such file or directory 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 '/<>' dh_makeshlibs -a dh_shlibdeps -a dh_installdeb -a debian/rules override_dh_gencontrol-arch make[1]: Entering directory '/<>' dh_gencontrol -pblast2 -- -v1:2.2.26.20120620-11 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 s390x: 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_2.2.26.20120620-11_s390x.ddeb dpkg-deb: building package 'blast2-dbgsym' in '../blast2-dbgsym_2.2.26.20120620-11_s390x.ddeb'. dh_gencontrol debug symbol wrapper: dpkg-distaddfile blast2-dbgsym_2.2.26.20120620-11_s390x.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 s390x: 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_6.1.20120620-11_s390x.ddeb dpkg-deb: building package 'libncbi6-dbgsym' in '../libncbi6-dbgsym_6.1.20120620-11_s390x.ddeb'. dh_gencontrol debug symbol wrapper: dpkg-distaddfile libncbi6-dbgsym_6.1.20120620-11_s390x.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_6.1.20120620-11_s390x.ddeb dpkg-deb: building package 'libncbi6-dev-dbgsym' in '../libncbi6-dev-dbgsym_6.1.20120620-11_s390x.ddeb'. dh_gencontrol debug symbol wrapper: dpkg-distaddfile libncbi6-dev-dbgsym_6.1.20120620-11_s390x.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_6.1.20120620-11_s390x.ddeb dpkg-deb: building package 'ncbi-tools-bin-dbgsym' in '../ncbi-tools-bin-dbgsym_6.1.20120620-11_s390x.ddeb'. dh_gencontrol debug symbol wrapper: dpkg-distaddfile ncbi-tools-bin-dbgsym_6.1.20120620-11_s390x.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_6.1.20120620-11_s390x.ddeb dpkg-deb: building package 'ncbi-tools-x11-dbgsym' in '../ncbi-tools-x11-dbgsym_6.1.20120620-11_s390x.ddeb'. dh_gencontrol debug symbol wrapper: dpkg-distaddfile ncbi-tools-x11-dbgsym_6.1.20120620-11_s390x.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_6.1.20120620-11_s390x.ddeb dpkg-deb: building package 'libvibrant6b-dbgsym' in '../libvibrant6b-dbgsym_6.1.20120620-11_s390x.ddeb'. dh_gencontrol debug symbol wrapper: dpkg-distaddfile libvibrant6b-dbgsym_6.1.20120620-11_s390x.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_6.1.20120620-11_s390x.ddeb dpkg-deb: building package 'libvibrant6-dev-dbgsym' in '../libvibrant6-dev-dbgsym_6.1.20120620-11_s390x.ddeb'. dh_gencontrol debug symbol wrapper: dpkg-distaddfile libvibrant6-dev-dbgsym_6.1.20120620-11_s390x.ddeb libdevel extra dpkg-distaddfile: warning: File::FcntlLock not available; using flock which is not NFS-safe make[1]: Leaving directory '/<>' dh_md5sums -a debian/rules override_dh_builddeb make[1]: Entering directory '/<>' dh_builddeb -pncbi-rrna-data -- -Zxz -z7 -Sextreme dh_builddeb: No packages to build. dh_builddeb -Nncbi-rrna-data INFO: pkgstriptranslations version 130 INFO: pkgstriptranslations version 130 INFO: pkgstriptranslations version 130 INFO: pkgstriptranslations version 130 pkgstriptranslations: processing libncbi6-dev (in debian/libncbi6-dev); do_strip: , oemstrip: pkgstriptranslations: processing libncbi6 (in debian/libncbi6); do_strip: , oemstrip: pkgstriptranslations: processing ncbi-tools-bin (in debian/ncbi-tools-bin); do_strip: , oemstrip: pkgstriptranslations: processing libncbi6-dbg (in debian/libncbi6-dbg); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/libncbi6/DEBIAN/control, package libncbi6, directory debian/libncbi6 .. removing usr/share/doc/libncbi6/changelog.gz pkgstripfiles: processing control file: debian/libncbi6-dev/DEBIAN/control, package libncbi6-dev, directory debian/libncbi6-dev pkgstripfiles: Truncating usr/share/doc/libncbi6/changelog.Debian.gz to topmost ten records .. removing usr/share/doc/libncbi6-dev/changelog.gz pkgstripfiles: Running PNG optimization (using 4 cpus) for package libncbi6 ... Searching for duplicated docs in dependency libncbi6... pkgstripfiles: No PNG files. dpkg-deb: building package 'libncbi6' in '../libncbi6_6.1.20120620-11_s390x.deb'. symlinking changelog.Debian.gz in libncbi6-dev to file in libncbi6 pkgstripfiles: processing control file: debian/ncbi-tools-bin/DEBIAN/control, package ncbi-tools-bin, directory debian/ncbi-tools-bin pkgstripfiles: Running PNG optimization (using 4 cpus) for package libncbi6-dev ... .. removing usr/share/doc/ncbi-tools-bin/changelog.gz pkgstripfiles: No PNG files. INFO: pkgstripfiles: waiting for lock (ncbi-tools-bin) ... dpkg-deb: building package 'libncbi6-dev' in '../libncbi6-dev_6.1.20120620-11_s390x.deb'. INFO: pkgstripfiles: waiting for lock (ncbi-tools-bin) ... INFO: pkgstripfiles: waiting for lock (ncbi-tools-bin) ... INFO: pkgstripfiles: waiting for lock (ncbi-tools-bin) ... INFO: pkgstripfiles: waiting for lock (ncbi-tools-bin) ... pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/libncbi6-dbg/DEBIAN/control, package libncbi6-dbg, directory debian/libncbi6-dbg .. removing usr/share/doc/libncbi6-dbg/changelog.gz Searching for duplicated docs in dependency libncbi6... symlinking changelog.Debian.gz in libncbi6-dbg to file in libncbi6 pkgstripfiles: Running PNG optimization (using 4 cpus) for package libncbi6-dbg ... pkgstripfiles: No PNG files. dpkg-deb: building package 'libncbi6-dbg' in '../libncbi6-dbg_6.1.20120620-11_s390x.deb'. 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... 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_6.1.20120620-11_s390x.deb'. INFO: pkgstriptranslations version 130 pkgstriptranslations: processing ncbi-tools-x11 (in debian/ncbi-tools-x11); do_strip: , oemstrip: debian/ncbi-tools-x11/usr/share/applications/udv.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/sbtedit.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 debian/ncbi-tools-x11/usr/share/applications/Psequin.desktop: does not have gettext domain, not stripping debian/ncbi-tools-x11/usr/share/applications/entrez2.desktop: does not have gettext domain, not stripping INFO: pkgstriptranslations version 130 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 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... pkgstripfiles: processing control file: debian/blast2/DEBIAN/control, package blast2, directory debian/blast2 .. removing usr/share/doc/blast2/changelog.gz Searching for duplicated docs in dependency libvibrant6b... INFO: pkgstripfiles: waiting for lock (blast2) ... Searching for duplicated docs in dependency libvibrant6b... pkgstripfiles: Running PNG optimization (using 4 cpus) for package ncbi-tools-x11 ... Searching for duplicated docs in dependency libncbi6... symlinking changelog.Debian.gz in blast2 to file in libncbi6 Searching for duplicated docs in dependency libncbi6... pkgstripfiles: Running PNG optimization (using 4 cpus) for package blast2 ... pkgstripfiles: No PNG files. dpkg-deb: building package 'blast2' in '../blast2_2.2.26.20120620-11_s390x.deb'. INFO: pkgstriptranslations version 130 INFO: pkgstriptranslations version 130 pkgstriptranslations: processing libvibrant6b (in debian/libvibrant6b); do_strip: , oemstrip: pkgstriptranslations: processing libvibrant6-dev (in debian/libvibrant6-dev); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/libvibrant6b/DEBIAN/control, package libvibrant6b, directory debian/libvibrant6b .. removing usr/share/doc/libvibrant6b/changelog.gz Searching for duplicated docs in dependency libncbi6... symlinking changelog.Debian.gz in libvibrant6b to file in libncbi6 Searching for duplicated docs in dependency libncbi6... pkgstripfiles: Running PNG optimization (using 4 cpus) for package libvibrant6b ... pkgstripfiles: processing control file: debian/libvibrant6-dev/DEBIAN/control, package libvibrant6-dev, directory debian/libvibrant6-dev .. removing usr/share/doc/libvibrant6-dev/changelog.gz pkgstripfiles: No PNG files. dpkg-deb: building package 'libvibrant6b' in '../libvibrant6b_6.1.20120620-11_s390x.deb'. 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... pkgstripfiles: Running PNG optimization (using 4 cpus) for package libvibrant6-dev ... pkgstripfiles: No PNG files. dpkg-deb: building package 'libvibrant6-dev' in '../libvibrant6-dev_6.1.20120620-11_s390x.deb'. INFO: pkgstriptranslations version 130 pkgstriptranslations: processing libvibrant6b-dbg (in debian/libvibrant6b-dbg); do_strip: , oemstrip: opkgmaintainermangler: 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 Searching for duplicated docs in dependency libvibrant6b... symlinking changelog.Debian.gz in libvibrant6b-dbg to file in libncbi6 pkgstripfiles: Running PNG optimization (using 4 cpus) for package libvibrant6b-dbg ... pkgstripfiles: No PNG files. dpkg-deb: building package 'libvibrant6b-dbg' in '../libvibrant6b-dbg_6.1.20120620-11_s390x.deb'. oooooooooooooooooooooooo pkgstripfiles: PNG optimization (25/0) for package ncbi-tools-x11 took 95 s dpkg-deb: building package 'ncbi-tools-x11' in '../ncbi-tools-x11_6.1.20120620-11_s390x.deb'. make[1]: Leaving directory '/<>' dpkg-genchanges --build=any -mLaunchpad Build Daemon >../ncbi-tools6_6.1.20120620-11_s390x.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build ncbi-tools6-6.1.20120620 dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 20160813-1137 Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ ncbi-tools6_6.1.20120620-11_s390x.changes: ------------------------------------------ Format: 1.8 Date: Fri, 12 Aug 2016 20:29:37 +0000 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: s390x Version: 6.1.20120620-11 Distribution: yakkety-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Sascha Steinbiss 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) Closes: 834139 Changes: ncbi-tools6 (6.1.20120620-11) unstable; urgency=medium . * Team upload. * Add support for SOURCE_DATE_EPOCH, making packages building BLAST indexes reproducible (Closes: #834139) Checksums-Sha1: c773ecf3ac59d30610a6ab34071e1c745a1505a3 996 blast2-dbgsym_2.2.26.20120620-11_s390x.ddeb a02788c8cd3a278a7a81e13435d67ca27a2ac897 511332 blast2_2.2.26.20120620-11_s390x.deb 43c1b881dabf7dc32505cc26846981e26fb14be4 9064270 libncbi6-dbg_6.1.20120620-11_s390x.deb d6fa606dceccf49f15be334fdcdb665b7aa4c802 932 libncbi6-dbgsym_6.1.20120620-11_s390x.ddeb 049b4b105088bc2ddb04aad5ed745ede0b68e7d4 870 libncbi6-dev-dbgsym_6.1.20120620-11_s390x.ddeb aaafae1b9a442c13a60a2467003d1dd84da29364 4837622 libncbi6-dev_6.1.20120620-11_s390x.deb 987de0d4f7da65c78f54c4b78221939e6ab3e964 3474398 libncbi6_6.1.20120620-11_s390x.deb f65cfa41f45e1ddc07cedbad8574d481b8c6bf57 864 libvibrant6-dev-dbgsym_6.1.20120620-11_s390x.ddeb 04a15dc72a4a6180258e17a250ecdb277ac87e2e 1411674 libvibrant6-dev_6.1.20120620-11_s390x.deb 64e475603267eabe7fab0b4520b0239270911a3e 3660592 libvibrant6b-dbg_6.1.20120620-11_s390x.deb 8740a2db0c1f89928df4a90ee1a5ce2f6ec18457 902 libvibrant6b-dbgsym_6.1.20120620-11_s390x.ddeb debc8546501b2d55e8c1fee231ac2da1c3763166 1116522 libvibrant6b_6.1.20120620-11_s390x.deb a253f308e383a23862b3f0310250638ad7a82a7d 978 ncbi-tools-bin-dbgsym_6.1.20120620-11_s390x.ddeb 3aa3aaa63569828b565df5ba617d4dd466c86e51 440004 ncbi-tools-bin_6.1.20120620-11_s390x.deb 1f2c841fbf6058cdab7837bce99f3e96936360ff 942 ncbi-tools-x11-dbgsym_6.1.20120620-11_s390x.ddeb 32f882a8ab658744e989ac33e3ec548f64cc669b 935056 ncbi-tools-x11_6.1.20120620-11_s390x.deb Checksums-Sha256: c36c3fe8f3ab86b52bb1c43c8a901f95ed514ae028152e6d82c7285e0ee85426 996 blast2-dbgsym_2.2.26.20120620-11_s390x.ddeb c268dbb55c4144dd3994e36326e596f19b82532f71cf3fd9c9148bf036e0f862 511332 blast2_2.2.26.20120620-11_s390x.deb 19e0351df3812948694b0ff48efc4e9e31b0cc652bd59408b411d15da00ab65e 9064270 libncbi6-dbg_6.1.20120620-11_s390x.deb b2e76f97f36c58c8fa6d363ad868a5a90620fae57edb0be8628f7a4c3776e1c5 932 libncbi6-dbgsym_6.1.20120620-11_s390x.ddeb bd735e82e202f1bc8f0250c8da6993521d331bda3d2240913077fca4796a92cd 870 libncbi6-dev-dbgsym_6.1.20120620-11_s390x.ddeb 6de4cc93ee1c8fc5e4a87da0889258b9358e4eb37b52bcbc0a1e9713d6deeaec 4837622 libncbi6-dev_6.1.20120620-11_s390x.deb d100dccff6aa0a25c296568a387b6f795dec60cf68492ff289fd40070ec09c1c 3474398 libncbi6_6.1.20120620-11_s390x.deb a041472ccbe2c0ed77c1922138b8f0e2ad94c04eedca555e3ce1928d8af0aa9d 864 libvibrant6-dev-dbgsym_6.1.20120620-11_s390x.ddeb dc3a52f0ce0f00cff6a5d1506b0d916cf1436a02ca87616e6e96bdbfc44c0c41 1411674 libvibrant6-dev_6.1.20120620-11_s390x.deb 199bd632d923b151d34e121c684e243cb33ed83ce3460afdc1b01c891594d7a0 3660592 libvibrant6b-dbg_6.1.20120620-11_s390x.deb acfd94bfb9705687c850d421ea9f30ba2df545922654b98e48af1d522b562bcc 902 libvibrant6b-dbgsym_6.1.20120620-11_s390x.ddeb f23f61bd6d339139e17504b2468ebc595d60f417f01556d1f6086423f3ba393f 1116522 libvibrant6b_6.1.20120620-11_s390x.deb 0e1791aeb8f8566dd650e6c534ab1dfd248fcbdf6b583b8db2b0b712451f610a 978 ncbi-tools-bin-dbgsym_6.1.20120620-11_s390x.ddeb 5fd025480aafa7706e8899b5fdf013dd9b15d924b6a6b9d67a500b3c24dec946 440004 ncbi-tools-bin_6.1.20120620-11_s390x.deb ac438adeff63611003f4ef74c0c3e60cd958fe1c874ffa84b5754ee72733526d 942 ncbi-tools-x11-dbgsym_6.1.20120620-11_s390x.ddeb 4dc195a37d35a1e032568dd9a70fe42d0b1280b001b1ff95c879d6b5bd46a2ad 935056 ncbi-tools-x11_6.1.20120620-11_s390x.deb Files: 3b6bc09194da59695c21808acabb6fb7 996 science extra blast2-dbgsym_2.2.26.20120620-11_s390x.ddeb 1f74d5773658f4e79bd977649c14a590 511332 science optional blast2_2.2.26.20120620-11_s390x.deb 378eefaaa9debfeaf6a06b62ce7e4e7d 9064270 debug extra libncbi6-dbg_6.1.20120620-11_s390x.deb d26434e15bcdac43c784688ff16cf626 932 libs extra libncbi6-dbgsym_6.1.20120620-11_s390x.ddeb 9a427cb079db6e97151f78f9694a3cf8 870 libdevel extra libncbi6-dev-dbgsym_6.1.20120620-11_s390x.ddeb 28bfa3d3f622f2f3627a2fce932573d1 4837622 libdevel optional libncbi6-dev_6.1.20120620-11_s390x.deb bcb91fd7a84c283627a78da7c6f26a5c 3474398 libs optional libncbi6_6.1.20120620-11_s390x.deb e548c985e8270b382b9d8f2969ba1283 864 libdevel extra libvibrant6-dev-dbgsym_6.1.20120620-11_s390x.ddeb ae81cf53e45a631db71d667410f57226 1411674 libdevel optional libvibrant6-dev_6.1.20120620-11_s390x.deb d915552bc5dcd37e439846e37d186a39 3660592 debug extra libvibrant6b-dbg_6.1.20120620-11_s390x.deb 7663c2d0b506c1cfca410eb11e581bef 902 libs extra libvibrant6b-dbgsym_6.1.20120620-11_s390x.ddeb 81ab4d7633566250bdf26ac78f300f9d 1116522 libs optional libvibrant6b_6.1.20120620-11_s390x.deb e176828e0c78bf512a4cbaf149de37aa 978 science extra ncbi-tools-bin-dbgsym_6.1.20120620-11_s390x.ddeb b843c60e9b58faadc9cedbaff5b247fc 440004 science optional ncbi-tools-bin_6.1.20120620-11_s390x.deb f8276b31ff1f11ecdea54227a1bce055 942 science extra ncbi-tools-x11-dbgsym_6.1.20120620-11_s390x.ddeb f9c97d97ddb5991d78ae175f8bf0b3d3 935056 science optional ncbi-tools-x11_6.1.20120620-11_s390x.deb +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ blast2_2.2.26.20120620-11_s390x.deb ----------------------------------- new debian package, version 2.0. size 511332 bytes: control archive=2303 bytes. 949 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 (6.1.20120620-11) Version: 1:2.2.26.20120620-11 Architecture: s390x Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 1309 Depends: libncbi6 (<< 6.1.20120620.1), libncbi6 (>= 6.1.20120620), libc6 (>= 2.7) 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 2016-08-12 20:29 ./ drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/ drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/bin/ -rwxr-xr-x root/root 32312 2016-08-12 20:29 ./usr/bin/bl2seq -rwxr-xr-x root/root 45816 2016-08-12 20:29 ./usr/bin/blast2 -rwxr-xr-x root/root 70264 2016-08-12 20:29 ./usr/bin/blastall -rwxr-xr-x root/root 57912 2016-08-12 20:29 ./usr/bin/blastall_old -rwxr-xr-x root/root 53752 2016-08-12 20:29 ./usr/bin/blastcl3 -rwxr-xr-x root/root 43896 2016-08-12 20:29 ./usr/bin/blastclust -rwxr-xr-x root/root 58040 2016-08-12 20:29 ./usr/bin/blastpgp -rwxr-xr-x root/root 18616 2016-08-12 20:29 ./usr/bin/copymat -rwxr-xr-x root/root 11064 2016-08-12 20:29 ./usr/bin/fastacmd -rwxr-xr-x root/root 23416 2016-08-12 20:29 ./usr/bin/formatdb -rwxr-xr-x root/root 27256 2016-08-12 20:29 ./usr/bin/formatrpsdb -rwxr-xr-x root/root 36088 2016-08-12 20:29 ./usr/bin/impala -rwxr-xr-x root/root 18808 2016-08-12 20:29 ./usr/bin/makemat -rwxr-xr-x root/root 61944 2016-08-12 20:29 ./usr/bin/megablast -rwxr-xr-x root/root 36216 2016-08-12 20:29 ./usr/bin/rpsblast -rwxr-xr-x root/root 36024 2016-08-12 20:29 ./usr/bin/seedtop -rwxr-xr-x root/root 10360 2016-08-12 20:29 ./usr/bin/taxblast drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/share/ drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/share/doc-base/ -rw-r--r-- root/root 616 2016-08-12 20:29 ./usr/share/doc-base/blast2 drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/share/doc/ drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/share/doc/blast2/ lrwxrwxrwx root/root 0 2016-08-12 20:29 ./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 2016-08-12 20:29 ./usr/share/doc/blast2/changelog.Debian.gz -> ../libncbi6/changelog.Debian.gz -rw-r--r-- root/root 1623 2016-08-12 20:29 ./usr/share/doc/blast2/copyright drwxr-xr-x root/root 0 2016-08-12 20:29 ./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 14:04 ./usr/share/doc/blast2/history.html -rw-r--r-- root/root 7065 2004-05-17 15:07 ./usr/share/doc/blast2/impala.html -rw-r--r-- root/root 4065 2005-09-07 14:02 ./usr/share/doc/blast2/index.html -rw-r--r-- root/root 11256 2004-07-02 14:41 ./usr/share/doc/blast2/megablast.html -rw-r--r-- root/root 53064 2006-03-02 15:40 ./usr/share/doc/blast2/netblast.html -rw-r--r-- root/root 9739 2004-05-17 15:07 ./usr/share/doc/blast2/rpsblast.html -rw-r--r-- root/root 309857 2006-04-07 13:58 ./usr/share/doc/blast2/scoring.pdf.gz -rw-r--r-- root/root 28065 2006-03-02 15:40 ./usr/share/doc/blast2/seedtop.html drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/share/lintian/ drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 57 2016-08-12 20:29 ./usr/share/lintian/overrides/blast2 drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/share/man/ drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/share/man/man1/ lrwxrwxrwx root/root 0 2016-08-12 20:29 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Depends: libncbi6 (= 6.1.20120620-11) 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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./usr/share/doc/libncbi6-dbg/ lrwxrwxrwx root/root 0 2016-08-12 20:29 ./usr/share/doc/libncbi6-dbg/README.gz -> changelog.gz lrwxrwxrwx root/root 0 2016-08-12 20:29 ./usr/share/doc/libncbi6-dbg/changelog.Debian.gz -> ../libncbi6/changelog.Debian.gz -rw-r--r-- root/root 1623 2016-08-12 20:29 ./usr/share/doc/libncbi6-dbg/copyright libncbi6-dev_6.1.20120620-11_s390x.deb -------------------------------------- new debian package, version 2.0. size 4837622 bytes: control archive=13997 bytes. 666 bytes, 17 lines control 33648 bytes, 501 lines md5sums Package: libncbi6-dev Source: ncbi-tools6 Version: 6.1.20120620-11 Architecture: s390x Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 25490 Depends: libncbi6 (= 6.1.20120620-11) Recommends: ncbi-tools-bin Provides: ncbi-tools-dev Section: libdevel Priority: optional Multi-Arch: same Homepage: http://www.ncbi.nlm.nih.gov/IEB/ToolBox/ Description: NCBI libraries for biology applications (development 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 2016-08-12 20:29 ./ drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/ drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/include/ drwxr-xr-x root/root 0 2016-08-12 20:29 ./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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root/root 1623 2016-08-12 20:29 ./usr/share/doc/libncbi6-dev/copyright -rw-r--r-- root/root 367300 2009-02-23 19:30 ./usr/share/doc/libncbi6-dev/sdk.doc.gz libncbi6_6.1.20120620-11_s390x.deb ---------------------------------- new debian package, version 2.0. size 3474398 bytes: control archive=72801 bytes. 707 bytes, 16 lines control 2073 bytes, 26 lines md5sums 334 bytes, 15 lines shlibs 424797 bytes, 11219 lines symbols 60 bytes, 2 lines triggers Package: libncbi6 Source: ncbi-tools6 Version: 6.1.20120620-11 Architecture: s390x Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 12880 Depends: ncbi-data (= 6.1.20120620-11), libc6 (>= 2.15) Section: libs Priority: optional Multi-Arch: same Homepage: http://www.ncbi.nlm.nih.gov/IEB/ToolBox/ Description: NCBI libraries for biology applications The NCBI Software Development Toolkit was developed for the production and distribution of GenBank, Entrez, BLAST, and related services by NCBI. 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./usr/share/doc/libncbi6/examples/fwd_check.sh -rw-r--r-- root/root 5529 2001-12-12 20:36 ./usr/share/doc/libncbi6/ncbixml.txt.gz libvibrant6-dev_6.1.20120620-11_s390x.deb ----------------------------------------- new debian package, version 2.0. size 1411674 bytes: control archive=4090 bytes. 696 bytes, 15 lines control 7440 bytes, 120 lines md5sums 337 bytes, 13 lines * postinst #!/bin/sh Package: libvibrant6-dev Source: ncbi-tools6 Version: 6.1.20120620-11 Architecture: s390x Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 8641 Depends: libglu1-mesa-dev | libglu-dev, libmotif-dev, libncbi6-dev (= 6.1.20120620-11), libvibrant6b (= 6.1.20120620-11), libxmu-dev Section: libdevel Priority: optional Multi-Arch: same Homepage: http://www.ncbi.nlm.nih.gov/IEB/ToolBox/ Description: NCBI libraries for graphic biology applications (development files) Vibrant allows you to develop portable (Motif, MS-Windows, Mac-OS) graphic biological applications. 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./usr/include/ncbi/seqpanel.h -rw-r--r-- root/root 337 1997-08-25 18:24 ./usr/include/ncbi/seqpcc.h -rw-r--r-- root/root 951 1998-07-06 21:20 ./usr/include/ncbi/seqscrl.h -rw-r--r-- root/root 3740 2005-05-24 13:28 ./usr/include/ncbi/seqsub.h -rw-r--r-- root/root 15278 2000-07-28 21:05 ./usr/include/ncbi/shim3d.h -rw-r--r-- root/root 10669 2001-03-28 16:06 ./usr/include/ncbi/treeview.h -rw-r--r-- root/root 4375 1999-08-12 18:31 ./usr/include/ncbi/treevint.h -rw-r--r-- root/root 7897 2000-07-08 20:43 ./usr/include/ncbi/udvdef.h -rw-r--r-- root/root 27253 2006-07-13 17:13 ./usr/include/ncbi/udviewer.h -rw-r--r-- root/root 11321 2006-07-13 17:06 ./usr/include/ncbi/udvseq.h -rw-r--r-- root/root 5896 1998-09-16 17:46 ./usr/include/ncbi/urkgraph.h -rw-r--r-- root/root 2020 2009-04-10 15:46 ./usr/include/ncbi/valdlg.h -rw-r--r-- root/root 23354 2011-09-20 18:38 ./usr/include/ncbi/vibdefns.h -rw-r--r-- root/root 317 1997-10-09 21:02 ./usr/include/ncbi/vibfltr.h -rw-r--r-- root/root 23853 2011-09-20 18:41 ./usr/include/ncbi/vibforms.h -rw-r--r-- root/root 1616 1997-12-15 21:19 ./usr/include/ncbi/vibgraph.h -rw-r--r-- root/root 20306 2008-02-29 19:36 ./usr/include/ncbi/vibincld.h -rw-r--r-- root/root 2505 2006-12-13 17:26 ./usr/include/ncbi/vibmain.h -rw-r--r-- root/root 8697 2004-04-01 13:43 ./usr/include/ncbi/vibmouse.h -rw-r--r-- root/root 264 1997-10-01 13:30 ./usr/include/ncbi/vibpcc.h -rw-r--r-- root/root 49398 2011-09-20 18:38 ./usr/include/ncbi/vibprocs.h -rw-r--r-- root/root 5489 1999-05-06 21:23 ./usr/include/ncbi/vibrant.h -rw-r--r-- root/root 25957 2008-04-29 13:43 ./usr/include/ncbi/vibrgb.h -rw-r--r-- root/root 241 1997-09-29 17:36 ./usr/include/ncbi/vibtree.h -rw-r--r-- root/root 12888 1998-03-22 03:01 ./usr/include/ncbi/vibtypes.h -rw-r--r-- root/root 7758 2002-03-20 22:10 ./usr/include/ncbi/viewer.h -rw-r--r-- root/root 15567 2000-01-11 01:16 ./usr/include/ncbi/viewer3d.h -rw-r--r-- root/root 3373 1997-11-19 17:38 ./usr/include/ncbi/viewerp.h -rw-r--r-- root/root 4721 2007-10-18 15:18 ./usr/include/ncbi/vsm.h -rw-r--r-- root/root 3664 2010-01-22 16:26 ./usr/include/ncbi/vsmfile.h -rw-r--r-- root/root 4127 2006-07-13 17:13 ./usr/include/ncbi/vsmpriv.h -rw-r--r-- root/root 6743 2011-10-05 14:46 ./usr/include/ncbi/vsmutil.h drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/lib/ drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/lib/s390x-linux-gnu/ -rw-r--r-- root/root 171252 2016-08-12 20:29 ./usr/lib/s390x-linux-gnu/libddvlib.a lrwxrwxrwx root/root 0 2016-08-12 20:29 ./usr/lib/s390x-linux-gnu/libddvlib.so -> libddvlib.so.6.1.20120620 -rw-r--r-- root/root 332164 2016-08-12 20:29 ./usr/lib/s390x-linux-gnu/libncbicn3d.a lrwxrwxrwx root/root 0 2016-08-12 20:29 ./usr/lib/s390x-linux-gnu/libncbicn3d.so -> libncbicn3dOGL.so -rw-r--r-- root/root 340380 2016-08-12 20:29 ./usr/lib/s390x-linux-gnu/libncbicn3dOGL.a lrwxrwxrwx root/root 0 2016-08-12 20:29 ./usr/lib/s390x-linux-gnu/libncbicn3dOGL.so -> libncbicn3dOGL.so.6.1.20120620 -rw-r--r-- root/root 4364644 2016-08-12 20:29 ./usr/lib/s390x-linux-gnu/libncbidesk.a lrwxrwxrwx root/root 0 2016-08-12 20:29 ./usr/lib/s390x-linux-gnu/libncbidesk.so -> libncbidesk.so.6.1.20120620 -rw-r--r-- root/root 194888 2016-08-12 20:29 ./usr/lib/s390x-linux-gnu/libvibgif.a lrwxrwxrwx root/root 0 2016-08-12 20:29 ./usr/lib/s390x-linux-gnu/libvibgif.so -> libvibgif.so.6.1.20120620 -rw-r--r-- root/root 193768 2016-08-12 20:29 ./usr/lib/s390x-linux-gnu/libvibnet.a lrwxrwxrwx root/root 0 2016-08-12 20:29 ./usr/lib/s390x-linux-gnu/libvibnet.so -> libvibnet.so.6.1.20120620 -rw-r--r-- root/root 1125912 2016-08-12 20:29 ./usr/lib/s390x-linux-gnu/libvibrant.a lrwxrwxrwx root/root 0 2016-08-12 20:29 ./usr/lib/s390x-linux-gnu/libvibrant.so -> libvibrantOGL.so -rw-r--r-- root/root 1193592 2016-08-12 20:29 ./usr/lib/s390x-linux-gnu/libvibrantOGL.a lrwxrwxrwx root/root 0 2016-08-12 20:29 ./usr/lib/s390x-linux-gnu/libvibrantOGL.so -> libvibrantOGL.so.6.1.20120620 drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/share/ drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/share/doc/ drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/share/doc/libvibrant6-dev/ lrwxrwxrwx root/root 0 2016-08-12 20:29 ./usr/share/doc/libvibrant6-dev/README.gz -> changelog.gz lrwxrwxrwx root/root 0 2016-08-12 20:29 ./usr/share/doc/libvibrant6-dev/changelog.Debian.gz -> ../libncbi6/changelog.Debian.gz -rw-r--r-- root/root 1623 2016-08-12 20:29 ./usr/share/doc/libvibrant6-dev/copyright libvibrant6b-dbg_6.1.20120620-11_s390x.deb ------------------------------------------ new debian package, version 2.0. size 3660592 bytes: control archive=1075 bytes. 1134 bytes, 23 lines control 605 bytes, 6 lines md5sums Package: libvibrant6b-dbg Source: ncbi-tools6 Version: 6.1.20120620-11 Architecture: s390x Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 3981 Depends: libvibrant6b (= 6.1.20120620-11) Recommends: gdb Suggests: libncbi6-dbg (= 6.1.20120620-11) 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: 5e234aaa56f8cd7a166c732d29ae83b4c59f7918 85a3ffa05e27e39f00f55ca7f13197fb08a4f914 bfdcd0042fed410453c10b5c89c0a4d000aa00f1 e784ea5d367af84c4cdbf733c7b1c38a768176d8 fefac8989d82602065f89597b38a95bab434b913 drwxr-xr-x root/root 0 2016-08-12 20:29 ./ drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/ drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/lib/ drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/lib/debug/ drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/lib/debug/.build-id/5e/ -rw-r--r-- root/root 141696 2016-08-12 20:29 ./usr/lib/debug/.build-id/5e/234aaa56f8cd7a166c732d29ae83b4c59f7918.debug drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/lib/debug/.build-id/85/ -rw-r--r-- root/root 153984 2016-08-12 20:29 ./usr/lib/debug/.build-id/85/a3ffa05e27e39f00f55ca7f13197fb08a4f914.debug drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/lib/debug/.build-id/bf/ -rw-r--r-- root/root 812896 2016-08-12 20:29 ./usr/lib/debug/.build-id/bf/dcd0042fed410453c10b5c89c0a4d000aa00f1.debug drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/lib/debug/.build-id/e7/ -rw-r--r-- root/root 2661880 2016-08-12 20:29 ./usr/lib/debug/.build-id/e7/84ea5d367af84c4cdbf733c7b1c38a768176d8.debug drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/lib/debug/.build-id/fe/ -rw-r--r-- root/root 252824 2016-08-12 20:29 ./usr/lib/debug/.build-id/fe/fac8989d82602065f89597b38a95bab434b913.debug drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/share/ drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/share/doc/ drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/share/doc/libvibrant6b-dbg/ lrwxrwxrwx root/root 0 2016-08-12 20:29 ./usr/share/doc/libvibrant6b-dbg/README.gz -> changelog.gz lrwxrwxrwx root/root 0 2016-08-12 20:29 ./usr/share/doc/libvibrant6b-dbg/changelog.Debian.gz -> ../libncbi6/changelog.Debian.gz -rw-r--r-- root/root 1623 2016-08-12 20:29 ./usr/share/doc/libvibrant6b-dbg/copyright libvibrant6b_6.1.20120620-11_s390x.deb -------------------------------------- new debian package, version 2.0. size 1116522 bytes: control archive=17318 bytes. 900 bytes, 18 lines control 577 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: 6.1.20120620-11 Architecture: s390x Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 3628 Depends: libncbi6 (<< 6.1.20120620.1), libncbi6 (>= 6.1.20120620), libc6 (>= 2.11), libgl1-mesa-glx | libgl1, libglu1-mesa | libglu1, libpng16-16 (>= 1.6.2-1), 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 2016-08-12 20:29 ./ drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/ drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/lib/ drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/lib/s390x-linux-gnu/ lrwxrwxrwx root/root 0 2016-08-12 20:29 ./usr/lib/s390x-linux-gnu/libddvlib.so.6 -> libddvlib.so.6.1.20120620 -rw-r--r-- root/root 120968 2016-08-12 20:29 ./usr/lib/s390x-linux-gnu/libddvlib.so.6.1.20120620 lrwxrwxrwx root/root 0 2016-08-12 20:29 ./usr/lib/s390x-linux-gnu/libncbicn3d.so.6 -> libncbicn3dOGL.so.6 lrwxrwxrwx root/root 0 2016-08-12 20:29 ./usr/lib/s390x-linux-gnu/libncbicn3dOGL.so.6 -> libncbicn3dOGL.so.6.1.20120620 -rw-r--r-- root/root 188152 2016-08-12 20:29 ./usr/lib/s390x-linux-gnu/libncbicn3dOGL.so.6.1.20120620 lrwxrwxrwx root/root 0 2016-08-12 20:29 ./usr/lib/s390x-linux-gnu/libncbidesk.so.6 -> libncbidesk.so.6.1.20120620 -rw-r--r-- root/root 2399640 2016-08-12 20:29 ./usr/lib/s390x-linux-gnu/libncbidesk.so.6.1.20120620 lrwxrwxrwx root/root 0 2016-08-12 20:29 ./usr/lib/s390x-linux-gnu/libvibnet.so.6 -> libvibnet.so.6.1.20120620 -rw-r--r-- root/root 126528 2016-08-12 20:29 ./usr/lib/s390x-linux-gnu/libvibnet.so.6.1.20120620 lrwxrwxrwx root/root 0 2016-08-12 20:29 ./usr/lib/s390x-linux-gnu/libvibrant.so.6 -> libvibrantOGL.so.6 lrwxrwxrwx root/root 0 2016-08-12 20:29 ./usr/lib/s390x-linux-gnu/libvibrantOGL.so.6 -> libvibrantOGL.so.6.1.20120620 -rw-r--r-- root/root 728568 2016-08-12 20:29 ./usr/lib/s390x-linux-gnu/libvibrantOGL.so.6.1.20120620 drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/share/ drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/share/doc/ drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/share/doc/libvibrant6b/ lrwxrwxrwx root/root 0 2016-08-12 20:29 ./usr/share/doc/libvibrant6b/README.gz -> changelog.gz lrwxrwxrwx root/root 0 2016-08-12 20:29 ./usr/share/doc/libvibrant6b/changelog.Debian.gz -> ../libncbi6/changelog.Debian.gz -rw-r--r-- root/root 1623 2016-08-12 20:29 ./usr/share/doc/libvibrant6b/copyright drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/share/lintian/ drwxr-xr-x root/root 0 2016-08-12 20:29 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 48 2016-08-12 20:29 ./usr/share/lintian/overrides/libvibrant6b ncbi-tools-bin_6.1.20120620-11_s390x.deb ---------------------------------------- new debian package, version 2.0. size 440004 bytes: control archive=3283 bytes. 1005 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: 6.1.20120620-11 Architecture: s390x Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 2199 Depends: libncbi6 (<< 6.1.20120620.1), libncbi6 (>= 6.1.20120620), libc6 (>= 2.7) 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. 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./usr/share/menu/ -rw-r--r-- root/root 6710 2016-08-12 20:29 ./usr/share/menu/ncbi-tools-bin ncbi-tools-x11_6.1.20120620-11_s390x.deb ---------------------------------------- new debian package, version 2.0. size 935056 bytes: control archive=2359 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: 6.1.20120620-11 Architecture: s390x Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 2972 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. 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./usr/share/man/man1/sbtedit.1.gz lrwxrwxrwx root/root 0 2016-08-12 20:29 ./usr/share/man/man1/sequin.1.gz -> Psequin.1.gz -rw-r--r-- root/root 289 2016-08-12 20:29 ./usr/share/man/man1/udv.1.gz +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Not removing build depends: as requested Keeping session: +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: s390x Build-Space: 931112 Build-Time: 792 Distribution: yakkety-proposed Host Architecture: s390x Install-Time: 58 Job: ncbi-tools6_6.1.20120620-11.dsc Machine Architecture: s390x Package: ncbi-tools6 Package-Time: 853 Source-Version: 6.1.20120620-11 Space: 931112 Status: successful Version: 6.1.20120620-11 -------------------------------------------------------------------------------- Finished at 20160813-1137 Build needed 00:14:13, 931112k disc space RUN: /usr/share/launchpad-buildd/slavebin/scan-for-processes ['scan-for-processes', 'PACKAGEBUILD-10609601'] Scanning for processes to kill in build /home/buildd/build-PACKAGEBUILD-10609601/chroot-autobuild... RUN: /usr/share/launchpad-buildd/slavebin/umount-chroot ['umount-chroot', 'PACKAGEBUILD-10609601'] Unmounting chroot for build PACKAGEBUILD-10609601... RUN: /usr/share/launchpad-buildd/slavebin/remove-build ['remove-build', 'PACKAGEBUILD-10609601'] Removing build PACKAGEBUILD-10609601